Curriculum Vitae
I. PERSONAL INFORMATION
Peter J. Bottomley, Professor of Microbiology and Professor of Soil Science
1.
Place of Birth: Nelson, England, U.K.
2.
Educational background: BSc. Chemistry, 1971; BSc. with Honors, Biochemistry, 1972,
University of Liverpool, England, U.K.; Ph.D. Biological Sciences, 1975, University of
Dundee, Dundee, Scotland, U.K.
3.
Positions Held
1975-77
NATO overseas post-doctoral fellowship, Port Aransas Marine Laboratory,
University of Texas at Austin Marine Science Institute, Port Aransas, Texas.
1977-79
Research Associate, Dept. of Microbiology, U.T. at Austin, Austin, Texas.
1979-84
Assistant Professor of Microbiology and Soil Science, Oregon State University,
Corvallis, OR.
1984-89
Associate Professor of Microbiology and Soil Science, Oregon State University,
Corvallis, OR.
1989-
Professor of Microbiology and Professor of Soil Science, Oregon State University,
Corvallis, OR.
2001-2003 Professor and Associate Chair/Head of Microbiology, and Professor of Soil Science,
Oregon State University, Corvallis, OR
2003-2004 Professor and Acting Chair/Head, Department of Microbiology, and Professor of Soil
Science, Oregon State University, Corvallis, OR
2004-
4.
Professor of Microbiology and Professor of Soil Science, Oregon State University,
Corvallis, OR
Awards
Savery Outstanding Young Faculty Award, 1986. College of Agricultural Sciences.
Oregon State University, Corvallis, OR.
Registry of Distinguished Teachers, 1987. College of Agricultural Sciences, Oregon State
University, Corvallis, OR.
Finalist 1988, Carter Award for Excellence in Graduate Teaching. College of Science,
Oregon State University, Corvallis, OR.
P. J. Bottomley
1
Curriculum Vitae
Earl Price Award for Excellence in Research, 1989. College of Agricultural Sciences,
Oregon State University, Corvallis, OR.
Visiting Distinguished Professor, 1990, Texas A & M University, College Station, TX.
Carter Award for Excellence in Graduate Teaching, 1990. College of Science, Oregon
State University, Corvallis, OR.
Fellow, American Society of Agronomy, 1996.
Students Top Teaching Award, 1998. College of Agricultural Sciences, Oregon
State University, Corvallis, OR.
Chair, 1997, 1998. Division of Soil Biology and Biochemistry, Soil Science
Society of America.
Carter Award Finalist for Excellence in Undergraduate Teaching, 1997. College of
Science, Oregon State University, Corvallis, OR.
Fellow, Soil Science Society of America, 1999.
Inaugural Recipient of Excellence in Graduate Mentoring Award, 2006, Oregon
State University, Corvallis, OR
Soil Science Research Award, 2007. Soil Science Society of America.
5.
Professional Societies
American Society for Microbiology
American Society of Agronomy
Soil Science Society of America
6.
Teaching and Related Scholarly Effort
(a)
Course #
MB 448
MB 449
Sls 407
MB 448
MB 449
P. J. Bottomley
Courses Taught
Course title
Quarter
Microbial Ecology
Micro. Ecol. Lab
Seminar
Microbial Ecology
Micro. Ecol. Lab
Winter '80
Winter '80
Fall '79
Fall '80
Fall '80
2
Mean
Teaching Evaluations
Enrollment
(Scale 0-4)
24
11
20
60
15
3.1
2.6
N.A.
3.1
3.4
Curriculum Vitae
MB 407
Sls 407
MB 448
MB 449
Sls 407
MB 446
MB 447
MB 448
MB 449
Sls 407
MB 446
MB 448
MB 449
MB 446
Sls 507
MB 407
MB 448
MB 449
MB 302
MB 448
MB 449
MB 407
MB 302
MB 448
MB 449
MB 302
Sem/Undergrad
Seminar
Microbial Ecology
Micro. Ecol. Lab
Seminar
Industrial Micro.
Indust. Micro. Lab
Microbial Ecology
Micro. Ecol. lab
Seminar
Industrial Micro.
Microbial Ecology
Micro. Ecol. Lab
Industrial Micro.
Seminar
Seminar
Microb. Ecol.
Microb. Ecol. Lab
General Micro.
Microb. Ecol.
Microb. Ecol. Lab
Seminar
General Micro.
Microb. Ecol.
Microb. Ecol. Lab.
General Micro.
Fall '80
Fall '80
Fall '81
Fall '81
Fall '81
Winter '82
Winter '82
Fall '82
Fall '82
Fall '82
Winter '83
Fall '83
Fall '83
Winter '84
Winter '84
Spring '84
Fall '84
Fall '84
Winter '85
Fall '85
Fall '85
Fall '85
Winter '86
Fall '86
Fall '86
Winter '87
MB 448
MB 449
MB 564
Microb. Ecol.
Microb. Ecol. Lab
Plant-Microbe
Interactions
Microb. Ecol.
Microb. Ecol. Lab
General Micro.
Microb. Ecol.
Microb. Ecol. Lab
Plant-Microbe
Interactions
Microb. Ecol.
Microb. Ecol. Lab
Microb. Ecol.
Microb. Ecol. Lab
Plant Microbe
Interactions
Microb. Ecol.
General Micro.
Seminar
Fall '87
Fall '87
35
14
N.A.
N.A.
3.1
3.5
N.A.
3.4
3.3
3.2
3.2
N.A.
3.3
3.0
3.2
3.0
N.A.
N.A.
3.1
3.4
3.0
3.3
3.4
N.A.
3.2
3.3
3.3
(Not returned,
trial of new eval.)
3.4 (New eval.)
3.5 (New eval.)
Winter '88
Fall '88
Fall '88
Winter '89
Fall '89
Fall '89
20
60
16
80
45
12
3.2 (New eval.)
3.2 (New eval.)
3.1 (New eval.)
3.7 (New eval.)
3.5
3.3
Winter '90
Fall '90
Fall '90
Fall '91
Fall '91
Winter '92
8
40
10
52
10
10
3.9
3.5
3.6
3.5
3.6
3.5
Fall '92
Winter '93
Fall '93
35
100
33
MB 448
MB 449
MB 302
MB 448
MB 449
MB 564
MB 448/548
MB 449/549
MB 448/548
MB 449/549
MB 664
MB 448/548
MB 302
MB 407
P. J. Bottomley
3
30
10
38
12
10
28
8
50
16
6
11
40
12
10
20
55
40
12
110
40
15
70
110
40
12
100
3.0
3.3
N.A.
Curriculum Vitae
MB 666
Selected Topics
Environ. Microbiol.
MB 448/548 Microb. Ecol.
MB 449/549 Microb. Ecol. Lab.
MB 302
General Micro.
MB 448/548 Microb. Ecol.
MB 666
Sel. Top. Environ. Micro.
MB 448/548 Microb. Ecol.
MB 302
General Micro.
MB 448/548 Microb. Ecol.
MB 666
Sel. Top. Environ. Micro.
MB 448/548 Microb. Ecol.
MB 449/549 Microb. Ecol. Lab
MB 302
Gen. Microbiol.
MB 448/548 Microb. Ecol.
MB448/548 Microb. Ecol.
MB448/548 Microb. Ecol
MB448/548 Microb. Ecol
MB449/549 Microb. Ecol. Lab
MB448/548 Microb. Ecol.
MB448/548 Microb. Ecol
MB448/548 Microb. Ecol.
MB448/548 Microb. Ecol.
MB302
Gen. Micro.
MB448/548 Microb. Ecol.
MB448/548 Microb Ecol
MB302
Gen. Micro.
MB448/548 Microb. Ecol
MB599
Biol of Procaryotes
MB448/548 Microb. Ecol.
MB302
Gen. Micro.
MB448/548 Microb. Ecol
MB555
Biol of Prokaryotes
MB448/548 Microb. Ecol.
MB302
Gen Microbiol
MB448/548 Microb. Ecol
MB555
Biol of Procaryotes
MB448/548 Microb. Ecol.
(b) Guest Lectures in Courses
Winter '94
15
Spring '94
Spring '94
Fall '94
Spring -95
Winter '96
Spring '96
Fall '96
Spring '97
Winter '98
Spring '98
Spring '98
Fall '98
Spring '99
Spring '00
Spring '01
Spring ’02
Spring ’02
Spring ’03
Spring ’04
Spring ’05
Spring ’06
Fall’06
Spring’07
Spring’08
Fall ’08
Spring’09
Winter ’10
Spring ’10
Fall’10
Spring ’11
Winter ’12
Spring ’12
Winter ’13
Spring ’13
Winter’14
Spring’14
40
15
95
35
14
30
80
50
25
60
20
95
30
35
24
35
12
20
36
20
20
172
15
15
110
12
13
15
125
12
17
20
135
20
10
30
Soil Fertility Sls 324
Epidemiology and Disease Control Bot. 453
Systematic Micro MB 420
Stream Ecology FW 580
Stream Ecology FW 580
Soil Biology and Biochemistry Sls 524
Adv. Gen. Microbiol. MB 304
P. J. Bottomley
4
3.4
3.2
3.4
3.3
3.4
3.4
3.4
3.6
3.7
3.7
3.2
3.2
N. Avail.
3.4
3.0
3.1
3.5
3.5
3.0
5.0(6.0max.)
5.8
5.1
4.2
5.9
5.2
4.2
5.0
5.4
5.2
5.2
4.9
4.9
3.5
5.1
5.0
5.0
Fall 1982
Winter 1983
Winter 1984, 1985
Winter 1985
Winter 1986
Spring 1986
Fall 1989
Curriculum Vitae
Adv. Gen. Microbiol. MB 304
Microbial Diversity MB 520
Molec. and Cell Biology MCB 511
MCB 511
MCB 511
MB 307 Microbial physiology
MB307 Microbial physiology
CSS 413 Biol. of Soil Ecosyst.
MB310 Adv. Gen. Microbiol.
MB554 Plasmid biology
MB554 Plasmid Biology
MB310 Microb. Physiol.
MB302 Gen. Microbiol.
CSS 413/513Biol Soil Ecosys.
CSS413/513Biol Soil
MB302 Gen. Micro
MB511 Graduate orientation
MB599 Graduate orientation
MB599 Graduate orientation
(c)
Fall 1990
Spring 1991
Fall 1995
Fall 1996
Fall 1997
Spring 1999
Spring 2000
Winter 2000
Spring 2000
Winter 2001
Winter 2002
Spring 2002
Spring 2003
Winter 2006
Winter2008
Spring 2008
Fall 2008
Fall 2009
Fall 2010
Student Advising
I have no official undergraduate advising. From microbiology’s perspective I have
developed a unique liaison over the years between students and faculty in
agriculture, forestry, and engineering who seek advice on the roles of
microorganisms within their disciplines.
(d)
Preparation of Instructional Material. I have developed 2 laboratory and 2 lecture
courses in Microbial Ecology and Industrial Microbiology (MB 446, 447, 448 and
449) for undergraduate-graduate student mixtures during my tenure at O.S.U. At
the graduate level, I taught and developed two graduate level courses entitled,
"Plant-microbe Interactions" and "Selected Topics in Environmental Microbiology."
For several years I have taught in the introductory course of general microbiology
(MB 302) for majors. In 2003 along with Dr. Trempy, I helped to launch a new Mb
course entitled “Professional Skills in Microbiology” Dr. Schuster and I launched a
new 500 level course winter 2010 entitled: Biology of the Procaryotes.
(e)
Theses and Dissertation Research Supervised
Name
Muktar H. Dughri
Michael B. Jenkins
Nicholas G. Aumen
Bert D. Eardly
Thomas A. Doerge
David H. Demezas
P. J. Bottomley
Degree
Dept.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Soil Science
Microbiology
Microbiology
Crop Science
Soil Science
Microbiology
5
Year of Completion
1983
1983
1984
1984
1985
1986
Curriculum Vitae
Angela Almendras
Blanca Valdivia
K-T. Leung
Matt Busse
Narjes Dashti
K-T. Leung
Peter Claycomb
Steve Strain
Kathryn Yap
Francis Wanjagi
Hsin-Hua Cheng
Lesley Smith
David Phillips
Ieda Mendes
Khrystyne Duddleston
Aissatou Ndiaye
Tracy Shiozawa
Sandra Uesugi
Heather Runes
Rocky Yarwood
Chris Yeager
John Cliff
Ann Mintie
Anne Taylor
David Doughty
Shawna McMahon
David Doughty
Kim Halsey
Stephanie Boyle
Shawn Starkenburg
Guilherme Chaer
Anne Taylor
Nicole De Crappeo
Joe Blanchard
Jose Perez
Giguere
PhD
Xinda Wu
(f)
Ph.D.
M.S.
M.S.
Ph.D.
M.S.
Ph.D.
M.S.
Ph.D.
M.S.
M.S.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
M.S.
M.S.
M.S.
MS
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
MS
MS
Soil Science
MS
Soil Science
Microbiology
Soil Science
Soil Science
Microbiology
Microbiology
Soil Science
Microbiology
Microbiology
Soil Science
Microbiology
Soil Science
Microbiology
Soil Science
Microbiology
Soil Science
Microbiology
Soil Science
Environ. Toxicology
Microbiology
Molec.Cell. Biol.
Soil Science
Microbiology
Soil Science
Microbiology
Soil Science
Microbiology
Molec.Cell Biol.
Soil Science
Microbiology
Soil Science
Environ.Eng.
Soil Science
Soil Science
Microbiology
1987
1987
1987
1989
1990
1992
1992
1993
1991
1992
1992
1995
1996
1997
1998
1998
1999
2000
2000
2001
2001
2001
2002
2002
2004
2004
2007
2007
2007
2008
2008
2008
2010
2009
2014Andrew
Soil Science
2014
Other Involvement in Graduate Research
Thesis
Wendy Wood
Sharon Rose
Robert Smith
Michael Nygaard
John Good
P. J. Bottomley
Committees
Ph.D.
Ph.D.
M.S.
M.S.
M. Ag.
Botany and Pl. Pathology
Soil Science
Forestry
Food Science
Soil Science
6
Curriculum Vitae
Ray Shimabuku
Melissa Glick
Margaret Reed
Gael Kurath
Yakubu Izuagbe
Ron Taylor
David McAndrew
Ed McCoy
Steve McGeeghan
Douglas Willrett
Thomas Dohman
Thomas Kling
Mohammed Salih
Brent Nielsen
Kevin Marchitto
Michael White
Penny Amy
Ron Jones
Bruce Caldwell
John Kough
John Williamson
Rusty Rodriguez
Paul Scowcroft
Hassan Bouzar
Ruth Hickcock
John Calomiris
Nancy Bauer
Debby Clark
Steve Baca
G. Jerado-Lopez
Richard Moyer
Roger Kjelgren
Julie Meyer
David Dalton
Tom Doerge
Esam Warrag
Marie de Angelis
Mohammed Salih
U. Petchsing
D. Shigeno
S. Rwabahizi
P. De Young
K. Smith
M. Salama
A. Thomas
D. Schisler
K. Hural
P. J. Bottomley
Ph.D.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
M.S.
Ph.D.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
M.S.
M.S.
M.S.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
M.S.
M.S.
Ph.D.
Ph.D.
M.S.
Ph.D.
Ph.D.
M.S.
M.S.
M. Ag.
M. Ag.
M.S.
M.S.
M.S.
Ph.D.
M.S.
Botany and Pl. Pathology
Microbiology
Microbiology
Microbiology
Microbiology
Soil Science
Soil Science
Soil Science
Soil Science
Microbiology
Microbiology
Microbiology
Microbiology
Microbiology
Microbiology
Microbiology
Microbiology
Microbiology
Microbiology
Botany and Pl. Pathology
Botany and Pl. Pathology
Microbiology
Forestry
Botany and Pl. Pathology
Microbiology
Microbiology
Microbiology
Botany and Pl. Pathology
Botany and Pl. Pathology
Crop Science
Biochemistry and Biophysics
Soil Science
Botany and Pl. Pathology
Botany and Pl. Pathology
Soil Science
Forest Science
Oceanography
Microbiology
Food Science
Microbiology
Food Science
Animal Science
Botany and Pl. Pathology
Microbiology
Botany and Pl. Patholgoy
Botany and Pl. Pathology
Botany and Pl. Pathology
7
Curriculum Vitae
S. N. Rajagopal
D. E. Like
S. Kokkinakis
H. Walker
A. Zahara
M. Camacho-Casas
M. Ochs
H. Bouzar
F. Salimi-Tari
M. Y. Han
B. F. Valverde-Mena
K. K. Donegan
J. Gambee
M. Mao
M. Cappaert
P. Tower
R. Avedovich
P. Schuttler
T. O'Dell
M. Freitag
C. H. Hu
W. G. Dilantha Fernando
N. Al-Zorkey
M. Black
J. Van Slyke
John Lindbo
Paul Evans
Den-Hui Liu
Calvin Mordy
S. Jamerlan
Shiping Deng
Tom Lippman
Steve Whitehead
Monica Ravanello
William Koener
Shu-fen Lu
Nordeene Benkerroum
Hans Wittig
N. Al-Zoreky
Mark Lorenz
Jian-Jiau Lui
Todd Holland
John Burket
Todd Holland
Carolyn Krueger
Lisa Stein
Diane Gray
P. J. Bottomley
Ph.D.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
M.S.
Ph.D.
M. Ag.
Ph.D.
Ph.D.
M.S.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
M.S.
Ph.D.
M.S.
Ph.D.
Ph.D.
M.S.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
M.S.
M.S.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
M.S.
Ph.D.
M.S.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Microbiology
Soil Science
Oceanography
Microbiology
Forestry
Crop Science
Soil Science
Botany and Pl. Pathology
Poultry Science
Oceanography
Crop Science
Entomology
Microbiology
Crop Science
Botany and Pl. Pathology
Microbiology
Food Science
Horticulture
Forest Science
Forest Products
Biochemistry
Botany and Pl. Pathology
Food Science
Microbiology
Microbiology
Microbiology
Microbiology
Crop Science
Oceanography
Oceanography
Soil Science
Oceanography
Microbiology
Microbiology
Botany and Pl. Pathology
Botany and Pl. Pathology
Microbiology
Botany and Pl. Pathology
Food Science Technology
Oceanography
Forest Products
Oceanography
Crop and Soil Sciences
Oceanography
Chemistry
MCB Program
Microbiology
8
Curriculum Vitae
Megan Amergast
Teresa Curry
Anna Bandick
Natsuko Hamamura
Heidi Campbell
Marielle Hoefnagel
Wolfgang Ebel
Mary Schutter
Rota Tiegel
M-S Tang
Andrew Lundmark
James Tang
Ryan Storfa
*A. Hilger
Kendall Martin
Natsuko Hamamura
*Doug Gordon
Mark Rockhold
Brandt Eichman
George Pon
*Amy Priestley
Neal Colwell
Stephanie Connan
Jeremy Rich
Jessica Butler
Marcelo Fernando
Shawna McMahon
Rachel Heichen
Alicia Vingais
Stephanie Boyle
Hang Ng
Diedhou Sire
Jason Lee
Rogan Rattray
Dan Sabota
Rachel Tennant
Kady Honeychurch
Carolyn Peterson
Sarah Walters
Mandy Mickelsen
Jeff Krause
Silvernail, Ian
Sean Washburn
Elizabeth Brewer
*Amanda Kaltenberg
Hilary Beavers
Briggs, Brandan
P. J. Bottomley
M.S.
M.S.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
Ph.D.
M.S.
M.S.
M.S.
M.S.
M.S.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
Ph.D.
M.S.
M.S.
Ph.D.
Ph.D.
M.S.
Ph.D.
M.S.
M.S.
Ph.D.
Ph.D.
MS
Ph.D.
Ph.D.
MS
Ph.D.
MS
Ph.D.
Ph.D.
Ph.D.
PhD
PhD
MS
PhD
PhD
Ph.D.
Ph.D.
PhD
Botany and Pl. Pathology
Botany and Pl. Pathology
Crop and Soil Science
Botany and Pl. Pathology
Public Health
Botany and Plant Pathology
Microbiology
Crop and Soil Sciences
Forest Sci.
Forest Products
Bioresource engin.
Soil Science
Microbiology
Soil Science
Soil Science
Mol.Cell.Biol.
MCB Program
Bioresource Engineering
Biochemistry
Environ. Engineering
Forest Science
Environ. Toxicology
Microbiology
Soil Science
Soil Science
Soil Science
Soil Science
Forest Science
Biochem/Biophys.
IGERT-Soil Science
Microbiology
Soil Science
Env. Eng.
Microbiology
Fisheries Sci.
Microbiology
Microbiology
Microbiology
Microbiology
Env Eng.
COAS
BPP
Env. Eng.
Soil Science
COAS
Microbiology
COAS
9
Curriculum Vitae
Rick Cooley
Tony Bertagnolli
Ed Mitchell
Andy Sablowsky
Laurel Kluber
Neeraja Valarja
*Kirk Waterstripe
Megan Schaerer
Bergren, Dusty
Cedar Hesse
Hyatt Green
Kirsten Silver
Araby Belcher
Nate Tisdell
Joey Hulbert
Stephanie Chalcon
Marci Burton
Scott Klasek
Stephanie Chacon
*Active committees
7.
PhD
PhD
MS
Ph.D.
Ph.D.
Ph.D.
Ph.D.
MS
PhD
Ph.D.
Ph.D
PhD
PhD
MS
MS
PhD
MS
PhD
PhD
Biochemistry
Microbiology
Microbiology
Env.Eng.
IGERT-Soil Science
MCB
Forest Science
Env Eng.
Env Eng
BPP
Microbiology
COEAS
Crop Sci
Soil Sci
Wood Science
Soil Science
Soil Science
Microbiology
Soil Science
International Activities
1.
Invited participant of the II, III and IVth International Congress on Photosynthetic
Prokaryotes held in Dundee, Scotland, 1976, Oxford, England, 1979, and Bordeaux,
France, 1982, respectively.
2.
Invited symposium speaker in 4th International Conference on Nitrogen Fixation
Dec. 1-5, 1980. Canberra, Australia.
3.
Invited to teach lecture and laboratory course at Universidad de Concepcion. April
1982. Title: "N2 Fixing Cyanobacteria." Concepcion, Chile.
4.
Discussion session participant in session at the 6th International Symposium on
Nitrogen Fixation. Aug. 4-10, 1985. Title: "Physiology and ecology of nitrogen
fixing microorganisms." Corvallis, OR.
5.
Co-chairman of the Scientific Program for the 6th International Symposium on N2
Fixation at O.S.U. Aug. 1985. Corvallis, OR.
6.
Chairperson of scientific program session at the 6th International Symposium on
Nitrogen Fixation. 1985. Title: "Physiology and ecology of nitrogen fixing
microorganisms." Corvallis, OR.
P. J. Bottomley
10
Curriculum Vitae
7.
Invited speaker in 8th Australian Nitrogen Fixation Conference. Dec. 1986. Title:
"Significance of Rhizobium trifolii in the introduction of subterranean clover" (A.
W. Howard Lecture). Adelaide, Australia.
8.
Invited speaker in 14th Beltsville Symposium. May 1989. "The rhizosphere and
plant growth." Beltsville, MD.
9.
External examiner of higher degree theses in Agriculture at the Univ. of Western
Australia. 1988. Nedlands, Australia.
10.
Member, International Advisory Committee for the Eighth International Congress
on Nitrogen Fixation. May 20-26, 1980. Knoxville, TN, USA.
11.
Associated editor, Microbiological Analyses of Soils. 3rd edition. 1990 . Amer.
Soc. of Agron. Madison, Wisc.
12.
Invited speaker in The 8th International Congress on N2 Fixation. May 1990.
Title: "The ecology of rhizobia." Knoxville, TN.
13.
Invited speaker at the Kongsvoll Symposium. June 1993. Title: "Human impact
on self-recruiting populations." Sponsored by The Royal Norwegian Society of
Sciences and Letters. Trondheim, Norway.
14.
Invited speaker at the Australian Society of Microbiology Annual Meeting. Sept.
1994. Title: "Population structure in soil-borne Rhizobium leguminosarum." Perth,
WA.
15.
Invited Distinguished Professor at the University of Western Australia. Oct. 1994.
Presented three seminars; attended field trips; discussion sessions and social events.
Perth, WA.
16.
External examiner of Ph.D. thesis, 1999, Royal Institute of Technology,
Melbourne, Victoria, Australia.
17.
External Examiner of Ph.D. thesis, 2000, University Western Australia, Perth, WA
18.
Invited participant, NSF-sponsored workshop in microbial ecology, USA-Egypt,
May, 2001.
19.
Invited guest speaker: National Soil Science Society of Brazil, July, 2001. Visiting
scientist at EMBRAPA, Cerrado, Palantina, Brazil. Invited lecture: Cycling of
nitrogen in soils at different spatial scales of resolution.
20.
Attendee, 9th Meeting International Society of Microbial Ecology, Amsterdam,
Netherlands, Aug. 2001
P. J. Bottomley
11
Curriculum Vitae
8.
21.
Invited guest speaker: National Soil Science Society of Brazil, Seminar: Using 15N
and mass spectrometry to measure cycling of nitrogen at different spatial scales of
resolution. July 2001
22.
Visiting scientist at EMBRAPA, Cerrado, Palantina, Brazil. Invited lecture: Cycling
of nitrogen in soils at different spatial scales of resolution. July 2001.
23.
Invited speaker, University of Newcastle, UK, Nano-SIMS symposium. Jan, 2006.
Title: Measuring N processes in soil at centimeter and millimeter scale with ToFSIMS
24.
Invited Speaker, Technicon University, Haifa, Israel. Apr, 2013. Dahlberger
Symposium on Newly emerging developments in Nitrogen and Phosphorus
Research. Title: Discriminating between archaeal and bacterial contributions ot Soil
Nitrification.
25.
Invited Speaker. 3rd International conference on nitrification, Tokyo University,
Tokyo. Sep 2013. Title: Discriminating between archaela and bacterial
contributions to soil nitrification.
National Activities
1.
Invited symposium addressee at the ASM National Meeting, New Orleans. 1977.
2.
Seminar: Dept. of Botany and Plant Pathology, O.S.U. April 1980. Title: "Control
of heterocyst development and nitrogenase activity in heterocystous cyanobacteria."
3.
Seminar: Laboratory for Nitrogen Fixation, O.S.U. April 1980. Title: "Energetics
of nitrogen fixation in photosynthetic procaryotes."
4.
Seminar: Michigan State University - DOE Plant Research Laboratory, MSU, East
Lansing, MI. April 1980. "Title: Novel aspects of the control of heterocyst
differentiation in cyanobacteria."
5.
DOE Sponsored Conference, Michigan State University, E. Lansing, MI. April
1980. Overview lecture: Title: "Energetics of nitrogen fixation in photosynthetic
procaryotes."
6.
Laboratory of Nitrogen Fixation, O.S.U. Jan. 1981. Title: "Physiology and ecology
of nitrogen fixing cyanobacteria."
7.
Seminar: Portland State University, Portland, Oregon. Feb. 1981. Title:
"Physiology and ecology of nitrogen fixing cyanobacteria."
P. J. Bottomley
12
Curriculum Vitae
8.
Seminar: Dept. of Biochemistry and Biophysics, O.S.U. March 1982. Title:
"Ecological and agronomic significance of rhizobia nodulating forage legumes."
9.
Seminar: Dept. of Soil Science, O.S.U. April 1982. Title: "Recent developments
in rhizobia research."
10.
Seminar: University of California at Davis, Dept. of Bacteriology. May 1982.
Title: "Ecological and agronomic significance of rhizobia nodulating forage
legumes."
11.
Special Lecture to Graduate Microbial Ecology Group, University of California at
Davis. May 1982. Title: "Impact of water on microbial ecology of soils."
12.
ASM, North-West Branch Meeting, Univ. of Washington, Seattle. June 1982.
Title: "Indigenous rhizobia: their impact on enhancing N2 fixation."
13.
Convener: Session on Ecology of Rhizobia. 1982. Am. Soc. Agron. Meeting.
Anaheim, California.
14.
Seminar: Univ. of Calif. at Berkeley, Dept. of Plant and Soil Biology. Sept. 1985.
Title: "Plant and soil factors influencing nodulation by indigenous rhizobia."
15.
Seminar: Univ. of Calif. at Berkeley, Dept. Plant and Soil Biology. Sept. 1985.
Title: "Review of Techniques for measuring microbial activity in soil and
rhizospheres."
16.
Convener: Special seminar on Current Approaches to Rhizobium Ecology. A.S.M.
National Meeting. March 1986. Washington, D.C.
17.
Invited Participant: Special workshop, NSF sponsored on Microbial Ecology. May
1986. Scottsdale, Arizona, U.S.A.
18.
Seminar: Dept. Microbiology, O.S.U. November 1986. Title: "Soil factors
influencing nodulation by indigenous R. trifolii."
19.
Seminar: O.S.U., Dept. of Rangeland Resources. March 1987. Title: "Effects of
fertilizers on soil rhizobia populations."
20.
Seminar: O.S.U., Western Phosphate Conference. 1987. Title: "Interactions of
lime and phosphate on nodulation by rhizobia."
21.
Seminar: Columbia Plateau Conservation Research Center USDA-ARS, Pendelton,
Oregon. March •29, 1988. Title: "Interactions between soil rhizobia and
legumes."
22.
Seminar , Dept. Microbiology, O.S.U. April 25, 1988. Title: "Ecology of rhizobia
in acidic and xeric soils."
P. J. Bottomley
13
Curriculum Vitae
23.
Seminar, Center for Gene Research and Biotechnology. April 23, 1988. Title:
"Influence of cultivar and Rhizobium on N2 fixation by alfalfa."
24.
Seminar, Reed College, Portland, OR. September, 1988. Title: "Influence of
indigenous soil rhizobia on N2 fixation by legumes."
25.
Seminar, Dept. of Soil Science, O.S.U. January, 1989. Title: "Subterranean
clover-Rhizobium trifolii symbiotic association."
26.
Seminar, Biology Colloqium: The Rhizosphere. May 1989. Title: "Saprophytic
competence in soil populations of rhizobia."
27.
Seminar: Environmental Research at O.S.U. Nov. 1989. Title: "Soil
microorganisms: diversity, physiology, and response to environmental change."
28.
Visiting Distinguished Professor Award, Texas A & M University. April 1990.
29.
Lecture: Dept. of Crop and Soil Sciences, Texas A & M University. May 1990.
Title: "Nitrogen fixation in agricultural systems."
30.
Seminar: Texas A & M University, Dept. of Crop and Soil Sciences. May 1990.
Title: Ecology of rhizobia in Oregon soils."
31.
Seminar: Dept. of Plant Pathology, Texas A & M University. May 1990. Title:
"Nitrogen fixation and forage legumes in Oregon."
32.
Lecture: Dept. of Crop and Soil Sciences, Texas A & M University. May 1990.
Title: "Nitrogen fixation and cyanobacteria."
33.
Seminar: Dept. of Range Science, Texas A & M University. May 1990. Title:
"Nitrogen cycle in grassland ecosystems."
34.
Lecture: Dept. of Crops and Soil Science, Texas A & M University. May 1990.
Title: "Effects of mineral N upon nitrogen fixation and growth of forage legumes."
35.
Lecture: Dept. of Crops and Soil Science, Texas A & M University. May 1990.
Title: "Nitrogen fixation characteristics of annual forage legumes."
36.
Seminar: Center for Gene Research and Biotechnology. Sept. 1990. Title:
"Competitive nodulation by rhizobia."
37.
Seminar: ASM National Meeting, Dallas, Texas. May 1992. Title: "Ecology of a
soil-borne bacterium: Rhizobium leguminosarum."
P. J. Bottomley
14
Curriculum Vitae
38.
Seminar: University of Minnesota. May 1991. Title: "Population ecology and
symbiotic behavior of soil-borne Rhizobium leguminosarum."
39.
Seminar: ASM Divisional Lecture in Microbial Ecology, ASM National Meeting,
Atlanta, Georgia. May 1993. Title: "Microbial ecology at the root-soil interface."
40.
Seminar: Fallen Leaf Lake Conference, Taho, California. Sept. 1994. Title:
"Insights into the ecology of R. leguminosarum from an analysis of the genetic
structure of local soil populations."
41.
Invited seminar: NSF Center for Microbial Ecology, Michigan State University,
Lansing, Michigan. March 1995. Title: "Insights into the ecology of R.
leguminosarum from an analysis of the genetic structure of local soil populations."
42.
Invited seminar: U.C. Davis, Department Land, Air, and Water Resources. Sept.
1995. Title: "Diversity and genetic structure in soil populations of a bacterial
species. Old system, new questions."
43.
Invited symposium speaker: ASA National Meeting, St. Louis. Oct. 1995. Title:
"Measuring diversity in local soil microbial populations: analysis and
interpretation."
44.
Invited symposium speaker: ASM National Meeting, New Orleans. May 1996.
Title: "Critical analysis of methods used to assess soil ecosystem health."
45.
Invited seminar speaker: Columbia Basin Agricultural Research Center. March
1995. Title: "Factors influencing herbicide breakdown in surface and subsurface
soil."
46.
Invited seminar speaker: University of Portland Summer Lecture Series. June
1996. Title: "A world unseen: microbes and the environment."
47.
Invited seminar speaker: Michigan State University. Jan. 1997. Title:
"Experiences of a soil microbiologist connecting applied problems to populations
and processes in soil."
48.
Invited seminar speaker: Penn State University. Jan. 1997. Title: "Experiences at
the microbiology-soil science interface."
49.
Invited seminar speaker: Kansas State University, Manhattan, Kansas. March 12,
1997. Roscoe J. Ellis Lecture Series. Titles: "Soil biology at the interface of
environmental quality and agricultural productivity" and "Advances in soil
microbiology research."
50.
Invited seminar speaker: University of Tennessee, Knoxville. Oct. 1997. Title:
"Interdisciplinary experiences in soil biology."
P. J. Bottomley
15
Curriculum Vitae
51.
Invited symposium speaker: SSSA annual meeting, Anaheim, California. Oct.
1997. Title: "Integration of contemporary and traditional techniques in soil
biology."
52. Invited symposium speaker: Center for Gene Research and Biotechnology, OSU.
Oct. 1998. Title: "Compartmentalization and coupling processes in soil
ecosystems."
53. Invited speaker: University of California Riverside: October 2002. Title: “Nitrogen
cycling in soil: microbiological fundamentals and TOF-SIMS”.
54. Invited participant in NSF-sponsored workshop on Microbial Observatories. Sept.
2002. NSF, Washington DC
55. Invited participant at University Day, Pacific North West National Laboratory,
Richland, WA Talk: “Use of TOF-SIMS in soil biology”. Oct. 2002.
56. Invited participant in NSF-sponsored workshop on Microbial Observatories. Sep.
2003, NSF, Washington DC
57. Invited speaker: Department of Biology, University of Oregon. November 2003. Title:
Nitrification in forest soils: the paradigm.
58. Invited speaker: University of Delaware, March, 2004. Title: Microbial structure
function at the root-soil interface.
59. Invited speaker, University of Delaware, March, 2004. Title: Current research at the
root-soil interface.
60. Invited speaker, Dept. of Botany and Plant Pathology, April, 2004. Title: Tracing flow
of plant-derived carbon into soil.
61. Invited participant in NSF-sponsored workshop on Microbial Observatories. Sep.
2004, Big Lodge, MT
62. Invited symposium speaker, American Society of Agronomy, 2004 National Meeting,
Seattle, WA. Title: Identification of meaningful labile C pools in soils.
63. Invited speaker, Los Alamos National Laboratory, Los Alamos, NM Dec. 2004,
“Physiological ecology of nitrifying bacteria in a Microbial Observatory”
64. Invited speaker, Soil Science Workshop, University of Alberta, Feb., 2005.
65.
Invited symposium speaker, Annual Meeting of the Ecological Society of America,
Montreal, Canada, August 2005 title: Function and structure of microbial
P. J. Bottomley
16
Curriculum Vitae
communities in response to reciprocal transfer of soil cores from forest to meadow
environments and vice versa.
66. Seminar speaker, Crop and Soil Science seminar series, Oct 23, 2005. Insights into C
flow from roots and straw residues of clover and ryegrass into the soil microbial
community.
67.
Invited seminar speaker, University of Montana, Missoula, Oct 31, 2005. Title:
Responses of fungal and bacterial communities to reciprocal transfers of soil
between meadow and forests in the Cascade Mountains of Oregon
68. Invited speaker, University of Newcastle, UK, Nano-SIMS symposium. Jan, 2006.
69. Invited speaker, University of California, Davis Sep, 2007. Insights into microbial
ecology from two paradigms: genomics and community composition.
70. Invited plenary speaker, West Coast Bacterial Physiology meeting. Asilomar,
Monterrey Bay, California. Dec. 2008. Insights into the physiology of nitrite
oxidizing bacteria from both genomic and experimental approaches.
71. Invited speaker. Oct 2010. Oregon Graduate Institute, Beaverton, OR. Contribution of
archaea and bacteria to soil nitrification.
72. Invited speaker, Oct 2011. Soil Science Society of America Natl. Mtg. San Antonio,
Tx. Measuring the contribution of archaea and bacteria to soil nitrification in
cropping systems.
9.
Professional Services
Reviewing Activities
(a)
Journals
Member of the Editorial Board of Applied and Environmental Microbiology (19841986; 1987-1989; 1990-1992; 1998-2002; 2003- 2007; 2011-)
Ad hoc reviewer for:
Advances in Water Research
Agronomy Journal
Applied Environmental Microbiology
Applied Microbiology and Biotechnology
Archives for Microbiology
Biodegradation J.
P. J. Bottomley
17
Curriculum Vitae
Biogeochemistry
Biology and Fertility of Soils
Canadian J. of Microbiology
Crop Science
Ecology
European J of Soil Science
Environmental Microbiology
FEMS Microbial ecology
Frontiers of Environmental Microbiology
Hydrobiologia
Int. J. of Microb. Ecol.
ISME Journal
J. Bacteriology
J.of Phycology
Journal of Environmental Quality
J.of Microbiological Methods
Marine Ecology
Microbiology
Microbial Ecology
Molecular Ecology
Molecular Plant Microbe Interactions
Nature
Off campus reviewer of manuscripts for USDA-ARS laboratories prior to submission to
journals.
On campus reviewer of manuscripts from E.P.A. and USDA-ARS laboratories prior to
submission to journals
Pedosphere
Plant and Soil
Precision Agriculture
Proceedings of the National Academy of Sciences, U.S.A.
Soil Biology and Biochemistry
Soil Science
Soil Science Society of America Journal
Symbiosis
The Journal of Ecology
Water Research Journal .
World Journal of Microbiology and Biotechnology
(b)
Grants
External reviewer of International Grant Awards for the City University of New
York.
External reviewer for the SEA-USDA-CRGO Biological Nitrogen Fixation
Program. 1982, 1983, 1985.
External reviewer for Ag. Exp. Station - Washington State University.
P. J. Bottomley
18
Curriculum Vitae
External reviewer for NSF - Developmental Biology Program. 1983.
External reviewer for NSF - Biological Instrumentation Program. 1984.
Member of the review panel for USDA, S&E, CRGO. Biological Nitrogen Fixation
Program. 1984.
External reviewer for EPA - competitive grant program. "Fate of geneticallyengineered microorganisms in the environment." 1985.
External reviewer for NSF - Procaryote-genetics program. 1985.
External reviewer for USDA/S&E/CRGO - Molecular biology/gene structure-plants
program. 1985.
External reviewer for USDA/S&E/CRGO Forest Biology Program. 1985, 1986.
Member of review panel for USDA, S&E, CRGO. Biological Nitrogen Fixation
Program. 1986.
Member of review panel for USDA, S&E, CRGO Biological Nitrogen Fixation and
Metabolism. 1987.
External Reviewer for EPA-competitive grants program. Preproposals and
proposals. 1987.
External reviewer for BOSTID program, National Research Council. 1987.
External reviewer for D.O.E. Biological Program. 1987.
External reviewer for U.S. AID program. 1987.
External reviewer NSF - Ecology program. 1988.
External reviewer for USDA Competitive Grants Biological Nitrogen Fixation
Program. 1988.
External reviewer for U. S. AID program. 1988.
External reviewer Australian Research Council. 1988.
External reviewer NSF - Ecology Program. 1989.
External reviewer for USDA Competitive Grants Biological Nitrogen Fixation
Program. 1989.
P. J. Bottomley
19
Curriculum Vitae
External reviewer of report entitled: Evaluation of Research for Environmental
Restoration. 1989. U.S. Department of Energy.
External reviewer NSF - Ecology program. 1990.
External reviewer NSF - Physiological processes. 1990.
External reviewer for USDA Competitive Grants Biological Nitrogen Fixation
Program. 1990.
External reviewer for USDA Competitive Grants Program Forest/Rangeland, Crop
Ecosystems. 1991.
External Reviewer for USDA Competitive Grants Program. Biological N2
Fixation. 1991.
External reviewer for Australian Research Council. 1991.
External reviewer for postdoctoral fellowship applications to the Australian
Research Council. 1991.
Member of DOE Biosciences Grant Proposal Review Panel. Nov. 1991.
External reviewer DOE Biosciences Program 1991-2001.
External Reviewer for USDA Competitive Grants Program. Biological N2
Fixation. 1992.
External Reviewer for postdoctoral fellowship applications to the Australian
Research Council. 1992.
External Reviewer UK Agricultural and Food Research Council. 1992.
External Reviewer EPA Exploratory Research Program. 1992.
External Reviewer USDA NRICGP Soils and Soil Biology. 1994, 1995, 1996,
1997, 1998, 1999, 2000, 2001,2002,2005,2006
External Reviewer USDA Nitrogen Fixation/Nitrogen Metabolism. 1993, 1994,
1995, 1996, 1997, 1998, 1999, 2000,2001,
External Reviewer Australian National Research Council, 1992, 1993, 1994, 1995,
1996, 1997, 1998, 1999, 2000, 2001
External Reviewer Natural Environment Research Council, UK, 1996, 1997.
P. J. Bottomley
20
Curriculum Vitae
External Reviewer National Science Foundation Ecology Program. 1994, 1995,
1996, 1997, 1998, 1999, 2002
External Reviewer USDA NRI Plant Pathology Program. 1996, 1997.
Member of Panel USDA-NRI Small Business Program. 1998, 1999, 2000.
External reviewer National Science Foundation Ecosystems, 2000, 2001, 2002,
2003
External reviewer NSF, Microbial Observatory program, 2000, 2001.
External reviewer NRI, Plant-Microbe Associations Program, 2001-2005
External reviewer DOE Biosciences program, 2000.
External reviewer, USDA-DOE Genome sequencing project, 2001, 2002
External reviewer NSF Microbial Observatories, 2004,2005,2006
External reviewer NSF Physiological Ecology, 2004.
External reviewer NSF Ecosystems, 2008,2009
External reviewer NSF Molec.and Cell. Biol.
External reviewer Kearney Foundation of
Soil Science UCal system, 2005, 2006, 2007, 2008
DOE review team for DOE Great Lakes BioResearch Center, Nov 2012
Ext reviewer NSF Ecosystems 2012, 2013
NSF ecosystem Panel member Oct 2014
(c)
National Committees
Member of Soil Science Research Award National Committee of the Soil Science
Society of America. 1988-1991.
Member of National Academy Committee on Microbial Use in Environmental
Biotechnology. Dec. 1988-March 1989. Co-author of white paper released by
National Research Council in 1989 entitled: "Field testing of genetically modified
microorganisms."
Member of Committee to Select Fellows of American Society of Agronomy, 19982000.
Chair, Feasibility committee, SSSSA, charge to examine need for a new edition of
Methods in Soil Analysis, fall, 2001.
10.
PUBLIC AND COMMUNITY SERVICE
(a)
P. J. Bottomley
Oral Presentations
21
Curriculum Vitae
P. J. Bottomley
1.
Western Oregon Fertilizer Dealers Conference, Salem, Oregon. Feb. 1981.
Title: "Rhizobia and the alfalfa survey."
2.
Special meeting of the Oregon Hay Farmers Association, Redmond, Oregon.
Jan. 1982. Title: "Update on Rhizobium research in Central Oregon."
3.
Central Oregon Fertilizer Dealers Conference, Redmond, Oregon. Feb.
1982. Title: "Effect of rhizobia upon yield and quality of alfalfa hay."
4.
Cooperative Extension Service Workshop, Bend, Oregon. 1982. Title:
"Role of legumes in minimum tillage agriculture."
5.
Cooperative Extension Service Workshop, Corvallis, Oregon. 1982. Title:
"Effects of N fertilization on establishment alfalfa."
6.
Cooperative Extension Service Workshop, Fort Rock, Oregon. 1983. Title:
"Inoculation practices for alfalfa. An overview."
7.
Annual Meeting of Oregon Hay Growers Association, Corvallis, Oregon.
1982. Title: "Rhizobium meliloti: Just about the smallest thing on the
farm."
8.
Cooperative Extension Service Workshop, Coquille, Oregon. April 1983.
Title: "Inoculation practices and N2 fixation in clover pastures."
9.
Cooperative Extension Service Workshop, Fort Rock, Oregon. 1984. Title:
"Managing nitrogen and alfalfa."
10.
Cooperative Extension Service Workshop, Corvallis, Oregon. 1984. Title:
"Physiological and environmental factors which limit N2 fixation in
leguminous cover crops."
11.
Cooperative Extension Service Workshop, Albany, Oregon. February 1986.
Title: "Molybdenum requirements of forage legumes."
12.
Idaho Fertilizer and Chemical Conference, Boise, Idaho. January 1987.
Title: "Use of N on Alfalfa."
13.
Cooperative Extension Service. Agent Training. May, 1988. Title:
"Update on findings about clover Rhizobium."
14.
O.S.U. Cooperative Extension Service. Agent Training. March 1991.
Seminar: Nitrogen assimilation and release by soil microorganism.
22
Curriculum Vitae
(b)
15.
OSU Cooperative Extension Service: Extension Agent Workshop. Nov
1991. Seminar: Role of microorganisms in nitrogen pollution.
16.
Invited speaker, Oregon Soil Science Society. February 1993. Title: "Facts
of Bioremediation."
17.
Invited speaker, Oregon Weed Science Society. October 1993. Title: "Soil
factors influencing microbial breakdown of herbicides."
18.
Invited speaker, Oregon Fertilizer Dealer's Conference, Jansen Beach,
March, 1999. "Soil Microbiology and Soil Fertility"
19.
Invited speaker, Current issues in soil science: televised oral presentation,
OSU" Soil microorganisms: the real stewards of the land". January 2001.
20.
Invited participant: Extension agent training workshop, Crop and Soil
Science: Jan. 2001. "Rhizobium and N2 fixation by legumes"
21.
Oral presentation at Agent and Dealers meeting Umatilla, Nov. 2001, Don
Horneck, contact.
22.
Oral presentation at Agents and Dealers meeting, Madras, Jan. 2002, Mylen
Bohle, contact.
23.
Oral presentation to agents and growers at Hyslop farm field day. May,
2011
Advisor to Public Agencies
Consultation with Plant Division in State Department of Agriculture on quality
control of soil additives reported to possess microbial activity.
(c)
11.
Other Evidence of Public Service
(i)
Numerous appearances and oral presentations at annual field days of Central
Oregon Agricultural Experiment Station, Pendleton, and at Hyslop Farm.
(ii)
Participation in legume field tours with Cooperative Extension Service
personnel in Washington, Polk, Marion, Yamhill, Douglas, Coos, Curry,
Lake Harney, Malheur, Deschutes, Crook, Jefferson, Umatilla, Union and
Morrow counties. Interaction, problem solving, and advising of clover and
alfalfa growers and seed co-op operations in these counties.
INTERNATIONAL SERVICE: None
P. J. Bottomley
23
Curriculum Vitae
12.
UNIVERSITY SERVICE
Committees.
Member, Search Committee, Chair, Dept of Microbiology
Chair, P&T committee Crop and Soil Science 2014Chair , search committee for Environmental Microbiologist, 2010.
Member of ad hoc CAS committee to put in place CAS P&T committee. 2010
Member, MCB graduate admissions committee. 2009Chair search committee for Environmental Microbiologist, 2009
Member, SBI executive committee, 2004Member, Graduate Admissions Committee, Microbiology, 2005Member, Immunology Search Committee, 2005
Member, Geobiology Search committee, COAS, 2004.
Member, Immunology search committee, Dept. of Microbiology, 2002-03
Member, P&T committee, Dept. Crop and Soil Science, 2001Member P&T committee, Dept. of Microbiology, 1988Member faculty senate, 2001-2003
Member, Greenhouse committee, OSU, 1996Chair, Search Committee for Food Microbiologist, Dept. Microbiology 2000.
Chair, Search Committee for Applied Microbiologist (Dept. of Microbiology) 1997.
Member, Graduate committee, Crop and Soil Science, 1997-2000
Chair, Facilities and Space Committee (Dept. of Microbiology) 1996-2001
Member, Search committee, Dept of Microbiology, Chair, August, 2001
Member of search committee, Environmental organic chemist, CSS, EM&T, and Chem.
depts. Jan-Mar. 2001
Member, Admissions Committee, Molecular and Cellular Biology Program, O.S.U. 19931996.
Chair, Curriculum Committee (Dept. of Microbiology) 1991-1996.
Member, Curriculum Committee (College of Science) 1993-1996.
Graduate Selection Committee (Dept. of Microbiology) 1983-1991.
Chair, Graduate Selection Committee (Dept. of Microbiology) 1988-1991.
Dean of Agriculture's Faculty Advisory Committee 1981-1984.
Faculty Senator, Faculty Senate, O.S.U. 1982-1983.
Dean of Agriculture's New Initiative Committee 1983-1985.
Board Member of the Nutrition Research Institute, O.S.U. 1983-1984.
Seminar Organization Committee (Dept. of Soil Science) 1983-1985.
Member, Space Committee (Dept. of Microbiology) 1984-1988.
Member, Scholarship Committee (Dept. of Microbiology) 1984-1988.
Chair, Teaching Assistant Assignment Committee (Dept. of Microbiology) 1982-1989
Search Committee Asst. Prof. (Forest Soils). Dept. of Soil Science, Spring 1983.
Curriculum Committee, Dept. of Soil Science 1981-1985.
Seminar Committee Chairman (Dept. of Soil Science) 1984-1985.
Faculty Senator, Faculty Senate, O.S.U. 1985-1987.
Search Committee, Asst. Prof. Soil Fertility, Dept. Soil Science, Winter 1985.
Search Committee, Asst. Prof-Extension Specialist Soil Fertility, Dept. Soil Science,
Winter 1985.
P. J. Bottomley
24
Curriculum Vitae
Evaluation of scholarship applications for College of Science, 1984 and 1985.
Search Committee, Extension Specialist Forage Crops, Dept. of Crop Science, Winter
1986.
Screening Committee, Acting Dean for College of Agricultural Sciences, August 1986.
Institutional Biosafety Committee, O.S.U. Nov. 1986-1990.
Selection Committee for Savery Outstanding Young Faculty Award, College of
Agricultural Sciences, January 1987.
Search Committee for Assistant Professor, Dept. Microbiology, 1987.
Dean of Agriculture's representative to prepare package for H. J. Evans' nomination for The
Alexander von Humboldt Award, 1987.
Chairperson, Committee to Nominate Candidate for the Ferguson Distinguished Professor
of Agricultural Sciences, August 1989.
Search Committee for Associate Professor, Laboratory of N2 Fixation, Dept. Botany and
Plant Pathology, March 1989.
Member of Committee to Nominate Candidates for L. Carter Award, College of Science,
May 1991.
13.
Grants and Contracts
Oregon Ag. Exp. Station Project 302 Soil Sci.
April '80 - March '85
$40,000 for 5 years
USDA/SEA/CRGO: Grant No. 59-2411-1-1-726-0
Aug. '81 to July '83
$110,000
USDA/S&E/CRGO: Grant No. 81-CRCR-1-0726
Aug. 1, '83 to July '85
$100,000
USDA/S&E/CRGO: Grant No. 85-CRCR-1-1704
Aug. 1, '85 to July '87
$123,000
USDA/S&E/CRGO: Grant No. 87-CRCR-1-2471
Aug. '87 to July '89
$110,000
Ore. Ag. Exp. Sta. Project 302 Soil Sci.
April '85 - March '90
$40,000 for 5 yrs.
USDA/S&E/CRGO Grant No. 87-37120-4738
Aug. 15, '89 to Aug. 14, '91
$90,000
USDA/CSRA: Grant No. 94-34214-7302
Sept. '92 - Aug. 31, '94
$120,000
USDA/CSRS: Grant No. 94-34261-1139
Sept. 1, '94 to August 31, '97
$40,000 for 2 years
EPA Exploratory Program: Grant No. 821405-01-0
$350,000 for 3 years
P. J. Bottomley
25
Curriculum Vitae
April '94 to Aug. '97
USEPA Interagency Agreement Program:
1994-1997
$500,000 for 3 years
USDA STEEP (1995-1996)
$35,000 for 2 years
NSF-Interdisciplinary Program, Co-PI:
Jan. 1997 to Dec. 1999
$412,471 for 3 years
USDA-NRIP. Soil Biology, Co-PI:
Sept. 1997 to Aug. 1999
$250,000 for 2 years
NSF Microbial Observatories, Co-PI 1999-2003. Microbial communities and functional
gene diversity in N cycling in soils of the HJ Andrews Experimental forest. $400,000 for
3years
West. Reg. Haz.Wast.Sub.Res.Cent, Co-PI. 2001-2006. Aerobic cometabolism of
chlorinated aliphatic hydrocarbons with butane-oxidizing bacteria. $160,000 for 5y
NSF Ecosystems, Co-PI . 2000-2004. Spatial and temporal determinants of microbial
community dynamics during carbon flow in soils. $400,000 for 4y
NRI Soils and Soil Biology Program, Co-PI. 2002-2005. Hot Spots of Nitrogen cycling in
soils. $300,000 for 4y
NSF-IGERT graduate fellowship program. Co-PI, 2003-2007. Understanding the earth’s
subsurface biosphere. $800,000 for 5y.
NSF Microbial Observatories, Co-PI, 2004-2009. Structure and function of mycorhizal mat
communities at the HJ Andrews LTER Microbial Observatory. $960,000 for 5y.
Terminates 2009
NSF GEN-ENG, Co-PI 2004-2008. Global transcriptional responses in nitrogen cycling
and nutrient removal processes. $2,000,000 for 5y. Terminates 2009.
OSU Subsurface Biosphere Initiative Program. Co-PI 2004-2008. $1,500,000 for 5y.
NSF Ecosystems Co-PI 2006-2008. Regulation of N cycling tempo in forest soils.
$160,000.
NRI-USDA CREES Soil Biology. Co-PI $360,000 for 3y. Nitrification niches in soils
across a landscape. 2007-2010,
BARD, binational US-Israel Grants. Co-PI, Measuring NOx with spectroscopy and
molecular techniques. 2009-2013.
P. J. Bottomley
26
Curriculum Vitae
DOE Biosciences. Responses of and interactions between nitrifying bacteria to
environmental changes a systems level approach. D Arp and P. Bottomley co-PIs,.
$653,304, 10/1/11-930/14
NIFA Soil Processes. Identifying the drivers and consequences of archaeal and
bacterial contributions to soil nitrification. Bottomley PI, Myrold co-PIs.$491,000,
1/1/12 -12/31/14.
DOE. Meta-omics analysis of microbial community response to altered rainfall
patterns in prairie soils. Co-PIs with D. Myrold P Bottomley A. Jumponnen
(KSU)co-PIs along with DOE personnel from Lawrence Berkeley National lab (J.
Jansson) and Oakridge National Lab (N. Verboekmos). $609,000, 7/1/10- 6/30/13.
Agricultural Research Foundation. Role of archaea and bacteria in soil nitrification.
P.Bottomley A. Taylor, co-PIs, $12,500, 2011-2013.
Agricultural Research Foundation. PJ Bottomley, A.E. Taylor, co-PIs $12,500.00
2013-2015
NSF Ecosystems. Myrold and Bottomley, Pett-Ridge. co-PIs. Jul 1, 2014-Jun 30,
2016. Identifying taxa implicated in N turnover in soils of differing N availability.
$200,000.00
RESEARCH ENDEAVORS
1a.
Past research activities. Originally focused on the cyanobacteria - a unique group of
microorganisms possessing both the abilities to carry out higher plant photosynthesis and to
fix atmospheric nitrogen. The emphasis was on several aspects including phosphate
metabolism, phosphorylating mechanisms, control of nitrogen fixation, carbon and nitrogen
metabolism, role of tryptophan metabolism in the control of N2 fixation, and heterocyst
differentiation. Focused on legumes, nitrogen fixation, and the microsymbionts Rhizobium
and Bradyrhizobium. Emphasis was on both the basic science of bacterial ecology and the
applied aspects of the role of rhizobia on legume performance in Oregon agriculture.
1b.
Current research activities. Focused upon aspects of environmental quality and the
interactions between soil properties and microorganisms on the fate of nitrogen and
agrichemicals in various forest and cropping systems, and of priority pollutants in
subsurface environments. Projects include an examination of the roles of ammonia and
hydrocarbon oxidizing bacteria in the biodegradation of halogenated aliphatic hydrocarbons
and examining the fate of nonaqueous phase contaminants in subsoil heterogeneities under
unsaturated water flow conditions. Fundamental research focused on the role of soil
compartments in coupling N cycle with C flow and in maintaining microbial community
diversity in both forested and agricultural settings.
14a. Publications (Refereed Journals)
P. J. Bottomley
27
Curriculum Vitae
1.
Bottomley, P. J., and W. D. P. Stewart. 1976. The measurement and significance
of ATP pools in filamentous blue-green algae. Br. Phycol. J. 11:69-82.
2.
Bottomley, P. J., and W. D. P. Stewart. 1976. ATP pools and transients in the bluegreen alga, Anabaena cylindrica. Arch. Microbiol. 108:249-258.
3.
Bottomley, P. J., and W. D. P. Stewart. 1977. ATP and nitrogenase activity in
nitrogen fixing heterocystous blue-green algae. New Phytol. 79:625-638.
4.
Bottomley, P. J., and C. Van Baalen. 1978. Characteristics of heterotrophic growth
in the blue-green alga, Nostoc sp. strain Mac. J. Gen Microbiol. 107:309-318.
5.
Bottomley, P. J., and C. Van Baalen. 1978. Characteristics of hexose metabolism
by photoautotrophically and heterotrophically grown cells of the blue-green alga,
Nostoc sp. strain Mac. J. Bacteriol. 135:888-894.
6.
Stacey, G., P. J. Bottomley, C. Van Baalen, and F. R. Tabita. 1979. Control of
heterocyst and nitrogenase synthesis in the cyanobacteria. J. Bacteriol. 137:321326.
7.
Bottomley, P. J., J. F. Grillo, C. Van Baalen, and F. R. Tabita. 1979. Synthesis of
nitrogenase and heterocysts by Anabaena sp. CA in the presence of high levels of
ammonia. J. Bacteriol. 140:938-943.
8.
Grillo, J. F., P. J. Bottomley, C. Van Baalen, and F. R. Tabita. 1979. A mutant of
Anabaena sp. CA with oxygen sensitive nitrogenase activity. Biochem. Biophys.
Res. Commun. 89:685-693.
9.
Bottomley, P. J., C. Van Baalen, and F. R. Tabita. 1980. The role of tryptophan
metabolism in heterocyst differentiation in Anabaena sp. CA. Arch. Biochem.
Biophys. 203:204-213.
10.
Bottomley, P. J., and M. B. Jenkins. 1983. Some characteristics of R. meliloti
isolates from alfalfa fields in Oregon. Soil Sci. Soc. Am. J. 47(6):1153-1157. Ore.
Agric. Exp. Sta. Technical Paper No. 6563.
11.
Dughri, M. H., and P. J. Bottomley. 1983. Complementary methodologies to
delineate the composition of R. trifolii populations in root nodules. Soil Sci. Soc.
Am. J. 47(5):939-945. Ore. Agric. Exp. Sta. Technical Paper No. 6659.
12.
Dughri, M. H., and P. J. Bottomley. 1983. Effect of acidity on the composition of
an indigenous soil population of Rhizobium trifolii found in nodules of Trifolium
subterraneum L. Applied and Environmental Microbiology 46(5):1207-1213. Ore.
Agric. Exp. Sta. Technical Paper No. 6852.
P. J. Bottomley
28
Curriculum Vitae
13.
Aumen, N. G., Bottomley, P. J., G. M. Ward, and S. V. Gregory. 1983. Microbial
decomposition of wood in streams. Distribution of the microflora and factors
affecting 14C-lignocellulose mineralization. Applied and Environmental
Microbiology 46(6):1409-1416. Ore. Agric. Exp. Sta. Technical Paper No. 6915.
14.
Fuquay, J. I., Bottomley, P. J., and M. B. Jenkins. 1984. Complementary methods
for the differentiation of isolates of Rhizobium meliloti. Applied and Environmental
Microbiology 7(6):663-669. Ore. Agric. Exp. Sta. Technical Paper No. 6916.
15.
Dughri, M. H., and P. J. Bottomley. 1984. Soil acidity and the composition of an
indigenous population of Rhizobium trifolii in nodules of different cultivars of
Trifolium subterraneum L. Soil Biology and Biochemistry 16(5):405-411. Ore.
Agric. Exp. Sta. Technical Paper No. 6886.
16.
Demezas, D. H., and P. J. Bottomley. 1984. Identification of two dominant
serotypes of Rhizobium trifolii in root nodules of uninoculated field grown
Trifolium subterraneum L. Soil Sci. Soc. Am. J. 48(5):18. Ore. Agric. Exp. Sta.
Technical Paper No. 6973.
17.
Jenkins, M. B., and P. J. Bottomley. 1984. Seasonal responses of uninoculated
alfalfa to N fertilizer: soil N, nodule turnover and symbiotic effectiveness of
Rhizobium meliloti. Agronomy Journal 6(6):959-963. Ore. Agric. Exp. Sta.
Technical Paper No. 7046.
18.
Jenkins, M. B., and P. J. Bottomley. 1985. Evidence for a strain of Rhizobium
meliloti dominating the nodules of alfalfa. Soil Sci. Soc. Am. J. 49(2):326-328.
Ore. Agric. Exp. Sta. Technical Paper No. 6975.
19.
Eardly, B. D., D. B. Hannaway, and P. J. Bottomley. 1985. Nitrogen nutrition and
yield of seedling alfalfa as affected by ammonium nitrate fertilization. Agronomy J.
77(1):57-62. Ore. Agric. Exp. Sta. Technical Paper No. 7115.
20.
Jenkins, M. B., and P. J. Bottomley. 1985. Composition and field distribution of
the population of Rhizobium meliloti in root nodules of uninoculated field-grown
alfalfa. Soil Biology and Biochemistry 17(2):173-179. Ore. Agric. Exp. Sta.
Technical Paper No. 6996.
21.
Aumen, N. G., P. J. Bottomley, and S. V. Gregory. 1985. Impact of nitrogen and
phosphorus on [14C]lignocellulose decomposition by stream wood microflora.
Applied and Environmental Microbiology 49(5):1113-1118. Ore. Agric. Exp. Sta.
Technical Paper No. 7376.
22.
Aumen, N. G., P. J. Bottomley, and S. V. Gregory. 1985. Nitrogen dynamics in
stream wood samples incubated with [14C]lignocellulose and potassium
[15N]nitrate. Applied and Environmental Microbiology 49(5):1119-1123. Ore.
Agric. Exp. Sta. Technical Paper No. 7377.
P. J. Bottomley
29
Curriculum Vitae
23.
Doerge, T. A., P. J. Bottomley, and E. H. Gardner. 1985. Effect of pH and Mo on
the growth and N content of alfalfa grown on a moderately acid, high P soil.
Agronomy Journal 77(6):895-901. Ore. Agric. Exp. Sta. Technical Paper No. 7340.
24.
Eardly, B. D., D. B. Hannaway, and P. J. Bottomley. 1985. Characterization of
rhizobia from ineffective alfalfa nodules: ability to nodulate bean plants [Phaseolus
vulgaris (L.) Savi]. Applied and Environmental Microbiology 50(6):1422-1427.
Ore. Agric. Exp. Sta. Technical Paper No. 7535.
25.
Demezas, D. H., and P. J. Bottomley. 1986. Autecology in rhizospheres and
nodulating behavior of indigenous Rhizobium trifolii. Applied and Environmental
Microbiology 52(5):1014-1019. Ore. Agric. Exp. Sta. Technical Paper No. 7870.
26.
Demezas, D. H., and P. J. Bottomley. 1986. Inter-strain competition between
representatives of indigenous serotypes of Rhizobium trifolii. Applied and
Environmental Microbiology 52(5):1020-1025. Ore. Agric. Exp. Sta. Technical
Paper No. 7869.
27.
Demezas, D. H., and P. J. Bottomley. 1987. Influence of soil and non-soil
environments on nodulation by Rhizobium trifolii. Applied and Environmental
Microbiology 53(3):596-597. Ore. Agric. Exp. Sta. Technical Paper No. 7989.
28.
Leung, K., and P. J. Bottomley. 1987. Influences of phosphate on the growth and
nodulation characteristics of Rhizobium trifolii. Applied and Environmental
Microbiology 53(9):2098-2105. Ore. Agric. Exp. Sta. Technical Paper No. 8197.
29.
Almendras, A. S., and P. J. Bottomley. 1987. Influences of lime and phosphate on
nodulation of soil-grown Trifolium subterraneum L. by indigenous Rhizobium
trifolii. Applied and Environmental Microbiology 53(9):2090-2097. Ore. Agric.
Exp. Sta. Technical Paper No. 8096.
30.
Almendras, A. S., and P. J. Bottomley. 1988. Cation and phosphate influences on
nodulating characteristics of indigenous serogroups of Rhizobium trifolii on soil
grown Trifolium subterraneum L. Soil Biology and Biochemistry 20(3):345-351.
Ore. Agric. Exp. Sta. Technical Paper No. 8205.
31.
Valdivia, B., M. H. Dughri, and P. J. Bottomley. 1988. Antigenic and symbiotic
characterization of indigenous Rhizobium trifolii recovered from root nodules of
Trifolium pratense L. sown into subterranean clover pasture soils. Soil Biology and
Biochemistry 20(3):267-274. Ore. Agric. Exp. Sta. Technical Paper No. 8212.
32.
Eardly, B. D., D. B. Hannaway, and P. J. Bottomley. 1988. Residual effects of
Rhizobium and preplant N fertilizer on newly established alfalfa. J. of Agron. and
Crop Sci. 161:310-315. Ore. Agric. Exp. Sta. Technical Paper No. 7322.
P. J. Bottomley
30
Curriculum Vitae
33.
Bottomley, P. J., and M. H. Dughri. 1989. Population size and distribution of
Rhizobium trifolii in relation to total soil bacteria and soil depth. Applied and
Environmental Microbiology 55(4):959-964. Ore. Agric. Exp. Sta. Tech. Paper
No. 8704.
34.
Busse, M. D., and P. J. Bottomley. 1989. Symbiotic characteristics of alfalfa
cultivars influenced by a competitive serogroup of Rhizobium meliloti. Plant and
Soil 117:255-262. Oregon Agric. Exp. Sta. Technical Paper No. 8716.
35.
Busse, M. D., and P. J. Bottomley. 1989. Growth and nodulation responses of
Rhizobium meliloti to water stress induced by permeable and impermeable solutes.
Applied and Environmental Microbiology 55(10):2431-2436. Ore. Agric. Exp. Sta.
Tech. Paper No. 8845.
36.
Bottomley, P. J., and S. Maggard. 1990. Determination of viability within
serotypes of a soil population of Rhizobium leguminosarum bv. trifolii. Applied
and Environmental Microbiology 56(2):533-540. Ore. Agric. Exp. Sta. Tech. Paper
No. 8715.
37.
Leung, K., K. Yap, N. Dashti, and P. J. Bottomley. 1994. Serological and
ecological characteristics of a nodule dominant serotype from an indigenous soil
population of Rhizobium leguminosarum bv. trifolii. Appl. Environ. Microbiol.
60:406-413. Ore. Agric. Exp. Sta. Technical Paper No. 10,284.
38.
Leung, K., S. R. Strain, F. J. de Bruijn, and P. J. Bottomley. 1994. Genotypic and
phenotypic comparisons of chromosomal types within an indigenous soil population
of Rhizobium leguminosarum bv. trifolii. Appl. Environ. Microbiol. 60:414-424.
Ore. Agric. Exp. Sta. Technical Paper No. 10,285.
39.
Leung, K., F. N. Wanjage, and P. J. Bottomley. 1994. Symbiotic characteristics of
Rhizobium leguminosarum bv. trifolii isolates which represent major and minor
nodule occupying chromosomal types of field-grown subclover (Trifolium
subterraneum L.). Appl. Environ. Microbiol. 60:425-431. Ore. Agric. Exp. Sta.
Technical Paper No. 10,286.
40.
Leung, K., and P. J. Bottomley. 1994. Growth and nodulation characteristics of
subclover (Trifolium subterraneum L.) and Rhizobium leguminosarum bv. trifolii at
different soil water potentials. Soil Biology and Biochemistry 26:805-812. Ore.
Agric. Exp. Sta. Technical Paper No. 10,306.
41.
Bottomley, P. J. H-H. Cheng, and S. R. Strain. 1994. Genetic structure and
symbiotic characteristics of a Bradyrhizobium population recovered from a pasture
soil. Appl. Environ. Microbiol. 60:1754-1761. Ore. Agric. Exp. Sta. Technical
Paper No. 10,336.
42.
Strain, S. R., K. Leung, T. S. Whittam, F. J. de Bruijn, and P. J. Bottomley. 1994.
Genetic structure among Rhizobium leguminosarum bvs. trifolii and viciae
P. J. Bottomley
31
Curriculum Vitae
populations found in two Oregon soils under different plant communities. Appl.
Environ. Microbiol. 60:2772-2778. Ore. Agric. Exp. Sta. Technical Paper No.
10,375.
43.
Strain, S. R., T. S. Whittam, and P. J. Bottomley. 1995. Analysis of genetic
structure in soil populations of Rhizobium leguminosarum recovered from the USA
and the UK. Molecular Ecology 4:105-114. Ore. Agric. Exp. Sta. Technical Paper
No. 10,376.
44.
N. Hommes, S. R. Russell, P. J. Bottomley, and D. J. Arp. 1998. Effects of soil
properties on ammonia, ethylene, chloroethane, and 1,1,1-trichloroethane oxidation
by Nitrosomonas europaea. Appl. Environ. Microbiol. 14: 1372-1378. Ore. Agric.
Exp. Sta. Technical Paper No. 11,230.
45.
Mendes, I., R. P. Dick, and P. J. Bottomley. 1998. Distribution of a population of
Rhizobium leguminosarum bv. trifoliii among different size classes of soil
aggregates. Appl. Environ. Microbiol. 64: 970-975. Ore. Agric. Exp. Sta.
Technical Paper No. 11,225.
46.
Mendes, I.C., A. K. Bandick, R. P. Dick, and P. J. Bottomley. 1999. Microbial
biomass and activities in soil aggregates affected by winter cover crops. Soil Sci.
Soc. Am. J. 63: 873-881. Ore. Agric. Exp. Sta. Technical Paper No. 11,224
47.
Yeager , C.M., P.J. Bottomley, D.J. Arp, and M.R. Hyman. 1999. Inactivation of
toluene 2-monooxygenase in Burkholderia cepacia G4 by alkynes. Appl. Environ.
Microbiol. 65: 632-639.
48.
Bottomley, P. J., T. E. Sawyer, L. Boersma, R. P. Dick, and D. Hemphill. 1999.
Winter cover crop enhances 2,4-D mineralization potential of surface and
subsurface soil. Soil Biol. and Biochem. 31: 849-857. Ore. Agric. Exp. Sta.
Technical Paper No. 10,882.
49.
Duddleston, K. N., P. J. Bottomley, A.J. Porter, and D. J. Arp. 2000. New insights
into methyl bromide cooxidation by Nitrosomonas europaea. obtained by
experimenting with moderately low cell density suspensions. Appl. Environ.
Microbiol. 66: 2726-2731. Ore. Agric. Exp. Sta. Technical Paper No. 11,394.
50.
Duddleston, K.N., P.J. Bottomley, A.J. Porter, and D.J. Arp. 2000. Effects of soil
and water content on methyl bromide oxidation by the ammonia-oxidizing
bacterium, Nitrosomonas europaea. Appl. Environ. Microbiol. 66: 2636-2640. Ore.
Agric. Exp. Sta. Technical Paper No. 11,573
51.
Whelan, J.K, P.J. Bottomley, and D.D. Myrold. 2000. Carbon and nitrogen
mineralization from light and heavy-fraction additions to soil. Soil Biol. Biochem.
32: 1345-1352.
52.
Runes, H., P.J. Bottomley, R.N. Lerch, and J. Jenkins. 2001. Atrazine remediation
P. J. Bottomley
32
Curriculum Vitae
in wetland microcosms. Environ. Toxic. & Chem. 20: 1059-1066.
53.
Yeager, C.M. P.J. Bottomley, and D.J. Arp. 2001. Cytotoxicity associated
with TCE oxidation in Burkholderia cepacia G4. Appl. Environ. Microbiol. 67:
2107-2115.
54.
Whelan, J.K., P.J. Bottomley, and D.D. Myrold. 2001. Short term nitrogen
transformations in bulk and root-associated soil under ryegrass Soil Biol.
Biochem.33: 1937-1945.
55.
Runes, H.B., J.J. Jenkins, and P.J. Bottomley. 2001. Atrazine degradation by
bioaugmented sediment from constructed wetlands. Appl. Microbiol.& Biotechnol.
57: 427-432
56.
Uesugi, S.M., J.S. Selker, and P.J. Bottomley. 2001. A model that uses induction
phase kinetics of lux gene-dependent bioluminescence in Pseudomonas fluorescens
HK44 to quantify cell density in unsaturated porous media. J. Microbiological
Methods. 47: 315-322.
57.
Yeager, C.M. P.J. Bottomley, and D.J. Arp. 2001. The requirement of DNA repair
mechanisms for the survival of Burkholderia cepacia G4 upon degradation of
trichloroethylene. Appl. Environ. Microbiol. 67: 5384-5391.
58.
Rockhold, M.L., R.R. Yarwood, M.R. Niemet, P.J. Bottomley, and J.S. Selker.
2002. Considerations for modeling microbially induced changes in hydraulic
properties of variably-saturated porous media. Advances in Water Research. 25:
477-495.
59.
Cliff, J.B., P.J. Bottomley, R. Haggerty, and D.D. Myrold. 2002. Modeling the
effect of mass transfer limitations on 15N isotope dilution experiments in soil
aggregates. Soil Sci. Soc. Am. J. Vol. 66: 1868-1877.
60.
Cliff, J.B., D. Gaspar, D.D. Myrold, and P.J. Bottomley. 2002. Exploration of
inorganic C and N assimilation by soil microbes with Time-of-flight Secondary Ion
Mass Spectrometry. Appl. Environ. Microbiol. 68: 4067-4073.
61.
Yarwood, R.R., M.L. Rockhold, M.R. Niemet, J.S. Selker, and P.J. Bottomley.
2002. Non-invasive quantitative measurement of bacterial growth in porous media
under unsaturated -flow conditions. Appl. Environ. Microbiol. 68: 3597-3605.
62.
Duddleston, K. N., D. J. Arp, and P. J. Bottomley. 2002. Biodegradation of
monohalogenated alkanes by soil ammonia-oxidizing bacteria. Appl. Microbiol.
Biotechnol. 59: 535-539.
63.
Runes, H.B., Jenkins, J.J., Moore, J.A., Bottomley, P.J., and B.D. Wilson.
2003. Treatment of atrazine in nursery irrigation runoff by a constructed
wetland. Water Research 37: 539-550.
P. J. Bottomley
33
Curriculum Vitae
64.
Mintie, A., R. Heichen, K. Cromack, D.D. Myrold, and P.J. Bottomley. 2003.
Ammonia-oxidizing bacteria along meadow-to-forest transects in the Oregon
Cascade Mountains. Appl. Environ. Microbiol. 69: 3129-3136.
65.
Butler, J.L., M.A. Williams, P.J. Bottomley, and D.D. Myrold. 2003. Microbial
community dynamics associated with rhizosphere carbon flow. Appl. Environ.
Microbiol. 69: 6793-6800.
66.
J.J. Rich, R.S. Heichen, P.J. Bottomley, K.C. Cromack, and D.D. Myrold. 2003.
Community composition and functioning of denitrifying bacteria from adjacent
meadow and forest soils. Appl. Environ. Microbiol. 69: 5974-5982.
67.
Butler, J.L., P.J. Bottomley, S.M. Griffith, and D.D. Myrold. 2004. Distribution and
turnover of recently fixed photosynthate in ryegrass rhizospheres. Soil Biol.
Biochem. 36: 371-382.
68.
Yeager, C.M., P.J. Bottomley and D.J. Arp. 2004. Trichloroethylene degradation
by toluene-oxidizing bacteria grown on non-aromatic substrates. Biodegradation
15: 19-28.
69.
Cliff, J.B., D.J. Gaspar, P.J. Bottomley, and D.D. Myrold. 2004. Peak
fitting to resolve CN- isotope ratios in biological and environmental samples
using TOF-SIMS. J. Applied Surface Science. 231: 912-916.
70.
P.J. Bottomley, A.E. Taylor, S.A. Boyle, S.K. McMahon, J.J. Rich, K. Cromack,
Jr, and D.D. Myrold. 2004. Responses of nitrification and ammonia oxidizing
bacteria to reciprocal transfers of soil between adjacent coniferous forest and
meadow vegetation in the Cascade Mountains of Oregon. Microbial Ecology 48:
500-508.
71.
S. K. McMahon, P.J. Bottomley and D.D. Myrold. 2005. Dynamics of microbial
communities during decomposition of 13C labeled ryegrass fractions in soil. Soil
Sci. Soc. Amer. J. 69: 1238-1247.
72.
Halsey, K.H., L.A. Sayavedra-Soto, P.J. Bottomley, and D.J. Arp. 2005.
TCE degradation by butane-oxidizing bacteria causes a spectrum of toxic effects.
Appl. Microbiol.& Biotechn. 68: 794-801.
73.
Rockhold, M.L., R.R. Yarwood, M.R. Niemet, P.J. Bottomley, and J. S.
Selker. 2005. Experimental observations and numerical modeling of coupled
microbial and transport processes in variably saturated sand. Vadose Zone J.
Vol 4: 407-417.
74.
Doughty, D.M., L.A. Sayavedra-Soto, D.J. Arp, and P.J. Bottomley. 2005.
Dichloroethenes as substrates and inducers of butane monooxygenase in
Pseudomonas butanovora. Appl. Environ. Microbiol. 71: 6054-6059.
P. J. Bottomley
34
Curriculum Vitae
75.
Sayavedro-Soto, L.A., D.M. Doughty, E. Kurth, P.J. Bottomley, and D.J. Arp. 2005.
Inducer and inducer –independent induction of butane oxidation in Pseudomonas
butanovora. FEMS Microbiology Letters. 250: 111-116.
76.
Taylor, A.E., and P.J. Bottomley. 2006. Comparative kinetics of ammonia
oxidation and growth of Nitrosospira AV and Nitrosomonas europaea in different
Oregon soils. Soil Biol. & Biochem. 38: 828-836.
77.
Williams, M.A., D.D. Myrold and P.J. Bottomley. 2006. Carbon flow from 13C
labeled straw and root residues into the phospholipid fatty acids of a soil microbial
community under field conditions. Soil Biol. Biochem. 38, 759-768.
78.
Williams, M., D.D. Myrold and P.J. Bottomley. 2006. Distribution and fate
of 13C labeled root and straw residues from ryegrass and crimson clover in
soil under western Oregon field conditions. Biol. Fertil. Soils.42:523-531.
79.
S.A. Boyle, S.A., J. J. Rich, P.J. Bottomley, K. Cromack, and D. D. Myrold. 2006.
Reciprocal transfer effects on denitrifying community composition and activity at
forest and meadow sites in the Cascade Mountains of Oregon. Soil Biology &
Biochem. 38, 870-878.
80.
S.S. Starkenburg, L. Sayavedra-Soto, M. Klotz, P.J. Bottomley, D.J. Arp, and
W.E. Hickey, 2006. The genome sequence of the nitrite-oxidizing bacterium,
Nitrobacter winogradskyi. Appl. Environ. Microbiol. 72, 2050-2063.
81.
Doughty, D.M., L. Sayavedra-Soto, P.J. Bottomley and D.J. Arp. 2006. Product
repression of butane monooxygenase expression in ‘Pseudomonas butanovora’. J.
Bacteriol. 188: 2586-2592.
82.
Halsey, K.H., Sayavedra-Soto, L.A., Bottomley, P.J., and D.J. Arp. 2006. Site
directed amino acid substitutions in the hydroxylase α subunit of butane
monooxygenase from P. butanovora : implications for substrates knocking at the
gate. J. Bacteriol. 188, 4962-4969.
83.
Yarwood, R.R., M.L. Rockhold, M.R. Niemet, J.S. Selker, and P.J. Bottomley.
2006. Impact of microbial growth on water flow and solute transport in unsaturated
porous media. Water Resources. Res. 42, W10405, doi:10.1029/2005WR004550.
84.
Arp, D.J., and P.J. Bottomley. 2006. Nitrifiers: more than 100 years from
isolation to genome sequences. Microbe 1, 229-234.
85.
P.J. Bottomley, D.D. Myrold, K. Cromack Jr, M.A. Williams, R. Yarwood, K.
Waterstripe and S. Kageyawa. 2006. Effects on soil bacterial and fungal microbial
communities of reciprocally transplanting soil from meadows and forests in the
Cascade Mountains of Oregon. Plant and Soil. 289, 35-45.
P. J. Bottomley
35
Curriculum Vitae
86.
Williams, M.A., D.D. Myrold, and P.J. Bottomley. 2007. Insights into residue
colonization by a soil microbial community under western Oregon field conditions.
Soil Biology & Biochemistry 39: 819-822.
87.
Cliff, J.B., P.J. Bottomley, D. J. Gaspar, and D.D. Myrold. 2007. Nitrogen
Mineralization and Assimilation at millimeter scales. Soil Biology and
Biochemistry. 39: 823-826.
88.
M.L. Rockhold, R.R. Yarwood, M. R. Niemet, P.J. Bottomley, F.J.
Brockman and J.S. Selker. 2007. Visualization and Modeling of the
Colonization Dynamics of a Bioluminescent Bacterium in Variably
Saturated, Translucent Quartz Sand. Advances in Water Resources
Research. 30: 1593-1607.
89.
Gvakharia, B., Sayavedra-Soto, L.A., P.J. Bottomley, and D.J. Arp. 2007. Global
transcriptional response of Nitrosomonas europaea to chloroform and
chloromethane. Appl. Environ. Microbiol. 73: 3440-3445.
90.
Taylor, A.E., Semprini, L, and P.J. Bottomley. 2007. Use of fluoroethene as a
surrogate to evaluate oxidative biodegradation of vinyl chloride. Environ. Sci.
Techn. 41: 6378-6383.
91.
Halsey, K.H., D.M. Doughty, P.J. Bottomley, and D.J. Arp. 2007.
Evidence for modified mechanisms of chloroethene oxidation in P. butanovora
mutants containing single amino acid substitutions in the hydroxylase α subunit of
butane monooxygenase. J. Bacteriol.189: 5068-5074.
92.
Doughty, D.M., Halsey, K.H., Vievelle, C., Sayavedra-Soto, L.A., D.J. Arp and P.J.
Bottomley. 2007. Propionate dependent, mechanism-based irreversible inactivation
of butane monooxygenase activity in P. butanovora. Microbiology, 153:3722-3729.
93.
Boyle, S.A., P.J. Bottomley and D.D. Myrold. 2008. Bacterial and fungal
contributions to soil nitrogen cycling under Douglas fir and Red alder at two sites in
Oregon. Soil Biol. Biochem. 40:443-451.
94.
Kurth, E., Doughty, D.M., Bottomley, P.J., Arp, D.J., and Sayavedra-Soto, L. 2008.
Involvement of BmoR and BmoG in n-alkane metabolism in Pseudomonas
butanovora. Microbiology. 154:139-147.
95.
Kageyama, S., Posavatz, N.R., Waterstripe, K.E., Jones, S.J., Bottomley, P.J.,
Cromack, K., and D.D. Myrold. 2008. Fungal and bacterial communities across
meadow/forest ecotones in the western Cascades of Oregon. Can. J. For. Res. 38, 18.
P. J. Bottomley
36
Curriculum Vitae
96.
Doughty, D.M., Kurth, E.G., Sayavedra-Soto, L., D.J. Arp, and P.J. Bottomley.
2008. Evidence for the involvement of copper ions and redox in regulation of
butane monooxygenase in Pseudomonas butanovora. J. Bacteriol. 190: 2933-2938.
97.
Starkenburg, S.S., et al. and P.J. Bottomley. 2008. The complete genome sequence
of Nitrobacter hamburgensis X14 and a comparative genomic analysis of species
within the genus Nitrobacter. Appl. Environ. Microbiol. 74: 2852-2863.
98.
Boyle-Yarwood, S.A., P.J. Bottomley and D.D. Myrold. 2008. Community
composition of ammonia oxidizing bacteria and archaea in soils under stands of red
alder and Douglas fir in Oregon. Environ. Microbiol. 10: 2956-2965.
99.
Norton, J. Bottomley, P.J., Klotz, M., Stein, L., and D.J. Arp. 2008. Complete
genome sequence of Nitrosospira multiformis. an ammonia-oxidizing bacterium
from the soil environment. Appl. Environ. Microbiol. 74: 3559-3572.
100.
Starkenburg, S., D.J. Arp, and P.J. Bottomley. 2008. D-lactate metabolism
and the obligate requirement for CO2 during growth on nitrite by the
facultative lithoautotroph, Nitrobacter hamburgensis. Microbiology. 154:
2473-2481.
101.
Starkenburg, S.S., D.J. Arp and P.J. Bottomley. 2008. Expression of a putative
nitrite reductase and the reversible inhibition of nitrite-dependent respiration by
nitric oxide in Nitrobacter winogradskyi Nb-255. Environ. Microbiol. 10: 30363042.
102.
Dubbels, B.L., Sayavedra-Soto, Bottomley, P.J., and D.J. Arp. 2009. Thauera
butanivorans sp. nov., a C2-C9 alkane oxidizing bacterium previously known as
‘Pseudomonas butanovora’. Int. J. Syst. Evolut. Microbiol. 59: 1576-1578.
103.
Chaer, G., D.D. Myrold, and P.J. Bottomley. 2009. Development and validation of
a soil quality index based on the equilibria between soil organic matter and
biochemical properties in an undisturbed forest ecosystem. Soil Biol. Biochem. 41:
822-830.
104.
Gvakharia, B., Bottomley, P.J., Sayavedra-Soto, L., and D.J. Arp. 2009.
Construction of recombinant Nitrosomonas europaea expressing green fluorescent
protein in response to co-oxidation of chloroform. Appl. Microbiol. Biotechnol. 82:
1179-1185.
105.
Chaer, G., Fernando, M., and P.J. Bottomley. 2009. Comparative resistance and
resilience of soil microbial communities and enzyme activities in adjacent native
forest and agricultural soils. Microbial Ecol. 58: 414-424.
106.
Chaer, G., Fernandez, M., D.D. Myrold, and P.J. Bottomley. 2009. Shifts in
microbial community composition and physiological profiles across a gradient of
induced soil degradation. Soil Sci. Soc. Am. J. 73:1337-1344
P. J. Bottomley
37
Curriculum Vitae
107. Cooley, R.B., B.L. Dubbels, L. Sayavedra-Soto, P.J. Bottomley, and D.J.
Arp. 2009. Kinetic characterization of the soluble butane monooxygenase
from Thauera butanivorans formerly ‘Pseudomonas butanovora’.
Microbiology 155: 2086-2096.
108.
Cooley, R.B., P.J. Bottomley, and D.J. Arp. 2009. Growth of a non-methanotroph
on natural gas: ignoring the obvious to focus on the obscure. Environ. Microbiol
Reports 1: 408-413.
109.
Taylor, A.E., L. Semprini, and P.J. Bottomley. 2010. Expanding the alkene growth
substrate range of Nocardioides JS614 using ethene oxide. Appl. Microbiol &
Biotechnol. 87: 2293-2302.
110.
Kluber, L. K., Tinnesand, B. Caldwell, S. Dunham, Yarwood, R., D.D. Myrold,
and P.J. Bottomley. 2010. Ectomycorrhizal mats modify forest soil
biogeochemistry. Soil Biol. Biochem. 42: 1610-1613.
111.
Taylor, A.E., L. Zeglin, S. Dooley, D. Myrold, and P.J. Bottomley. 2010.
Evidence for different contributions of archaea and bacteria to the
ammonia-oxidizing potential of diverse Oregon soils. Appl. Environ.
Microbiol. 76 : 7691-7698.
112.
Vajrala, N., Luis A. Sayavedra-Soto, P. J. Bottomley, and D. J. Arp 2010.
Role of NitABC iron transporter in the uptake of Fe3+ siderophore. Arch.
Microbiol.192 : 899-908.
113.
Boyle, S.A., Bottomley, P.J., and D.D. Myrold. 2010. Soil microbial communities
associated with Douglas fir and Red Alder Stands at high and low productivity sites
in Oregon, USA. Microb. Ecology.60: 606-617.
114.
S.R. Starkenburg, Eva Spieck, and P.J. Bottomley . 2011. Metabolism and genomics
of nitrite oxidizing bacteria. pp. 267-293. In: Nitrification. (Ward, B.B., Arp, D.J.,
and Klotz, M., eds.) ASM Press, Washington DC.
115.
116.
P. J. Bottomley
Sayavedra--Sota, L.A., Gvakharia B., Bottomley P.J., Arp D.J., and Dolan
M. (2010). Nitrification and degradation of halogenated hydrocarbons– a
tenuous balance for Ammonia oxidizing bacteria. Mini--‐Review. Applied
and Environmental Microbiology 86(2):435--‐444.
N.Vajrala, Luis A Sayavedra-Soto, P. J. Bottomley and D. J. Arp. 2011. Role of a
Fur homolog in iron metabolism in Nitrosomonas europaea (2011) BMC
Microbiology 11:37
38
Curriculum Vitae
117.
Zelig, L., A. Taylor, D. Myrold and P.J. Bottomley. 2011. Bacterial and
archaeal amoA gene distribution covaries with soil nitrification properties
across a range of land uses. Environ. Microbiol. Reports. 3, 717-726
118. Vajrala, N., Sayavedra-Soto, L.A., P.J. Bottomley, and D.J. Arp. 2012. Global
analysis of the N. europaea iron starvation stimulon. Arch. Microbiol. 194: 305313.
119. Taylor, A.E., Zeglin, L., Wanzek, T., D. Myrold, and P.J. Bottomley. 2012.
Dynamics of ammonia oxidizing archaeal and bacterial populations and
contributions to soil nitrification potentials. ISME J. 6, 2024-2032
120.
Bottomley, P.J., Taylor, A.E., and D.D. Myrold. 2012. A consideration of the
relative contributions of different microbial subpopulations to the soil N cycle.
Mini-Review. Frontiers in Terrestrial Microbiology. Vol 3, 1-7.
121.
Vajrala, N., W. Martens-Habbena, L. A. Sayavedra-Soto, A.Schauer, P.J.
Bottomley, D.A. Stahl, D.J. Arp. 2013. Hydroxylamine as an intermediate
in ammonia oxidation by globally abundant marine archaea.
Proc.Natl.Acad.Sci. 110:1006-1011.
122.
L. H. Zeglin, P. J. Bottomley, A. Jumpponen, C. W. Rice, M. Arango, A.
Lindsley , A.McGowan, P. Mfombep, and D. D. Myrold. 2013. Altered
precipitation regime affects the function and composition of soil microbial
communities on multiple time scales. Ecology 94: 2334-2345.
123.
S. A. Kageyama, N. R. Posavatz, S.S. Jones, K. E. Waterstripe, P.J.
Bottomley, K. Cromack, Jr., and David D. Myrold. 2013. Effects of
Disturbance Scale on Soil Microbial Communities in the Western Cascades
of Oregon. Plant and Soil.372: 459-471.
124. Taylor, A.E., Vajrala, N., Giguere, A., D.J. Arp, L. Sayavedra-Soto, A.
Gittelman, D.D. Myrold, and P.J. Bottomley. 2013. Use of aliphatic nalkynes to discriminate soil nitrification activities of ammonia oxidizing
thaumarchaea and bacteria. Applied and Environmental Microbiology 79:
6544-6551.
125. Vajrala, N., P.J. Bottomley, D.A. Stahl, D.J. Arp and L. Sayavedra-Soto. 2014.
Cycloheximide prevents de novo polypeptide synthesis in the marine archeon,
Nitrosopumilus maritimus. FEMS Microbial Ecology 88: 495-502.
P. J. Bottomley
39
Curriculum Vitae
126. Perez, J., A. Buchanan, R. Ferrell, B. Mellbye, J. Chang, F. Chaplen, P. J.
Bottomley, D. J. Arp, and L. Sayavedra-Soto. 2014. Interactions of Nitrosomonas
europaea and Nitrobacter winogradskyi grown in coculture . Archives of
Microbiology. DOI 10.1007/s00203-014-1056-1
127. Taylor, A.E., Taylor, Kc, Tennigkeit, B., Myrold, D.D., Schleper, C., and Wagner,
M., and P.J. Bottomley. (2014). In press. Inhibitory effects of n-alkynes on NH3
oxidation by pure cultures of Nitrososphaera viennensis and N. gargensis. Appl.
Environ. Microbiol.
128. Sayavedra-Soto, L., R. Ferrell, M. Dobie, R. Ferrell, Mellbye, B., F. Chaplen, A.
Buchanan, J. Chang, Arp, D., and P.J. Bottomley. 2014. In press. Nitrobacter
winogradskyi transcriptomic response to low and high ammonium concentrations
FEMS Microbiology.
129.
Lu, X., Myrold, D.D., and P.J. Bottomley. 2014. In press. Contributions of
thaumarchaea and bacteria to soil nitrification in acid forest soils of differing N
availability. Soil Biol. Biochem.
130. Giguere, A., A. Taylor, D. Myrold, and P.J. Bottomley. 2014. In review. NH4+
availability and the relative contributions of NH3 oxidizing Thaumarchaea and
Bacteria to soil nitrification. Soil Sci. Soc. Am. J.
129.
Taylor, A.E., Tenningkeit, B., Myrold, D.D., and P.J. Bottomley. 2014. In
preparation. Differential effects of soil temperature on the NH3 oxiding activies of
soil borne ammonia oxidizing Archaea and Bacteria. Soil Biol. Biochem.
132.
De Crappeo, N.M., Pyke, D., and P.J. Bottomley. 2014. In preparation. Soil
microbial community compositional responses to invasion of sagebrush steppe by
cheatgrass. Oecologia.
133.
De Crappeo, N.M., Pyke, D., and P.J. Bottomley. 2014. In prepation. Contributions
of bacteria and fungi to N cycling in soils under sagebrush steppe and cheat grass.
Soil Biol. Biochem.
134.
Blanchard, J., Kluber, L.,Yarwood, S.A., D.D. Myrold, P.J. Bottomley. 2014. In
preparation. Shifts in fungal and bacterial community composition during the death
and birth of ectomycorrhizal mats. Microbial Ecology.
135.
Taylor, A.E., P.J. Bottomley and L. Semprini. 2013. In preparation. Properties of
induced growth on vinyl bromide by Nocardioides JS614; growth on a combination
of inhibitory substrates.Water Resources Research.
P. J. Bottomley
40
Curriculum Vitae
14b.
Book Chapters
1.
Bottomley, P. J. 1991. Soil microbiology. In 7th edition of the McGraw-Hill
Encyclopedia of Science and Technology. McGraw-Hill Publishing Co. New
York.
2.
Robson, A., and P. J. Bottomley. 1991. Problems in the use of legumes in
agriculture and forestry. In: Biology and Biochemistry of Nitrogen Fixation
(Dilworth, M. J. and A. R. Glenn, eds.). pp. 320-349. Elsevier, Amsterdam.
3.
Bottomley, P. J. 1992. Ecology of Bradyrhizobium and Rhizobium. In: Biological
Nitrogen Fixation (Stacey, G. et al., eds.). pp. 292-347. Chapman and Hall, New
York. Ore. Agric. Exp. Sta. Technical Paper No. 9157.
4.
Bottomley, P. J. 1994. Light microscopic methods for studying soil
microorganisms. In: Methods of Soil Analysis (Weaver, R., S. A. Angle, and P. J.
Bottomley, eds.): pp. 81-105. Microbiological and Biochemical Properties. Amer.
Soc. Agron. Monogr. No. 9, 3rd edition. Amer. Soc. Agron., Madison, Wisconsin.
Ore. Agric. Exp. Sta. Technical Paper No. 9938.
5.
Bottomley, P. J. 1997. Microbial ecology. In: Principles and applications of soil
microbiology (D. Sylvia, et al., ed.). Prentice Hall, NJ.
6.
Bottomley, P.J. 2004. Microbial ecology. In: Principles and Applications of Soil
Microbiology, 2nd edition (D. Sylvia, et al., ed.). Prentice Hall, NJ.
7.
Bottomley, P.J. and D.D. Myrold. 2007. Nitrogen inputs to soil. In: Soil Biology and
Biochemistry 3rd edition (E.A. Paul, ed). Academic Press.
8.
Bottomley, P.J. and D.D. Myrold. 2014. Nitrogen inputs to soil. In: Soil Biology and
Biochemistry 4rd edition (E.A. Paul, ed). Academic Press.
14c. Reviews authored or coauthored.
1.
P. J. Bottomley
Bottomley, P. J. 1993. Microbial activity in soil. Curr. Opinion in Biotechnol.
4:318-322. Ore. Agric. Exp. Sta. Technical Paper No. 10,129.
41
Curriculum Vitae
2.
Bottomley, P. J., and J. Brockwell. 1995. Recent advances in inoculant technology
and prospects for the future. Soil Biology and Biochemistry. Vol. 27:683-697.
Ore. Agric. Exp. Sta. Technical Paper No. 9156.
3.
Brockwell, J., P. J. Bottomley, and J. E. Thies. 1995. Manipulation of rhizobia
microflora for improving legume productivity and soil fertility: a critical
assessment. Plant and Soil 174:143-180.
4.
Myrold, D.D., and P.J. Bottomley. 2008. Mineralization and immobilization of
nitrogen in soils. Chapter 5, pp 153-167. In: Nitrogen in Agricultural Soils,
Monograph. American Society of Agronomy, Madison, WI
5.
Arp, D.J., and P.J. Bottomley. 2006. Nitrifiers: More than 100 years from
Isolation to Genome Sequences. Genomic analysis helps to address longstanding metabolic mysteries and suggests mutualism among some nitrifiers.
Amer. Soc. Microbiol. News. June Issue.
6.
P.J. Bottomley and Starkenburg, S.R. 2010. Microbial biology of nitrite oxidizing
bacteria. In: Nitrification. (Arp, D.J., Klotz, M., and B. Ward, eds.) ASM Press,
Washington DC.
7.
Myrold, D.D , J. Pett-Ridge, and P.J. Bottomley 2011. Methods to measure N
processes at the millimeter scale. In: Methods of Enzymology, (M. Klotz, ed).
Academic Press
8.
Bottomley, P.J., Taylor, A.E., and D.D. Myrold. 2012. A consideration of the
relative contributions of different microbial subpopulations to the soil N cycle.
Mini-Review. Frontiers in Microbiology. Vol 3, 1-7.
14d. Books Edited
1.
Nitrogen Fixation Research Progress. 1985. (Evans, H. J., P. J. Bottomley, and W.
E. Newton, eds.). Martinus Nijhoff, Dordrecht, Netherlands. 731 p.
2.
Methods of Soil Analysis: Microbiological and Biochemical Methods. 1994.
(R. W. Weaver, J. S. Angle, and P. J. Bottomley, eds.). American Society of
Agronomy Monograph. Madison, WI.
14e. Books Reviewed
1.
Practical Symbiotic Nitrogen Fixation Technology (Elkan, G. H., ed.). Marcel Dekker, Inc.
New York. U.S.A.
2,
Soil Microbiology and Biochemistry 2nd ed. (E. A. Paul and F. E. Clark, eds.). Academic
Press. San Diego.
P. J. Bottomley
42
Curriculum Vitae
14f. Publications in Conference Proceedings
1.
Stewart, W. D. P., and P. J. Bottomley. 1976. The nitrogenase of blue-green algae.
Proc. 1st Int. Symp. Nitrogen Fixation (Newton, W. E., ed.), pp. 257-273.
2.
Bottomley, P. J., and W. D. Stewart. 1976. Phosphorylation and nitrogenase
activity in heterocystous blue-green algae. In: Proceedings of the Second
International Conference on Photosynthetic Prokaryotes (Codd, G. A., and W. D. P.
Stewart, eds.). p. 134. Dundee University Press, Dundee, Scotland.
3.
Bottomley, P. J., G. Stacey, and F. R. Tabita. 1978. Repression of heterocysts and
nitrogenase in Anabaena. p. 31-37. Special meeting on "Molecular Biology of
Photosynthetic Microorganisms." Indiana University, Bloomington, Nov. 1978.
4.
Bottomley, P. J., J. F. Grillo, J. W. Gotto, C. Van Baalen, and F. R. Tabita. 1979.
Novel aspects of inorganic nitrogen assimilation in two heterocystous
cyanobacteria. B29. In: Proceedings of the Third International Conference on
Photosynthetic Prokaryotes (J. M. Nichols, ed.). Oxford University, England.
5.
Bottomley, P. J., J. F. Grillo, J. W. Gotto, C. Van Baalen, and F. R. Tabita. 1979.
Studies on the oxygen sensitivity of a stable mutant of Anabaena sp. CA during
growth on N2. B28 In: Proceedings of the Third International Conference on
Photosynthetic Prokaryotes (J. M. Nichols ed.). Oxford University, England.
6.
Bottomley, P. J. 1980. Cost of assimilation of different sources of inorganic
nitrogen by photosynthetic prokaryotes. In: The Energetics of Biological Nitrogen
Fixation (Schubert, K. R., ed.). American Society of Plant Physiologists. Spec.
Publication.
7.
Demezas, D. H., and P. J. Bottomley. 1983. Characteristics of the population of
Rhizobium trifolii in an old subclover-grass pasture and its relationship to forage
yield and quality. In: Proceedings of the Second International Symposium on
Foothills for Food and Forests (D. B. Hannaway, ed.). p. 323-324. Timber Press,
Beaverton.
8.
Eardly, B. D., D. B. Hannaway, and P. J. Bottomley. 1985. Nodulation of bean
(Phaseolus vulgaris) by rhizobia from alfalfa nodules. In: Proceedings of the Sixth
International Symposium on Nitrogen Fixation (Evans, H. J., Bottomley, P. J., and
Newton, W. E., eds.). p. 316. Martinus Nijhoff, Dordrecht, Netherlands.
9.
Almendras, A. S., and P. J. Bottomley. 1985. Effects of phosphorus and lime upon
nodulation by indigenous serogroups of Rhizobium trifolii. In: Proceedings of the
P. J. Bottomley
43
Curriculum Vitae
Sixth International Symposium on Nitrogen Fixation (Evans, H. J., Bottomley, P.
J.,and Newton, W. E., eds.). p. 395. Martinus Nijhoff, Dordrecht, Netherlands.
10.
Busse, M. D., Jenkins, M. B., and P. J. Bottomley. 1985. Soil distribution, cultivar
effects and competitiveness of a serogroup of Rhizobium meliloti. In: Proceedings
of the Sixth International Symposium on Nitrogen Fixation (Evans, H. J.,
Bottomley, P. J., and Newton, W. E., eds.). p. 398. Martinus Nijhoff, Dordrecht,
Netherlands.
11.
Demezas, D. H., and P. J. Bottomley. 1985. Nodulation of different cultivars of
Trifolium subterraneum L. by indigenous Rhizobium trifolii. In: Proceedings of the
Sixth International Symposium on Nitrogen Fixation (Evans, H. J., Bottomley, P. J.,
and Newton, W. E., eds.). p. 399. Martinus Nijhoff, Dordrecht, Netherlands.
12.
Bottomley, P. J. 1986. Significance of Rhizobium trifolii in the introduction of
subterranean clover. In: Proceedings of the 8th Australian Nitrogen Fixation
Conference (Wallace, W. and S. E. Smith, eds.). pp. 185-188. Publ. Austr. Inst.
Agric. Sci. Ore. Agric. Exp. Sta. Technical Paper No. 7988.
13.
Leung, K-T., and P. J. Bottomley. 1986. Growth and nodulation responses to low
phosphate by indigenous R. trifolii. In: Proceedings of the 8th Australian Nitrogen
Fixation Conference (Wallace, W., ed.). pp 191-192. Publ. Austr. Inst. Agric. Sci.
14.
Valdivia, B., and P. J. Bottomley. 1986. Composition of indigenous Rhizobium
trifolii from root nodules of red clover sown in a subclover pasture soil. In:
Proceedings of the 8th Australian Nitrogen Fixation Conference (Wallace, W., ed.).
pp. 195-196. Publ. Austr. Inst. Agric. Sci.
15.
Busse, M. D., and P. J. Bottomley. 1986. Symbiotic potential of alfalfa cultivars as
influenced by indigenous Rhizobium meliiloti. In: Proceedings of the 8th
Australian Nitrogen Fixation Conference (Wallace, W., eds.). pp. 197-198. Publ.
Austr. Inst. Agric. Sci.
16.
Demezas, D. H., and P. J. Bottomley. 1986. Influence of host cultivar and
rhizosphere population on competitive nodulation by indigenous Rhizobium trifolii.
In: Proceedings of the 8th Australian Nitrogen Fixation Conference (Wallace, W.,
ed.). pp. 189-190. Publ. Austr. Inst. Agric. Sci.
17.
Almendras, A. S., and P. J. Bottomley. 1986. Phosphate and lime influence
nodulation of subclover by indigenous Rhizobium trifolii. In: Proceedings of the
9th Australian Nitrogen Fixation Conference (Wallace, W., ed.). p.• 193. Publ.
Austr. Agric. Sci.
18.
Bottomley, P. J., A. S. Almendras, and K. T. Leung. 1987. Interactions of lime and
phosphate on nodulation by rhizobia. In: Proceedings of the Western Phosphate
Conference (Christensen, N.W., ed.). p. 56. Oregon State University, Corvallis.
P. J. Bottomley
44
Curriculum Vitae
19.
Strain, S. R., and P. J. Bottomley. 1990. Relationships between Rhizobium
leguminosarum bvs. trifolii and viciae in soil. In: Proceedings of the 8th Intern.
Congr. N2 Fixation (Gresshoff et al., eds.). p. 435. Chapman and Hall, New York.
20.
Leung, K., and P. J. Bottomley. 1990. Autecological characterization and
competitive nodulating behavior of indigenous R. leguminosarum bv. trifoli. In:
Proceedings of the 8th Intern. Congr. N2 Fixation (Gresshoff et al., eds.). p. 428.
Chapman and Hall, New York.
21.
Bottomley, P. J., K. Leung, and S. R. Strain. 1990. Ecology of Rhizobia. In: Proc.
Eighth Internl. Congr. N2 Fixn. (Gresshoff et al., eds.). pp.•371-378. Chapman
and Hall, New York. Ore. Agric. Exp. Sta. Technical Paper No. 9260.
22.
Bottomley, P. J., S. Maggard, K. Leung, and M. D. Busse. 1991. Importance of
saprophytic competence for success of introduced rhizobia. In: The Rhizosphere
and Plant Growth (Keister, D. L. and P. B. Cregan, eds.). pp. 135-140. Kluwer
Academic Publ. Dordrecht, Netherlands. Ore. Agric. Exp. Sta. Tech. Paper
No. 8888.
23.
Bottomley, P. J., S. R. Strain, and K. Leung. 1993. The ecology of a soil
population of a bacterial species: Rhizobium leguminosarum. In: Human Impact
on Self-Recruiting Populations (Hemmingsen, B., and G. Sundnes, eds.). pp. 37-66.
The Royal Norwegian Society of Sciences and Letters Foundation, Trondheim,
Norway. Ore. Agric. Exp. Sta. Technical Paper No. 10,251.
24.
Bottomley, P.J. and David, D. Myrold. 2001. The microbial ecology of terrestrial N
cycling examined at different spatial scale. p. 33. In : Proceedings of 1st US-Egypt
Workshop in Microbial Ecology May, 2001 National Research Center, Dokki, Cairo
Egypt
25.
Myrold, D.D., P.J. Bottomley, M.N Högberg, P. Högberg, and E.W.
Sulzman. 2007. Linking microbial communities to activity in soil with
molecular and stable isotope techniques. p. 85-86. In Linking Management
to Global Climate Challenges: The Proceedings of the International
Symposium on Forest Soils and Ecosystem Health (Z. Xu, C.E. Johnson, C.
Chen, and T.J. Blumfield, eds.). Centre for Forestry and Horticulture
Research, Griffith University, Brisbane, Australia. (ISBN 978-1-921291-166)
14f. Abstracts of Oral and Poster Presentations (non-refereed)
1.
P. J. Bottomley
Bottomley, P. J., and W. D. P. Stewart. 1974. Measurement or phosphorylating
mechanisms in nitrogen fixing blue-green algae. presented before the Botanical
Society of Edinburgh's Annual meeting at Durham, England, September, 1974.
45
Curriculum Vitae
2.
Bottomley, P. J., and W. D. P. Stewart. 1975. Phosphorylating mechanisms and
nitrogenase activity in heterocystous blue-green algae. Presented at the British
Phycological Society's annual meeting, University of London, London, England,
January, 1975.
3.
Bottomley, P. J., and W. D. P. Stewart. 1975. ATP synthesis and nitrogenase
activity in heterocystous blue-green algae. Presented before the Society for
Experimental Biology's annual meeting, University of Liverpool, England, UK,
March, 1975.
4.
Bottomley, P. J., and C. Van Baalen. 1977. Heterotrophy in the blue-green algae.
Presented at a special seminar on "Autotrophic Prokaryotes": Photosynthetic
transformations and the molecular biology of photosynthetic prokaryotes. American
Society for Microbiology National Meeting, New Orleans. March, 1977.
5.
Jenkins, M. B., and P. J. Bottomley. 1981. Identification and performance of
strains of Rhizobium meliloti• in an alfalfa field trial. Presented before the annual
meeting of the Western Branch of the Soil Science Society of America, University
of Oregon, Eugene, June, 1981.
6.
Bottomley, P. J. and Fuquay, J. I. 1982. Observations on the serological behavior
of some field isolates of Rhizobium meliloti. Abstr. Agron. Soc. Ann. Meeting. p.
184.
7.
Demezas, D. H. and Bottomley, P. J. 1982. Characteristics of the Rhizobium
trifolii population in an old subterranean clover-grass pasture. Abstr. Agron. Soc.
Am. Meeting. p. 186.
8.
Dughri, M. H. and Bottomley, P. J. 1982. The influence of acidity upon the
population profile of Rhizobium trifolii found in the nodules of Trifolium
subterraneum L. Abstr. Agron. Soc. Ann. Meeting. p. 186.
9.
Jenkins, M. B. and Bottomley, P. J. 1982. Observations on the population of
Rhizobium meliloti found in nodules of uninoculated field grown Medicago sativa
L. Abstr. Agron. Soc. Ann. Meeting. p. 190.
10.
Eardly, B. D., D. B. Hannaway and P. J. Bottomley. 1982. Nodulation, acetylene
reduction and nitrogen percentages of seeding year alfalfa as affected by NH4NO3.
Abstr. Agron. Soc. Ann. Meeting. p. 96.
11.
Aumen, N. G., P. J. Bottomley and G. M. Ward. 1982. Microbial decomposition of
large woody debris in pacific Northwest streams. Abstr. Ann. Meet. Limn.
Oceanog. Soc.
P. J. Bottomley
46
Curriculum Vitae
12.
Aumen, N. G., S. V. Gregory, G. N. Ward and P. J. Bottomley. 1983. Factors
influencing the microbial decomposition of woody debris in streams. Int. Symp.
Microb. Ecol. Lansing, MI. Aug. 1983.
13.
Demezas, D. H., and P. J. Bottomley. 1984. Identification and enumeration of two
serotypes of R. trifolii in root nodules and in soil. Abstr. N. W. Branch, A.S.M.
Portland, OR.
14.
Bottomley, P. J., D. H. Demezas, A. S. Almendras and J. I. Fuquay. 1984. Nodule
and soil populations of three indigenous serogroups of Rhizobium trifolii. Abstr.
Agron. Soc. Ann. Meeting. Las Vegas.
15.
Demezas, D. H., and P. J. Bottomley. 1985. Host plant effects on nodulation by
indigenous populations of Rhizobium trifolii. Abstr. Am. Soc. Microbiol. Ann.
Meeting, Las Vegas.
16.
Aumen, N. G., P. J. Bottomley, and S. V. Gregory. 1985. The nitrogen dynamics
of decomposing wood in streams. Ann. Meeting N. A. Benth. Soc. Corvallis, OR.
17.
Bottomley, P. J. 1986. Influence of chemical and biological factors on indigenous
rhizobial populations. Spec. Sem. "Rhizobium Ecology." Ann. Meeting A.S.M.
Washington, D.C.
18.
Eardly, B. D., A. R. J. Eaglesham, and P. J. Bottomley. 1986. Characteristics of
rhizobia which nodulate Medicago sativa and Phaseolus vulgaris. Abstr. Amer.
Agron. Soc. p. 178.
19.
Christensen, N. W., and P. J. Bottomley. 1986. Nutrient management and ecology
of soil-borne plant pathogens. Abstr. Amer. Soc. Agron. p.•195.
20.
Dughri, M. H., and P. J. Bottomley. 1988. Comparison of the response of soil
bacteria and soil rhizobia to legume roots and other nutrient sources. Abstr. Amer.
Soc. Agron. Anaheim, CA.
21.
Busse, M. D., and P. J. Bottomley. 1988. The role of calcium nutrition in the
adaptation of indigenous Rhizobium meliloti to water stress. Abstr. Amer. Soc.
Agron. Anaheim, CA.
22.
Bottomley, P. J., and M. D. Busse. 1988. Symbiotic potential of alfalfa cultivars as
influenced by a dominant indigenous Rhizobium meliloti serogroup. Abstr. Amer.
Soc. Agron. Anaheim, CA.
23.
Leung, K., and P. J. Bottomley. 1988. Toward an antigenic and autecological
characterization of a competitive serogroup of Rhizobium trifolii. Abstr. Amer.
Soc. Agron. Anaheim, CA.
P. J. Bottomley
47
Curriculum Vitae
24.
Busse, M. D., and P. J. Bottomley. 1988. Adaptation of indigenous rhizobia to
water stress. Abstr. Western. Soil Sci. Soc. Ann. Meeting. Corvallis,•OR.
25.
Mendes, I. C., P. J. Bottomley, and R. P. Dick. 1996. Distribution of Rhizobium
leguminosarum among aggregate soil classes. Abstr. Amer. Soc. Agron.
Indianapolis.
26.
Bottomley, P. J., I. C. Mendes, A. Bandick, and R. P. Dick. 1996. Distribution of
microbial biomass among aggregate size classes. Abstr. Am. Soc. Agron.
Indianapolis.
27.
Bottomley, P. J., K. N. Duddleston, and D. J. Arp. 1997. Soil properties and
chlorocarbon oxidation by N. europaea. Abstr. Am. Soc. Agron. Anaheim.
28.
Duddleston, K. N., P. J. Bottomley, and D. J. Arp. 1997. Cometabolism of methyl
bromide by N. europaea. Abstr. Am. Soc. Agron. Anaheim.
29.
Yarwood, R., and P. J. Bottomley. 1997. Herbicide degradation by surface and
subsurface soil:kinetics and populations. Abstr. Amer. Soc. Agron. Anaheim.
30.
Ndiaye, A., and P. J. Bottomley. 1998. Nitrogen mineralization by soil aggregates
affected by a red clover cover crop. Abstr. Amer. Soc. Agron. Baltimore.
31.
Cliff, J.B., P.J. Bottomley, R. Haggerty, and D.D. Myrold. 1999. Modeling the
effect of mass transfer limitations on 15N isotope dilution experiments in soil
aggregates. Abstr. Amer. Soc. Agron. Salt Lake City.
32.
Yarwood, R.R., M.L. Rockhold, M.R. Niemet, J.S. Selker, and P.J. Bottomley.
1999. Interactions between microbial dynamics, water flow, and transport of
biologically reactive solutes in unsaturated porous media: 1. Experimental system
and results. Abstr. Amer. Soc. Agron. Salt Lake City.
33.
Rockhold, M.L., R.R. Yarwood, M.R. Niemet, P.J. Bottomley, and J.S. Selker.
1999. Interactions between microbial dynamics, water flow. and tranport of
biologically reactive solutes in unsaturated porous media: 2. Numerical modeling.
Abstr. Amer. Soc. Agron. Salt Lake City.
34.
Myrold, D.D., P.J. Bottomley, J.B. Whalen, J.B. Cliff, and N.J. Ritchie. 1999.
Compartmentalization and coupling of N cycling in soil. Abstr. Amer. Soc. Agron.
Salt Lake City.
35.
Cliff, J.C., P.J. Bottomley, and D.D. Myrold. 2000. Visualizing soil N at
microbially meaningful scales using TOF-SIMS.Abstr. Amer.Soc. Agron.
Minneapolis, MN
P. J. Bottomley
48
Curriculum Vitae
36.
P.J. Bottomley. 2001. C and N assimilation by soil microbes at spatially meaningful
scales. Abstract of a poster presented at International Society of Microbial Ecology
meeting. Amsterdam, Netherlands
37.
Runes, H.B., Bottomley, P.J., Moore, J.A., and J.J. Jenkins. 2000.
Treatment of irrigation runoff by a field scale constructed wetland. Poster at
219th American Chemical Society Meeting, March 26-30, San Francisco,
CA.
38.
Mintie, A.M., K.C. Cromack, D.D. Myrold, and P.J. Bottomley. 2002.
Profiles of ammonia oxidizer communities in high elevation forest soils.
Annu. Meeting. ASM May, Salt Lake City UT
39.
J.J. Rich, Bottomley, P.J., K.C. Cromack, and D.D. Myrold. 2003. N cycling and
microbial communities along high elevation meadow and forest sites in the HJ
Andrews experimental forest of the Oregon Cascades Mountains. Ecological
Society of America, Tucson, AZ June, 2003
40.
P.J. Bottomley, D.D. Myrold, K. Cromack, Jr, A. Taylor, S. McMahon, S. Boyle,
N. Ritchie, Sonny, A. Mintie, J. Rich, and K. Waterstripe. 2002. Changes in
Nitrogen Cycling in reciprocally transplanted soils from meadows and forests.
SSSA Abstr. Nov. 2002. Indianapolis
41.
D.D. Myrold, P.J. Bottomley, K. Cromack Jr, M.A. Williams, J. Rich, N. Ritchie,
Sonny, K. Waterstripe, 2002. Changes in microbial communities in reciprocally
transplanted soil from meadows and forests. SSSA Abstr. Nov. 2002. Indianapolis
42.
Rich, J. J., P. J. Bottomley, K. Cromack, Jr., and D. D. Myrold. 2003.
Community Composition and Functioning of Denitrifying Bacteria in Soils,
American Society for Microbiology, Regional Meeting, Vancouver, British
Columbia, Canada.
43.
Rich, J. J., P. J. Bottomley, K. Cromack, Jr., and D. D. Myrold. 2001. H. J.
Andrews Microbial Observatory: Soil Nitrogen Cycling Processes Along
Meadow-Forest Gradients, Soil Science Society of America (SSSA), General
Meeting, Charlotte, North Carolina.
44.
Cliff, J.B., D.J. Gaspar, P.J. Bottomley, and D.D. Myrold. 2003. Peak
fitting to resolve CN- isotope ratios in biological and environmental samples
using TOF-SIMS. Secondary Ion Mass Spectrometry SIMS XIV September
2003.
P. J. Bottomley
49
Curriculum Vitae
45.
Cliff, J.B., P.J. Bottomley, and D.D. Myrold. 2002. Sub-mm Chemical
Imaging and Isotope Ratio Analysis with Secondary Ion Mass Spectrometry.
Soil Science Society of America November 2002.
46.
Cliff, J.B., P.J. Bottomley, and D.D. Myrold. 2000. Quantifying and
imaging N in soils at microbially meaningful scales using TOF-SIMS:
Preliminary results. 13th annual SIMS Workshop. Lake Tahoe, CA. 13th
Annual SIMS Workshop Abstacts p. 55.
47.
Nitrogen Cycling in a Reciprocal Transfer Study of Forests and Meadows in
the Oregon Cascade Mountains 2003. S. A. Boyle, A.E. Taylor, K.
Cromack, P. J. Bottomley, and D. D. Myrold. American Society for
Microbiology, Regional Meeting, Vancouver, British Columbia, Canada.
48.
S. A. Kageyama, N. R. Posavatz, S. J. Shaffar, K. E. Waterstripe, P. J.
Bottomley, K. Cromack and D.D. Myrold. 2003. Changes in Bacterial and
Fungal Community Profiles in Forest and Meadow Sites in the Oregon
Cascades. American Society of Agronomy Abstract.
49.
S. McMahon, M.Williams, P.Bottomley, and D. Myrold. (2003). Influence
of Soluble Carbon on Microbial Community Composition and Dynamics
During 13C-Labeled Ryegrass Straw Decomposition. SSSA Conference,
Denver, CO.
50.
S. McMahon, M. Williams, P. Bottomley, and D. Myrold. (2003).
Microbial Dynamics During Decomposition of 13C-Labeled Ryegrass
Residue: Role of Soluble Carbon. Canadian Soil Science Society
Conference, Montreal, Quebec.
51.
S. McMahon, D. Myrold, P. Bottomley, and K. Cromack. (2002). Nitrogen
Mineralization Measurements on Reciprocally Transplanted Soil Cores One
Year After Transplant. SSSA Conference, Indianapolis, IN.
52.
S. McMahon, D. Myrold, P. Bottomley, and K. Cromack. (2002). Nitrogen
Mineralization Measurements on Reciprocally Transplanted Soil Cores One
Year After Transplant. CSSS Conference, Banff, AB.
53.
Cliff, J.B., P.J. Bottomley, D.J. Gaspar, and D.D. Myrold. (2004)
Heterogeneities in microbial N assimilation in soils at small scale lengths.
5th International Symposium on the Interface Between Analytical Chemistry
and Microbiology. Pacific Northwest National Laboratory. April 19-21 .
54.
Taylor, A.E. and P.J. Bottomley. (2004) Comparative behavior of two
ammonia oxidizing bacteria in soil. ASM National meeting, New Orleans.
P. J. Bottomley
50
Curriculum Vitae
55.
Doughty, D.M., L. Sayavedra-Soto, D.J. Arp, and P.J. Bottomley. 2004.
DCE as inducers of butane oxidation in P. butanovora. ASM National
Meeting. New Orleans.
56.
Direct aerobic metabolism of chloroethenes. A. Taylor, P.J. Bottomley, M
Dolan and L. Semprini. 2004. Abstr. Annu Meeting of EPA Hazardous
Substance Research Centers, Las Vegas, NV
57.
Doughty D.M., Sayavedro-Soto, L., D. J. Arp, and P.J. Bottomley, 2004.
Metabolism of DCEs by Pseudomonas butanovora. Abstr. Annu. Meeting of
EPA Hazardous Substance Research Centers, Las Vegas, NV
58.
Halsey, K., D.J. Arp, and P.J. Bottomley. 2004. Pursuing sustainable BMO
cometabolism as a model system. Abstr. Annu. Meeting of EPA Hazardous
Substance Research Centers, Las Vegas, NV
59.
Boyle, S., D.D. Myrold and P.J. Bottomley. 2004. Reciprocal shifts in
denitrifer communities in forets and meadow soils in the Cascade Mountains
of Oregon. Abstr. Annu. Meeting SSSA, Seattle, WA
60.
Sayavedro-Soto, L.A., D.M. Doughty, P.J. Bottomley and D.J. Arp. 2005.
Dissecting the identity of inducers of butane monooxygenase in P.
butanovora. Abstr. Annu Meeting ASM, Atlanta, GA
61.
Kageyawa, S., P. Bottomley, and D. Myrold. 2005. Fungal community
composition across meadow forest transects in Cascade Mountains. ESA
Annu. Mtg. Montreal, CA
62.
Kluber, LA, Dunham, SM, Tinnesand, KM, Yarwood, RR, Bottomley PJ,
Caldwell, BA, Cromack, K, Myrold, DD, Spatafora, JW. 2005. The HJ
Andrews Microbial Observatory: Microbial Communities and activities of
EcM mats. Abstr. Annu Meetg. SSSA, SaltLake City, UT
63.
Norton, J, Klotz, M, Stein LY, Bottomley, PJ, DJ Arp. 2005. Nitrifier
genomics: links between habitats and functional gene diversity. Abstr. Annu.
Mtg. SSSA, SLCity, UT
64.
Chaer, G, Fernandes, M, Myrold, D, Bottomley PJ 2005. Resistance and
resilience of microbial structures and enzyme activities of soils submitted to
heat shock treatments. Abstr. Annu Mtg. SSA, SLCity, UT
65.
Caldwell, BA, Kluber LA, Dunham, SM, BottomleyPJ, Cromack K, Myrold,
D., Spatafora JW. 2005. Lysozyme activity in EcMats of a PNW coniferous
forest. Abstr. Annu. Mtg. SSSA SLCity, UT
66.
Starkenberg SA, Sayaverdro-Soto, LA, P. Chain P. Bottomley, F Larimer,
M. Klotz, D. Arp, W. Hickey. 2005. The genome sequence of the nitrite
oxidizing bacterium, Nitrobacter winogradskyi. Abstr. Annu. Mtg. Amer
Soc. Microbiol. Atlanta, GA
P. J. Bottomley
51
Curriculum Vitae
67.
Taylor, AE, Dolan MA, Bottomley, PJ, Semprini, L. 2005. Fluoroethene as a
surrogate for vinyl chloride degradation. Subsurface bioremediation mtg.
Jackson Hole, WY
Potential References
J. M. Tiedje, Dept. of Crop and Soil Sciences, Michigan State University, East Lansing, MI
48824-1114.
C.W. Rice, Dept. of Agronomy, Kansas State University, Manhattan, KS 66506
Kate Scow, Dept. of Land, Air, and Water, University of California Davis, Davis, CA 95616
Mike Sadowsky, Dept. of Soil Science, University of Minnesota, 1991 Upper Buford Circle. 439
Borlaug Hall, St. Paul, MN 55108-6028
Gary Stacey, Dept. of Plant Pathology and Microbiology, University of Missouri, Columbia, MI.
Dan Arp, Dept. of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97330.
David D. Myrold, Dept. of Crop and Soil Sciences, Oregon State University, Corvallis, OR
97330.
John S. Selker, Dept. of Bioengineering, Oregon State University, Corvallis, OR97330
D. A. Phillips, Dept.of Agronomy and Range Science, University of California at Davis, Davis,
CA 95616
D. F. Bezdicek, Dept. of Agronomy and Soils, Washington State University, Pullman, WA.
R. W. Weaver, Dept. of Crop and Soil Sciences, Texas A & M University, College Station, TX
77843.
W. Frankenberger, Jr., Dept of Environmental and Soil Sciences, University of Riverside,
Riverside, California
John Brockwell, CSIRO Division of Plant Industry, GPO Box 1600, Canberra, ACT 2601,
Australia.
Lyn Abbott, Dept. of Soil Science and Plant Nutrition, University of Western Australia,
Nedlands, Perth Western Australia, Australia.
F.R. Tabita, Dept. of Microbiology, Ohio State University, Columbus, OH 43210
P. J. Bottomley
52
Curriculum Vitae
Lew Semprini, Dept. of Chemical, Biological and Environmental Engineering, Oregon State
University, Corvallis, OR97330
P. J. Bottomley
53
Curriculum Vitae