CURRICULUM VITAE
April 2013
DOUGLAS E. BERG
DATE AND PLACE OF BIRTH: September 21, 1943; Mt. Vernon, New York
CITIZENSHIP: U.S.A.
FIELD OF SPECIALIZATION: Microbial Genetics and Pathogenesis
EDUCATION:
Cornell University, Ithaca, New York
University of Washington, Seattle
B.S.
Ph.D.
1964
1969
Botany
Genetics
PRESENT POSITION:
Professor Emeritus of Molecular Microbiology
Washington University School of Medicine. St. Louis, Missouri, 63110
and
Adjunct Professor of Biology, San Diego State University, San Diego, CA
Adjunct Professor of Medicine and of Genetics
University California, San Diego, La Jolla, California
ADDRESS:
Department of Molecular Microbiology, Campus Box 8230
Washington University School of Medicine, St. Louis, MO 63110
Phone 314 362 2772; fax 314 362 1232; email berg@borcim.wustl.edu
PROFESSIONAL EXPERIENCE AND APPOINTMENTS:
Graduate Fellow and Teaching Assistant (Genetics)
University of Washington (with Dr. Jonathan A. Gallant)
1964-1969
USPHS Postdoctoral Fellow, Stanford University Medical 1969-1971
School, Department of Biochemistry (with Dr. A. Dale Kaiser).
Research Associate, University of Geneva, Department of 1971-1975
Molecular Biology (with Dr. Lucien G. Caro).
Research Associate, University of Wisconsin, Department 1975-1977
of Biochemistry (with Dr. Julian Davies).
Assistant Professor, Washington University School of Medicine
Departments of Microbiology & Immunology and of Genetics
1977-1981
Associate Professor, Washington University School of Medicine
Departments of Microbiology & Immunology and of Genetics
1981-1983
Professor, Washington University School of Medicine
Departments of Microbiology & Immunology and of Genetics
1984-1990
Alumni Endowed Professor of Molecular Microbiology
Professor of Genetics, Washington University School of Medicine
1990-2012
Professor, Department of Medicine
Washington University School of Medicine
2004-2012
Adjunct Professor of Biology, San Diego State University
Adjunct Professor of Medicine and of Genetics
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2011-present
2012-present
University California, San Diego
Professor Emeritus of Molecular Microbiology
Professor of Genetics, and Professor of Medicine
2013-Present
Honorary Doctor of Medicine, Umeå Universitat, Sweden
2004
Mary Raine Visiting Professor, University Western Australia, Perth, WA
2007
Associate Editor, PLASMID, 1985-1990
Associate Editor, GENETICS, Jan. 1991-1993
Editorial Board, J. Bacteriol., 1992-2003; J. Clin Microbiol. 1996;
Helicobacter, Jan 1996-2012
TEACHING
Co-Course Master, Special Topics in Microbial Pathogenesis. Bio5217.
Course for 2nd year PhD and MD-PhD students in micro program. Critical presentation and
evaluation of selected papers from literature. Presentation and critical (in class “study
section”) review of grant applications on topics chosen by each individual student.
Meets four hours per week, fall semester; ~8-12 students most years.
Participant in Phage Hunters for Freshman undergrad course. Bio192.
HHMI sponsored course to introduce undergrads to excitement and understanding of
research (Sarah Elgin, course master). First semester (Bio191, in fall) Entails
Mycobacteriophage isolation from local soils, DNA prep and restriction, etc. during fall
semester. Phage genome sequencing over winterbreak. Annotation and polishing sequence
during spring semester. Enrichment with lectures, discussions and guided reading and
evaluation of reviews and original papers on DNA structure, replication, expression, **
phage biology, phage therapy, phage genetic diversity and evolution, and microbial
pathogenesis, especially in regard to Mycobacterium tuberculosis. I participate in about ten
~two hour sessions during the spring semester, focusing on components of the list above,
starting with ** phage biology; ~25 students this spring semester.
Lecturer in Molecular Microbiology and Pathogenesis. Bio5392. For first year grad students (Joe
Vogel, coursemaster). My lecture in spring semester focuses on phage molecular genetics and
evolution.
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PUBLICATIONS
PhD Thesis:
Berg, D. E. 1969. Recombinant formation in partially diploid strains of Escherichia
coli. Ph.D. dissertation, University of Washington, Seattle.
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Berg, D.E. 1971. Regulation of phage with duplications of the immunity region. In "The
Bacteriophage Lambda" (ed. by A.D. Hershey), Cold Spring Harbor Press, pp. 667-678.
Berg, D.E. and J.A. Gallant. 1971. Tests of reciprocality in crossingover in partially diploid F'
strains of Escherichia coli. Genetics 68: 457-472.
Berg, D.E. 1974. Genetic evidence for two types of gene arrangements in new dv plasmid
mutants. J. Mol. Biol. 86: 59-68.
Chow, L.T., Davidson, N. and Berg, D. 1974. Electron microscope study of the structure of
dv DNAs. J. Mol. Biol. 86: 69-89.
Kellenberger-Gujer, G., Boy de la Tour, E. and Berg, D.E. 1974. Transfer of the dv plasmid to
new bacterial hosts. Virology 58: 576-585.
Berg, D.E. 1974. Genes of phage  essential for dv plasmids. Virology 62: 224-233.
Berg, D.E., Jackson, D.A. and Mertz, J.E. 1974. Isolation of a dv plasmid carrying the
bacterial gal operon. J. Virology 14: 1063-1069.
Berg, D.E. and Kellenberger-Gujer, G. 1974. N protein causes the dv plasmid to inhibit
heteroimmune phage imm434 growth and stimulates dv replication. Virology 62: 234-241,
1974.
Matsubara, K. and Berg, D. 1974. The regulation of replication of dv plasmid. In
"Proceedings First Intersectional Congress of the International Association
Microbiological Societies", Tokyo, Japan, pp. 223-228.
Berg, D.E., J. Davies, B. Allet and J. -D. Rochaix. 1975. Transposition of R factor genes to
bacteriophage . Proc. Natl. Acad. Sci. USA 72: 3628-3632.
Berg, D.E. 1977. Insertion and excision of the transposable kanamycin resistance determinant
Tn5. In "DNA Insertion Elements, Plasmids and Episomes" (ed. by A.I. Bukhari, J.A.
Shapiro and S.L. Adhya), Cold Spring Harbor Press. pp.205-212.
Berg, D.E. 1977. Detection of transposable antibiotic resistance determinants using phage
lambda. In "DNA Insertion Elements, Plasmids, and Episomes" (ed. by A.I. Bukhari, J.A.
Shapiro, and S.L. Adhya,), Cold Spring Harbor Press, pp.555-558.
Campbell, A., Berg, D.E., Botstein, D., Novick, R. and Starlinger, P. 1977. Nomenclature of
transposable elements in prokaryotes. In "DNA Insertions" (ed. by S. Adhya, A. Bukhari, and
J. Shapiro). Cold Spring Harbor Press, pp.15-22.
Davies, J., Courvalin, P. and Berg, D.E. 1977. Thoughts on the origins of resistance plasmids.
J. Antimicrob. Chemotherapy 3: (Suppl. c) 7-17.
Davies, J., Berg, D., Jorgensen, R., Fiandt, M.T., Huang, S.R., Courvalin, P. and Schloff, J.
1977. Transposable neomycin phosphotransferases. In "Vienna Symposium on R Factors:
Their Properties and Possible Control" (ed. by J. Drews and G. Hogenauer), SpringerVerlag, pp.101-114.
Berg, D.E., Jorgensen, R. and Davies, J. 1978. Transposable kanamycin-neomycin resistance
determinants. In "Microbiology 1978" (ed. by D. Schlessinger), ASM Publications, pp. 13-15.
Jorgensen, R., Berg, D.E. and Reznikoff, W. 1978. Genetic organization in the transposable
tetracycline resistance determinant Tn10. In "Microbiology 1978" (ed. by D. Schlessinger),
ASM Publications, pp. 181-183.
Berg, D.E. and Drummond, M. 1978.
Absence of DNA sequences homologous to
transposable element Tn5 (Kan) in the chromosome of Escherichia coli K-12. J. Bacteriol.
136: 419-422.
Jorgensen, R.A., Berg, D.E., Allet, B. and Reznikoff, W. 1979. A restriction endonuclease map
of Tn10, a transposon which encodes tetracycline resistance. J. Bacteriol. 137: 681-685.
Campbell, A., Berg, D.E., Botstein, D., Lederberg, E.M., Novick, R.P., Starlinger, P. and
Szybalski, W. 1979. Nomenclature of transposable elements in bacteria. Gene 5: 197-206,
and Plasmid 2: 466-473.
Berg, D.E., Weiss, A. and Crossland, L. 1980. The polarity of Tn5 insertion mutations in
Escherichia coli. J. Bacteriol. 142: 439-446.
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Berg, D.E. 1980. Control of gene expression by a mobile recombinational switch. Proc. Natl.
Acad. Sci. USA 77: 4880-4884.
Berg, D.E., Egner, C., Hirschel, B.J., Howard, J., Jorgensen, R.A. and Tlsty, T.D. 1980.
Insertion, excision and inversion of transposon Tn5. Cold Spring Harbor Symposium
Quantitative Biology 45: 115-123.
Berg, C., Shaw, K., and Berg, D. 1980. IlvG is expressed in Escherichia coli K-12. Gene 12:
324-333.
Egner, C. and Berg, D. 1981. Excision of transposon Tn5 dependent on the inverted repeats
but not the transposase function of Tn5. Proc. Natl. Acad. Sci. USA. 78: 459-463.
Kuner, J.M., Avery, L.M., Berg, D.E. and Kaiser, A.D. 1981. Uses of transposon Tn5 in the
genetic analysis of Myxococcus xanthus. In "Microbiology 1981" (ed. by D. Schlessinger),
ASM Publications, pp. 128-132.
Berg, C.M. and Berg, D.E. 1981. Transposons as tools in microbial genetics.
In
"Microbiology 1981" (ed. by D. Schlessinger), ASM Publications, pp. 107-116.
Berg, C.M., Shaw, K.J., Sarokin, L.J. and Berg, D.E. 1981. Probing the organization of
bacterial operons with transposons. In "Microbiology 1981" (ed. by D. Schlessinger), ASM
Publications, pp.121-123.
Berg, D.E., Sasakawa, C., Hirschel, B.J., Johnsrud, L., McDivittt, L., Egner, C. and
Ramabhadran, R. 1981. Transposition of the long inverted repeats of Tn5. In "Molecular
Biology, Pathogenicity and Ecology of Bacterial Plasmids". (ed. by S. Levy, R. Clowes
and E. Koenig), Plenum Press, pp. 381-390.
Hirschel, B.J. and Berg, D.E. 1982. A derivative of Tn5 with direct terminal repeats can
transpose. J. Mol. Biol. 155: 105-120.
Berg, D.E., Johnsrud, L., McDivitt, L., Ramabhadran, R. and Hirschel, B.J. 1982. The inverted
repeats of Tn5 are transposable elements. Proc. Natl. Acad. Sci. USA 79: 2632-2635.
Sasakawa, C. and Berg, D.E. 1982. IS50 mediated inverse transposition: Discrimination
between the two ends of an IS element. J. Mol. Biol. 159: 257-271.
Hirschel, B.J., Galas, D.J., Berg, D.E. and Chandler, M. 1982. Structure and stability of
transposon 5-mediated cointegrates. J. Mol. Biol. 159: 557-580.
Sasakawa, C., Lowe, J.B., McDivitt, L. and Berg, D.E. 1982. Control of transposon Tn5
transposition in Escherichia coli. Proc. Natl. Acad. Sci. USA 79: 7450-7454.
Berg, D.E., Lowe, J.B., Sasakawa, C., and McDivitt, L. 1982. The mechanism and control of
Tn5 transposition. In: Fourteenth Stadler Genetics Symposium (ei) University of Missouri
Press pp. 5-28.
Berg, D.E. 1983. Structural requirement for IS50-mediated gene transposition. Proc. Natl.
Acad. Sci. USA 79: 792-796.
Berg, D.E., Egner, C. and Lowe, J.B. 1983. Mechanism of F factor enhanced excision of
transposon Tn5. Gene 22: 1-7.
Lowe, J.B. and Berg, D.E. 1983. A product of the transposase gene of Tn5 inhibits Tn5
transposition. Genetics 103: 581-592.
Berg, D.E. and Berg, C.M. 1983. The prokaryotic transposable element Tn5. Biotechnology
1: 417-435.
Berg, C.M., Grullon, C., Wang, A., Whalen, W. and Berg, D.E. 1983. Generalized and
specialized transduction of Tn5 by bacteriophage P1. Genetics 105: 252-263.
Hartl, D., Dyhuizen, D. and Berg. D.E. 1983. Accessory DNAs in bacteria: Playground for
coevolution. In "The Origins and Development of Adaptation". CIBA Foundation
Symposium No. 102: 233-245.
Berg, D.E., Schmandt, M. and Lowe, J.B. 1983. Specificity of transposon Tn5 insertion.
Genetics 105: 813-828.
Sasakawa, C., Carle, G. and Berg, D.E. 1983. Sequences essential for transposition at the
termini of IS50. Proc. Natl. Acad. Sci. USA 80: 7293-7297.
Berg, D.E., Berg, C.M., and Sasakawa, C. 1984. The bacterial transposon Tn5: Evolutionary
inferences. Molecular Biology and Evolution 1: 411-422.
Biel, S.W., Adelt, G. and Berg, D.E. 1984. Transcriptional control of IS1 transposition. J.Mol.
Biol. 174: 251-264.
Berg, C.M. and Berg, D.E. 1984. Jumping genes: The transposable DNAs of bacteria. The
American Biology Teacher 46: 431-439.
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Berg, D.E., Phadnis, S.H. and Biel, S.W. 1984. Conservative and replicative transposition in
bacteria. Proc. XV Int'l Congress Genetics. Vol. 1: 119-130.
Biel. S.W. and Berg, D.E. 1984. Mechanism of IS1 transposition in E. coli : Choice between
simple insertion and cointegration. Genetics 108: 319-330.
Berg, D.E. 1984. Mechanisms of transposition in bacteria. In Plasmids in Bacteria (ed. by
D.R. Helinski, S.N. Cohen, D.B. Clewell, D.A. Jackson, and A.E. Hollaender) Plenum Press,
New York, pp. 33-44.
Berg, D.E., Lodge, J.K., Sasakawa, C., Nag, D. K., Phadnis, S.H., Weston, K., and Carle, G.F.
1984. Transposon Tn5: Specific sequence recognition and conservative transposition. Cold
Spring Harbor Symposium Quant. Biol. 49: 215-226.
Lodge, J.K., Weston-Hafer, K., Lowe, J.B., Dodson, K.W. and Berg, D.E. 1984. Determinants
of Tn5 insertion specificity. "Genome Rearrangement", UCLA Symposia on Molecular
Biology 20: 37-42.
Phadnis, S.H., and Berg, D.E. 1985. RecA-independent recombination between repeated IS50
elements is not due to an IS50--encoded resolvase. J. Bacteriol. 161: 928-932.
Nag, D.K., DasGupta, U., Adelt, G., and Berg, D.E. 1985. IS50-mediated inverse transposition:
Specificity and precision. Gene 34: 17-26.
Sasakawa, C., Phadnis, S.H., Carle, G.F., and Berg, D.E. 1985. Sequences essential for IS50
transposition: The first base pair. J. Mol. Biol. 182: 487-493.
Phadnis, S.H., Sasakawa, C. and Berg, D.E. 1986. Localization of action of the IS50-encoded
transposase protein. Genetics 112: 421-427.
Berg, C.M. and Berg, D.E. 1987. Uses of transposable elements and maps of known
insertions. In "Escherichia coli and Salmonella typhimurium: Cellular and Molecular
Biology" (ed. by Neidhardt, F.C., Ingraham, J. Low, K.B., Magasanik, B., Schaechter, M., and
Umbarger, H.E.) American Society for Microbiology, Washington, D.C., pp 1071-1109.
Nag, D.K. and Berg, D.E. 1987. Specificity of bacteriophage Mu excision. Molecular and
General Genetics 207: 395-401.
Dasgupta, U., Weston-Hafer, K. and Berg, D.E. 1987. Local DNA sequence control of deletion
formation in Escherichia coli plasmid pBR322. Genetics 115: 41-49.
Phadnis, S.H. and Berg, D.E. 1987. Identification of base pairs in the IS50 O end needed for
IS50 and Tn5 transposition. Proc Natl Acad Sci 84: 9118-9122.
Berg, D.E., Kazic, T., Phadnis, S.H. Dodson, K.W. and Lodge, J.K. 1988. Mechanism and
regulation of transposition. In: Transposition (ed. by Kingsman, A., Kingsman, S. and
Chater, K.) Society for General Microbiology 34: 107-129. Cambridge University Press.
Nag, D.K., Huang, H.V. and Berg, D.E. 1988. Bidirectional chain termination DNA sequencing:
Transposon Tn5-seql as a mobile source of primer sites. Gene 64: 135-145.
Chow, W.-Y., W. and Berg, D.E. 1988. Tn5tacl, a derivative of transposon Tn5 that generates
conditional mutations. Proc Natl Acad Sci 85: 6468-6472.
Lodge, J.K., Weston-Hafer, K., and Berg, D.E. 1988. Transposon Tn5 target specificity:
Preference for insertion at GC pairs. Genetics 20: 645-650.
Berg, D.E. 1989. Transposon Tn5. In: "Mobile DNA" (ed. by Berg, D.E. and Howe, M.M.)
American Society for Microbiology, Washington, D.C. pp. 185-210.
Berg, C.M., Berg, D.E., and Groisman, E. 1989. Transposable elements and genetic
engineering of bacteria. In: "Mobile DNA" (ed. by Berg, D.E. and Howe, M.M.) American
Society for Microbiology, Washington, D.C. pp. 879-925.
Berg, D.E. 1989. Transposable elements in prokaryotes. In: "Gene Transfer in the
Environment":(ed. by Levy, S.B. and Miller, R.) McGraw-Hill, New York. pp. 99-137.
Dodson, K.W. and Berg, D.E. 1989. Factors affecting the use of IS50 ends during
transposition. Gene 76: 206-213.
Weston-Hafer, K., and Berg, D.E. 1989. Palindromy and the location of deletion endpoints in
E. coli. Genetics 121: 651-658.
Lodge, J.K., Kazic, T., and Berg, D.E. 1989. Formation of supercoiling domains in plasmid
pBR322. J. Bacteriol. 171: 2181-2187.
Berg, C.M., Liu, L., Coon, M., Strausbaugh, L.D., Gray, P., Vartak, N.B., Brown, M., Talbot, D.,
and Berg, D.E. 1989. pBR322-derived multicopy plasmids harboring large inserts are often
dimers in Escherichia coli K-12. Plasmid 21: 138-141.
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Weston-Hafer, K., and Berg, D.E. 1989. Specificity of deletion events in pBR322. Plasmid 21:
251-253.
Phadnis, S.H., Huang, H.V., and Berg, D.E. 1989. Tn5supF, a 264 bp transposon derived from
Tn5 for insertion mutagenesis and sequencing of DNAs cloned in phage l. Proc. Natl. Acad.
Sci., USA 86:5908-5912.
Tomcsanyi, T., and Berg, D.E. 1989. Mutations in the O end of insertion sequence IS50 (Tn5):
Effect of adenine (dam) methylation. J Mol Biol 209 191-193.
Dodson, K.W. and Berg, D.E. 1989. Saturation mutagenesis of the inside end of IS50. Gene
85:75-81.
Berg, D.E. 1990. Conditional mutations in procaryotes. In The Bacterial Chromosome (ed.
Drlica, K. and Riley, M.). American Soc. Microbiol., Washington D.C. pp. 15-26.
Berg, D.E., 1990. DNA rearrangements in prokaryotes. In "Frontiers in Molecular Biology:
Genome Rearrangement and Amplification" (ed. Hames, B.D. and Glover, D.) IRL Press,
Oxford. pp. 1-50.
Cookson, B. T., Berg, D. E. and Goldman, W. E. 1990. Mutagenesis of Bordetella pertussis
with transposon Tn5tac1: conditional expression of virulence-associated genes. J. Bacteriol.
172:1681-1687.
Kazic, T., and Berg, D. E. 1990. Context effects in the formation of deletions in Escherichia
coli.. Genetics 126:17-24.
Lodge, J.K. and Berg, D.E. 1990. Mutations that affect Tn5 insertion into pBR322: Importance
of Local DNA supercoiling J. Bact. 172: 5956-5960.
Tomcsanyi, T., Berg, C. M., Phadnis, S. H. and Berg, D. E. 1990. Intramolecular transposition
by a synthetic IS50 (Tn5) derivative. J. Bact. 172:6348-6354
Cookson, B.T., Tomcsanyi, T., Berg, D. E. and Goldman, W. E. 1990. A strategy for studying
pathogenic mechanisms: Transposon insertion mutations with conditional phenotypes. In C. R.
Manclark (ed.), Proceedings of the Sixth International Symposium on Pertussis.
Department of Health and Human Services, U.S. Public Health Service, Bethesda, MD [DHHS
Publication (FDA) 90-1163] pp. 243-250.
Weston-Hafer, K. and Berg, D. E. 1991. Limits to the role of palindromy in deletion formation.
J. Bact. 173:315-318
Phadnis, S. H., Kulakauskas, S., Krishnan, B. R., Hiemstra, J. and Berg, D. E. 1991.
Transposon Tn5supF-based reverse genetic method for mutational analysis of Escherichia coli
with DNAs cloned in l phage. J. Bact. 173:896-899.
Weston-Hafer, K. and Berg, D.E. 1991. Deletions in plasmid pBR322: replication slippage
involving leading and lagging strands. Genetics 127:649-655
Dodson, K. W., and Berg, D.E. 1991. A sequence at the inside end of IS50 down regulates
transposition. Plasmid 25:145-148.
Krishnan, B.R., Blakesley, R.W. and Berg, D.E. 1991. Linear amplification sequencing of DNAs
in single phage plaques and bacterial colonies. Nucleic Acids Res. 19:1153.
Kulakauskas, S., Wikström, P.M. and Berg, D.E. 1991. Efficient introduction of cloned mutant
alleles into the E. coli chromosome. J. Bact.173: 2633-2638.
Lodge, J. K., Weston-Hafer, K., and Berg, D. E. 1991. Tn5 insertion specificity is not
influenced by IS50 end sequences in target DNA. Molec. Gen Genet. 228:312-315.
Berg, D. E., Kersulyte, D., Krishnan, B. R., and Berg, C. M. 1991. Transposon Tn5 and its use
in genome analysis. Proceedings of the First Taiwan Symposium on Transposable Elements.
Berg, C.M., Wang, G. and Berg, D. E. 1991. Transposon gd (Tn1000): useful for large-scale
sequencing of cloned DNAs. Proceedings of the First Taiwan Symposium on Transposable
Elements.
Krishnan, B. R., Kersulyte, D., Brikun, I., Berg, C. M. and Berg, D. E. 1991. Direct and
crossover PCR amplification to facilitate Tn5supF-based sequencing of l phage clones.
Nucleic Acids Res. 19:6177-6182
Neuwald, A. F., Krishnan, B. R., Brikun, I., Kulakauskas, S., Suziedelis, K., Tomcsanyi, T.,
Leyh, T. S. and Berg, D. E. 1992. cysQ, a gene needed for cysteine synthesis in Escherichia
coli K-12 only during aerobic growth. J. Bacteriol. 174:415-425.
Berg, C.M., Vartak, N. B., Wang, G., Xu, X.-X., Liu, L., MacNeil, D. J., Gewain, K., M., Wiater,
L. A., and Berg, D. E. 1992. m-1, a small  (Tn1000) derivative useful for plasmid
mutagenesis, allele replacement and DNA sequencing. Gene 113:9-16.
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Krishnan, B. R., Kersulyte, D., Brikun, I., Huang, H. V., Berg, C. M. and Berg, D. E. 1993.
Transposon-facilitated sequencing of DNAs cloned in phage . Methods in Enzymology (ed.
by R. Wu) 218:258-279.
Berg, C. M., Wang, G., Strausbaugh, L. D. and Berg, D. E. 1993. Transposon-facilitated
sequencing of DNAs cloned in plasmids Methods in Enzymology (ed. by R. Wu) 218:279306.
Persson, B. C., Gustafsson, C., Berg, D. E. and Bjork, G. R. 1992 The gene for a tRNA
modifying enzyme, m 5U54-methyltransferase, is essential for viability in Escherichia coli .
Proc. Natl. Acad. Sci., USA 89:3995-3998.
Neuwald, A. F., Berg, D. E., and Stauffer, G. V. 1992. Mutational analysis of the Escherichia
coli serB gene promoter region reveals transcriptional linkage to a downstream gene. Gene
120:1-9
Wikström, P. M., Lind, L. K., Berg, D. E. and Björk, G. R. 1992. The importance of mRNA
folding and start codon accessibility in the expression of genes in a ribosomal protein operon of
Excherichia coli J. Mol. Biol. 224:949-966.
Kersulyte, D., Krishnan, B. R. and Berg, D. E. 1992. Nonrandom orientation of transposon
Tn5supF insertions in phage lambda. Gene 114:91-96.
Akopyanz, N., Bukanov, N. O., Westblom, T. U., Kresovich, S. and Berg, D. E. 1992. DNA
diversity among clinical isolates of Helicobacter pylori detected by PCR-based RAPD
fingerprinting. Nuc Acids Res. 20:5137-5142.
Kersulyte, D., Woods, J. P., Keath, E. J., Goldman, W. E. and Berg, D. E. 1992. Diversity
among clinical isolates of Histoplasma capsulatum detected by RAPD DNA fingerprinting. J.
Bacteriol. 174:7075-7079.
Akopyanz, N., Bukanov, N. O., Westblom, T. U., and Berg, D. E. 1992. PCR-based RFLP
analysis of DNA sequence diversity in the gastric pathogen Helicobacter pylori. Nuc. Acids
Res. 20:6221-6225.
Kasai, H., Isono, S., Kitakawa, M., Mineno, J., Akiyama, H., Kurnit, D., Berg, D.E. and Isono, K.
1992.Efficient large scale sequencing of the Escherichia coli genome: Implementation of a
transposon- and PCR-based strategy for the analysis of overlapping _ phage clones. Nuc
Acids Res 20:6509-6515.
Krishnan, B. R. and Berg, D. E. 1993. Viability of folA-null derivatives of wild type (thyA+)
Escherichia coli K-12. J. Bacteriol. 175:909-911.
Neuwald, A. F., Krishnan, B. R., Ahrweiler, P. M., Frieden, C. and and Berg, D. E. 1993.
Conditional dihydrofolate reductase deficiency due to transposon Tn5tac1 insertion
downstream of the folA gene in Escherichia coli. Gene 125:69-73.
Woods, J. P., Kersulyte, D., Goldman, W. E. and Berg, D. E. 1993. Fast DNA isolation from
Histoplasma capsulatum: Methodology for arbiotrary primer PCR-based epidemiological and
clinical studies. J. Clin. Microbiol. 31:463-464.
Berg, C. M., Wang, G., Isono, K., Kasai, H. and Berg, D. E. 1993. Transposon-facilitated large
scale DNA sequencing. In "Automated DNA Sequencing and Analysis Techniques" (ed. C.
Venter). Academic Press, London pp. 51-59.
Wang, G., Berg, C. M., Chen, J.-M., Yong, A. C., Blakesley, R. W., Lee, L.-Y. and Berg, D. E.
1993. Creating nested deletions for sequencing cosmid DNAs. Focus 15:47-49.
Wang, G., Blakesley, R. W., Berg, D. E. and Berg, C. M. 1993. pDUAL: a transposon-based
cosmid cloning vector for generating nested deletions and DNA sequencing templates in vivo.
Proc. Natl. Acad. Sci. USA 90:7874-7878.
Wang, G., Whittam, T.S., Berg, C.M. and Berg, D.E. 1993. RAPD (arbitrary primer) PCR is
more sensitive than multilocus enzyme electrophoresis for distinguishing related bacterial
strains. Nuc. Acids Res 21:5930-5933.
Brikun, I., Suziedelis, K. and Berg, D.E. 1994. DNA sequence diversity among historic strains
of Escherichia coli K-12 detected by arbitrary primer PCR (random amplified polymorphic DNA)
fingerprinting. J. Bacteriol. 176:1673-1682.
Bukanov, N.O. and Berg, D.E. 1994. Ordered cosmid library and high resolution physicalgenetic map of Helicobacter pylori strain NCTC11638. Molec. Microbiol. 11:509-523.
Wang, G., Xu, X, Chen, J.-M., Berg, D.E, and Berg, C.M. 1994. Inversions and deletions
generated by a mini- (Tn1000) transposon. J. Bacteriol. 176:1332-1338 .
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Woods, J.P., Kersulyte, D., Tolan, R.W., Berg, C.M. and Berg, D.E. 1994. Use of arbitrarily
primed polymerase chain reaction analysis to type disease and carrier strains of Neisseria
meningitidis isolated during a university outbreak. J. Inf. Dis. 169:1384-1389.
Berg, C. M. and Berg, D. E. 1994. Transposable elements as tools for molecular analyses in
bacteria. In "Mobile Genetic Elements: Frontiers in Molecular Biology" (ed. D. Sherratt).
Oxford University Press, Oxford, UK. pp. 38-68.
Geary, S. J., Forsyth, M. H., Aboul, Saoud, S., Wang, G., Berg, D. E. and Berg, C. M. 1994.
Mycoplasma gallisepticum strain differentiation by arbitrary primer PCR (RAPD) fingerprinting.
Molec. Cell. Probes 8:311-316.
Berg, D. E., Akopyants, N. and Kersulyte, D. 1994. Fingerprinting microbial genomes using the
RAPD or AP-PCR method. Methods in Molec. Cell. Biology 5:13-24.
Bukanov, N., Ravi, N., Miller, D., Srivastava, K. and Berg, D.E. 1994. Pseudomonas
aeruginosa isolates from corneal ulcers distinguished using the arbitrarily primed PCR DNA
fingerprinting method. Current Eye Res. 13:783-790.
Akopyants, N. S., Eaton, K. A. and Berg, D. E. 1995. Adaptive mutation and co-colonization
during Helicobacter pylori infection of gnotobiotic piglets. Infect Immun. 63:116-121
Krishnan, B.R., Jamry, I. Berg, D. E., Berg, C. M. and Chaplin, D.D. 1995. Construction of a
genomic DNA "Feature Map" by sequencing from nested deletions: Application to the HLA
class I region. Nucl. Acids Res. 23:117-122.
Taylor, N. S., Fox, J. G., Akopyants, N.S., Berg, D. E., Thompson, N., Shames, B., Yan, L.,
Fontham, E., Janney, F., Hunter, F. M., and Correa, P. 1995. Long term colonization with
single and multiple strains of Helicobacter pylori assessed by DNA fingerprinting. J. Clin.
Microbiol. 33:918-923.
Madico, G., N. S. Akopyants and D. E. Berg, 1995. Arbitrarily primed PCR DNA fingerprinting
of Escherichia coli O157:H7 strains using templates from boiled cultures. J. Clin. Microbiol.
33:1534-1536.
Kersulyte, D., M. J. Struelens, A. Deplano and D. E. Berg. 1995. Comparison of arbitrarily
primed PCR and macrorestriction (pulsed field gel electrophoresis) typing of Pseudomonas
aeruginosa strains from cystic fibrosis patients. J. Clin. Microbiol. 33: 2216-2219
Persson, B. C., G. O. Bylund, D. E. Berg and P. M. Wikström. 1995. A functional analysis of
the ffh-trmD region of the Escherichia coli chromosome using reverse genetics. J. Bacteriol.
177:5554-5560.
Drazek, E. S., A. Dubois, R. K. Holmes, D. Kersulyte, N.S. Akopyants, D. E. Berg and R. L.
Warren. 1995. Cloning and characterization of hemolytic genes from Helicobacter pylori.
Infect. Immun. 63: 4345-4349.
LaBanca, F., Krishnan, B.R., Chaplin, D.D., Berg, D. E. and Berg, C. M. 1995. "Drop-out"
restriction mapping: construction of a 35 kb restriction map using nested deletions. Gene
164:335-339
Berg, D. E. 1995. Genética molecular de Helicobacter pylori. In "Helicobacter pylori:
Microbiologia clinica y tratamiento". (edited and translated by M. Lopez-Brea) Mosby/Doyma
Libros, Madrid. pp. 84-116.
Berg, C. M. and D. E. Berg 1996. Transposable element tools for microbial genetics. In
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Neidhardt, F.C., Curtiss, R. III, Gross, C., Ingraham, J., Lin, E. C. C., Low, K.B., Magasanik, B.,
Reznikoff, W. S., Riley, M., Schaechter, M., and Umbarger, H.E.) American Society for
Microbiology, Washington, D.C., pp 2588-2612.
Brikun, I., K. Suziedelis, O. Stemmann, R. Zhong, L. Alikhanian, E. Linkova, A. Mironov and D.
E. Berg. 1996. Analysis of crp-cytR interactions at the Escherichia coli udp promoter. J.
Bacteriol. 178:1614-1622.
Vasquez, A., Y. Valdez, R. H. Gilman, J. J. McDonald, T. U. Westblom, D. Berg, H. Kayta, V.
Gutierrez and the Gastrointestinal Physiology Working Group of Universidad Peruana
Cayetano Heredia and The Johns Hopkins University. 1996. Metronidazole and clarithromycin
resistance in Helicobacter pylori determined by measuring MICs of antimicrobial agents in color
indicator egg yolk agar in a miniwell format. J. Clin. Microbiol. 34:1232-1234.
Dubois, A., D. E. Berg, E. T. Incecik, N. Fiala, L. M. Heman-Ackah, G. I. Perez-Perez, and M.
J. Blaser. 1996. Transient and persistent infection of nonhuman primates with Helicobacter
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and Sverdlov, E. 1996. Oligonucleotides containing 2-aminoadenine and 5-methylcytosine are
more effective as primers for PCR amplification than their nonmodified counterparts. Genetic
Analysis: Biomolecular Engineering 13:15-21.
Azhikina, T., Kostina, M., Skaptsova, N., Potapov, V., Berg, D. and Sverdlov, E. 1996. Factors
affecting priming efficiency of short contiguous oligonucleotide strains in the primer walking
strategy of DNA sequencing. DNA sequence: the journal of sequencing and mapping. 6:
211-216.
Swenson, DL, Bukanov, NO, Berg, DE and Welch, RA. 1996. Two pathogenicity islands in
uropathogenic Escherichia coli J96: cosmid cloning and sample sequencing. Inf. & Immun.
64:3736-3743.
Logan, R. P. H. and Berg, D. E. 1996. Genetic diversity of Helicobacter pylori. Lancet
348:1462-1463.
Berg, D. E. J. Lelwala-Guruge, E. T. Incecik, K. Srivastava and N. S. Akopyants. 1997.
Helicobacter pylori DNA fingerprinting using the arbitrarily primed PCR (AP-PCR) or random
amplified polymorphic DNA (RAPD) method. In "Methods in Molecular Medicine: Helicobacter
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Dubois, A., and D. E. Berg. 1997. The non-human primate model for H. pylori infection. In
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Akopyants, NS, Jiang, Q, Taylor, DE and Berg, DE. 1997. Corrected identity of isolates of
Helicobacter pylori strain NCTC11637. Helicobacter. 2:48-52
Berg, D. E. and Logan, R. P. H. 1997. Helicobacter pylori, individual host specificity and human
disease. Bioessays 19:86-90.
Woods, JP, Berg, DE, and Fisher, KL. 1997 Extraction of Histoplasma capsulatum DNA for
PCR. In Fingerprinting Methods Based on PCR, M.R. Micheli and R. Bova (eds), Heidelberg,
Springer-Verlag, in press.
Cover, T, Berg, D.E., and Blaser, M. J. 1997. VacA and the cag pathogenicity island of
Helicobacter pylori. In "The Immunobiology of H. pylori: from pathogenesis to prevention. In
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Ketchum, K.A. Klenk, H.P., Gill, S., Dougherty, B.A., Nelson, K., Quackenbush, J., Zhou, L.,
Kirkness, E.F., Peterson, S., Loftus, B., Richardson, D., Dodson, R.,Khalak, H.G., Glodek, A.,
McKenney, K., Fitzegerald, L.M., Lee, N., Adams, M.D., Hickey, E.K., Berg, D.E., Gocayne,
J.D., Utterback,T.R., Peterson, J.D., Kelley, J.M., Cotton, M.D., Weidman, J.M., Fujii, C.,
Bowman, C., Watthey, L., Wallin, E., Hayes, W.S., Borodovsky, M., Karp, P.D., Smith, H.O.,
Fraser, C.M. and Venter, J.C. (1997) The complete genome sequence of the gastric pathogen
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Berg DE, Gilman RH, Lelwala-Guruge J, Srivastava K, Valdez Y, Watanabe J, Miyagi J,
Akopyants NS, Ramirez-Ramos A, Yoshiwara TH, Recavarren S, Leon-Barua R. 1997
Helicobacter pylori Populations in Individual Peruvian Patients. Clin. Inf. Dis. 25:996-1002.
Berg, D.E., Hoffman, P. S., Appelmelk, B.J. and Kusters, J.G. 1997. The Helicobacter pylori
genome sequence: genetic factors for long life in the gastric mucosa. Trends Microbiol. 5:468474
Gzyl, A., Berg, D. E. and Dzierzanowska. 1997 Epidemiology of cagA/vacA genes in H. pylori
isolated from children and adults in Poland. J. Physiol Pharmac. 48:333-343.
Ilver, D., Arnqvist, A., Ogren, J., Frick, I-M., Kersulyte, D., Incecik, E. T., Berg, D. E., Covacci,
A., Engstrand, L. and Boren, T. 1998 The Helicobacter pylori Lewis b blood group antigen
binding adhesin revealed by retagging. Science 279: 373-377
Dubois, A., Berg, D.E., Fiala, N., Heman-Ackah, L.M., Perez-Perez, G. and Blaser, M.J. 1998
Cure of Helicobacter pylori infection by omeprazole-clarithromycin-based therapy in non-human
primates. J. Gastro. 33:18-22.
Akopyants, N. S., Clifton, S. W., Kersulyte, D., Crabtree, J.E., Youree, B.E., Reece, C.A.,
Bukanov, N. O., Drazek, E. S., Roe, B. A. and Berg, D. E. 1998 Analyses of the cag
pathogenicity island of Helicobacter pylori. Molec. Microbiol. 28:37-54
Goodwin, A., Kersulyte, D., Sisson, G., Veldhuyzen van Zanten, S. J. O., Berg, D. E. and
Hoffman, P. S. 1998. Metronidazole-Resistance in Helicobacter pylori is caused by null
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mutations in a gene (rdxA) that encodes an NADPH Linked Flavin Nitroreductase Activity.
Molec. Microbiol. 28:383-393.
150 Kersulyte, D., Akopyants, N.S., Clifton, S.W., Roe, B.A. and Berg, D. E. 1998. Novel sequence
organization and insertion specificity of IS605 and IS606: chimaeric transposable elements of
Helicobacter pylori. GENE 223:175-186
151 Höök-Nikanne, J., Berg, D. E., Peek, R. R., Kersulyte, D. Tummuru, M. K. R. and Blaser, M.J..
DNA sequence conservation and diversity in transposable element IS605 of Helicobacter
pylori. Helicobacter 3:79-85.
152 Guruge, J. L., Falk, P. G., Lorenz, R. G., Dans, M., Wirth, H.-P., Blaser, M. J., Berg, D. E. and
Gordon, J. I. 1998 Epithelial attachment alters the outcome of Helicobacter pylori infection
Proc. Natl. Acad. Sci., USA 95: 3925-3930.
153 Pan, Z.-J., Berg, D.E., van der Hulst, R.W.M., Su, W.-W., Raudonikiene, A., Xia, S.-D.,
Dankert, J., Tytgat, G.N.J. and van der Ende, A. 1998. High prevalence of vacuolating
cytotoxin production and unusual distribution of vacA alleles in Helicobacter pylori from China.
J. Inf. Dis.178:220-226
154 McAtee, C.P., Lim M.Y., Fung, K., Velligan, M., Fry, K. and Berg, D.E. Identification of potential
diagnostic and vaccine candidates of Helicobacter pylori by two-dimensional gel
electrophoresis, sequence analysis and serum profiling. Clin Diagn Lab Immunol. 5:537-42.
155 McAtee, C.P., Young, M.L., Fung, K., Velligan, M., Fry, K. and Berg, D.E. 1998.
Characterization of a Helicobacter pylori vaccine candidate by proteome techniques. J.
Chromatog B Biomed Sci Appl 714:325-33.
156. Zakharova, N., Hoffman, P.S., Berg, D.E. and Severinov, K. 1998. The largest subunits of RNA
polymerase from gastric Helicobacters are tethered. J. Biol. Chem 273:19371-19374.
157. McAtee, C.P. and Berg, D. E. 1998. Identification of potential diagnostic and vaccine candidates
of Helicobacter pylori by "proteome" technologies. Helicobacter 3:163-169.
158. Chalkauskas, H., Kersulyte, D., Cepuliene, I., Urbonas, V., Ruzeviciene, D., Barakauskiene, A.,
Raudonikiene, A., and Berg, D. E. 1998. Genotypes of Helicobacter pylori in Lithuanian
families. Helicobacter 3: 296-302.
159 Akopyants,NS, Fradkov, A, Diatchenko,L, Siebert, PD, Lukyanov, S, Sverdlov, ED and Berg,
DE. 1998. PCR-based subtractive hybridization and differences in gene content among strains
of Helicobacter pylori. Proc. Natl. Acad. Sci., USA 95:13108-13113.
160. Kersulyte, D., Chalkauskas, H. and Berg, D. E. 1999. Emergence of recombinant strains of
Helicobacter pylori during human infection. Molec. Microb. 31:31-43.
161 Dubois, A., Berg, D.E., Incecik, E.T., Fiala, N., Heman-Ackah, L. M., Del Valle, J., Yang, M,
Wirth, H.-P., Perez-Perez, G.I. and Blaser, M.J. 1999. Individual host specificity of
Helicobacter pylori strains and host responses in experimentally challenged non-human
primates. Gastroenterology, 116:90-96.
162. Gzyl, A., Dzierzanowska, Roznyek, E., Celinska-Cedro, D, Dura, W. and Berg, D. E. 1999. PCRbased diagnosis of Helicobacter pylori in Polish children and adults. J. Med. Micro. 48:349-356.
163. Raudonikiene, A., Zakharova, N. Su, WW, Jeong, JY, Bryden, L., Hoffman, PS, Berg, D. E.
and Severinov, K. 1999 Helicobacter pylori with separate  and ' subunits of RNA polymerase
is viable and can colonize mice. Molec Microbiol 32:131-138
164. Berg, D.E. 1999. Variabilité génomique chez Helicobacter pylori: étendue, signification. Lettre
de l'infectiologue 14 (suppl 1):9-15.
165. Achtman, M., Azuma, T., Berg, D. E., Ito, Y., Morelli, G., Pan, Z.-J., Suerbaum, S., Thompson,
S. A., van der Ende, A. and van Doorn, L.J. 1999. Recombination and clonal groupings within
Helicobacter pylori from different geographical regions. Molec. Microbiol. 32:459-470.
166. Zakharova, N., Wesley, I., Dewhirst, F.E., Paster. B.J., Berg, D.E., and Severinov, K.J. 1999
Fused and overlapping rpoB and rpoC genes in Helicobacters, Campylobacters and related
bacteria. J. Bacteriol. 181: 3857-3859
167 Li, S.D., Kersulyte, D., Lindley, I.J.D., Neelam, B., Berg, D. E. and Crabtree, J. E. 1999. Multiple
genes in the cag pathogenicity island of Helicobacter pylori are required for tyrosine kinase
dependent transcription of interleukin-8 in gastric epithelial cells. Inf. Immun. 67:3893-3899
168. Crabtree, J.E., Kersulyte, D., Li, S.D., Lindley, I.J.D., and Berg, D. E. 1999 Modulation of
Helicobacter pylori induced IL-8 synthesis in gastric epithelial cells mediated by cag PAIencoded VirD4 homologue. J. Clin Path. 52:653-657
169. Debets-Ossenkopp, Y.J., Pot, R.G.J., van Weserloo, D.J., Goodwin, A., Vandenbroucke-Grauls,
C.M.J.E., Berg, D.E., Hoffman, P.S. and Kusters, J.G. 1999. Insertion of mini-IS605 and
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deletion of adjacent sequences in the nitroreductase (rdxA) gene cause metronidazole
resistance in Helicobacter pylori NCTC11637. Antimicrob Agents Chemo. 43:2657-2662.
170. Dubois, A., Welch, A., Berg, D. E. and Blaser, M. J. 2000 Helicobacter pylori. In "Persistent
Bacterial Infections" J.P. Nataro, MJ Blaser and S Cunningham-Rundles eds. ASM Press,
Washington DC., pp 263-280.
171. Monteiro, M. A., MacLean, L. L., Chan, K. H. Pan, Z. J., Yokota, S., Amano, K., Berg, D. E. and
Perry, D. E. 2000. Production of histo-blood group antigens by lipopolysaccharides isolated
from Chinese and Japanese hosts: comparison of Asian and Western H. pylori
lipopolysaccharide molecules. Glycobiology 10:701-713
172. Mitra, R., Figueroa, P., Mukhopadhyay, A. K., Shimada, T., Takeda, Y., Berg, D. E., and Nair, G.
B. 2000. Cell vacuolation, a manifestation of the hemolysin of Vibrio cholerae. Infection and
Immunity 68:1928-1933.
173. Caviedes, L., Lee, T.-S., Gilman, R. H., Sheen, P., Berg, D. E., Montenegro-James, S. and the
Tuberculosis Working Group in Peru. 2000 Fast and efficient detection and drug susceptibility
testing of Mycobacterium tuberculosis in sputum by microscopic observation of broth cultures.
J. Clin Micro. 38:1203-1208
174. Kersulyte, D., Mukhopadhyay, A. K., Velapatiño, B., Valdez, Y., Su, WW, Pan, ZJ, Hernandez,
V., Garcia, C., Gilman, R. H., Kersulyte, D. Mukhopadhyay, A. K., Velapatiño, B., Valdez, Y.,
Su, WW., Pan, ZJ., Hernandez, V., Garcia, C., Gilman, R. H., Yuan, Y., Gao, H. Watanabe, J.,
Rodriguez, C., Nair, G. B., Chowdhury, A., Dutta, S., Shirai, M., Nakazawa, T., Alarcon, T.,
Lopez-Brea, M., Mistry, R. S., Ally, R., Segal, I., Wong, B. C. Y., Lam, S. K., Ogren, J.,
Engstrand, L., Boren, T., Torres, O., Schneider, R., Thomas, J. E., Czinn, S., and Berg, D. E.
2000 Differences in Genotypes of Helicobacter pylori from Different Human Populations. J.
Bacteriol. 182:3210-3218
175. Mukhopadhyay, A.K., D. Kersulyte, S. Datta, A. Chowdhury, S. Chowdhury, A. Santra, S.K.
Bhattacharya, G. B. Nair, and D.E. Berg. 2000 Distinctiveness of genotypes of Helicobacter
pylori in Calcutta, India. J. Bacteriol. 182:3219-3227
176. Wang, W.H., B.C.Y. Wong, A.K. Mukhopadhyay, D.E. Berg, C.H. Cho, K.C. Lai, W.H.C. Hu,
F.M.Y. Fung, W.M. Hui, and S.K. Lam, 2000. High prevalence of Helicobacter pylori infection
with dual resistance to metronidazole and clarithromycin in Honk Kong. Aliment Pharmacol.
Ther. 14: 901-910.
177. Jeong, J.Y., A.K. Mukhopadhyay, D. Dailidiene, Y. Wang, B. Velapatiño, R.H. Gilman, A.J.
Parkinson, G.B. Nair, B.C.Y. Wong, S.K. Lam, R. Mistry, I. Segal, Y. Yuan, H. Gao, T. Alarcon,
M. Lopez Brea, Y. Ito, D. Kersulyte, H.K. Lee, Y. Gong, A. Goodwin, P.S. Hoffman, and D.E.
Berg. 2000. Sequential inactivation of rdxA (HP0954) and frxA (HP0642) nitroreductase genes
cause moderate and high level metronidazole resistance in Helicobacter pylori J. Bacteriol.
182: 5082-5090.
178. Sisson, G., J-Y. Jeong, A. Goodwin, L. Bryden, N. Rossler, S. Lim-Morrison, A. Raudonikiene,
D.E. Berg, and P.S. Hoffman. 2000. Metronidazole Activation is Mutagenic and Causes DNA
Fragmentation in Helicobacter pylori and in Escherichia coli Containing a Cloned H. pylori rdxA
(Nitroreductase) Gene. J. Bacteriol. 182:5091-5096
179. Kersulyte, D., A.K. Mukhopadhyay, M. Shirai, T. Nakazawa, and D.E. Berg. 2000 Functional
organization and insertion specificity of IS607, a chimaeric element of Helicobacter pylori. J.
Bacteriol., 182:5300-5308
180. Kostina M., T. Azhikina, T. Gorodentseva, D. Berg, E. Sverdlov. 2000. Contiguous strings of
strongly binding short oligonucleotides as a useful tool for completing sequencing experiments.
DNA Seq 10:355-64
181. Jeong, J. Y. and D.E. Berg. 2000. Mouse colonizing Helicobacter pylori strain SS1 is unusually
susceptible to metronidazole due to two complementary reductase activities. Antimicrob.
Agents Chemoth. 44:3127-3132.
182. Cover, T. L., Berg, D. E., Blaser, M. J., and Mobley, H. L. T. 2001. H. pylori pathogenesis. In
"Principles of bacterial pathogensis" (E. A. Groisman, ed.) Academic Press, NY, pp. 509-558.
183. Blaser, M. J. and Berg, D. E. 2001. Helicobacter pylori genetic diversity and risk of human
disease. Perspectives. J. Clin. Investig. 107:767-773.
184. Figueroa-Arredondo, P., Heuser, J. E., Akopyants, N. S., Morisaki, J. H., Giono-Cerezo, S.,
Enríquez-Rincón, F., and Berg, D. E. 2001. Cell vacuolation caused by the hemolysin of Vibrio
cholerae. Inf. Immun. 69:1613-1624.
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185. Vitkute, J., Stankevicius, K., Tamulaitiene, G., Maneliene, Z., Timinskas, A., Berg, D.E. and
Janulaitis, A. 2001. Specificities of eleven different DNA methyltransferases of Helicobacter
pylori strain 26695. J. Bact. 183:443-450.
186. Wong, B.C.Y., Wang, W.H., Berg, D.E., Fung, F.M.Y., Wong, K.W., Wong, W.M., Lai, K.C.,
Cho, C.H., Hui, W.M., and Lam, S.K. 2001. High prevalence of mixed infections by
Helicobacter pylori in Hong Kong: Metronidazole sensitivity and overall genotype Aliment
Pharmacol. Ther. 15:493-503
187. Eaton, K. A., Kersulyte, D., Mefford, M., Danon, S. J., Krakowka, S. and Berg, D. E. 2001. Role
of Helicobacter pylori cag region genes in colonization and gastritis in two animal models. Inf
and Immun. 69:2902-2908.
188. McAtee, C. P. Hoffman, P. S. and Berg, D. E. 2001. Identification of differentially regulated
proteins in metronidazole resistant Helicobacter pylori by proteome techniques. Proteomics
1:516-521.
189. Wong, BCY, Yin, Y, Berg, DE, Xia, HHX, Zhang, JZ, Wang, WH, Wong, WM, Huang, XR, Tang,
VSY, Lam, SK. 2001. Distribution of distinct vacA, cagA and iceA alleles in Helicobacter pylori
in Hong Kong. Helicobacter 6:317-324.
190. Mukhopadhyay, A.K., Chakraborty, S., Takeda, Y., Nair, G.B., and Berg, D.E. Characterization of
VPI pathogenicity island and CTX prophage in environmental strains of Vibrio cholerae J.
Bact. 183:4737-4746.
191. Jeong, J. Y., A. K. Mukhopadhyay, J. K. Akada, D. Dailidiene, P. S. Hoffman and D. E. Berg.
2001. Roles of FrxA and RdxA nitroreductases of Helicobacter pylori in susceptibility and
resistance to metronidazole. J. Bact. 183:5155-5162.
192. Roth DE, Velapatino B, Gilman RH, Su WW, Berg DE, Cabrera L, Garcia. 2001. A comparison of
a string test-PCR assay and a stool antigen immunoassay (HpSA) for Helicobacter pylori
screening in Peru. Trans R Soc Trop Med Hyg 2001 95:398-399
193. Datta S, Kurazono H, Chattopadhyay S, Chowdhury A, Chaudhuri S, Bhattacharya SK,
Mukhopadhyay AK, Berg DE, Hirayama T, Nair GB. 2001. Estimation of vacuolating cytotoxin
secreted by different strains of Helicobacter pylori using bead enzyme-linked immunosorbent
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_____12
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_____13
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_____14
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COMPLETE GENOME SEQUENCE GENBANK ACCESSIONS – Helicobacter pylori and H. cetorum
European
CP003486.1
CP002334.1
HUP-B14,
Lithuania75,
AE000511.1
26695,
West African
CP002332.1 Gambia94/24,
South Asian
CP002331.1
CP002983.1
also plasmid, NC_017734.1
also plasmid, NC_017363.1
also plasmid, NC_017364.1
India7, Kolkata
SNT49, Indian Santhal ethnic minority
Amerindian – remote villages, Peru
CP003474.1 Shi112,
CP003473.1 Shi169,
CP003472.1 Shi417,
CP001072.2 Shi470,
CP002076.1 Cuz20,
CP002071.1 Sat464,
also plasmid, NC_017356.1
CP002980.1
CP002982.1
Puno120,
Puno135,
also plasmid, NC_017377.1
Amerindian – Northern Canada
Akl86
Aklavik, NW Territories
Akl117
Aklavik, NW Territories
Urban Latin American
Peru
CP002073.1
CP002074.1
CP003475.1
El Salvador
CP002953.1
SJM180,
PeCan4,
PeCan18,
ELS37,
South African
CP002336.1 SAfr7
SAfr20
SAfr50
Other Helicobacter species
AM260522.1 acinonychis, …
_____17
also plasmid, NC_014556.1
also plasmid, NC_017064.1
also plasmid, NC_017373.1
also plasmid, NC_017380.1
CP003481.1 cetorum dolphin MIT 99-5656, plasmid, NC_017736.1
CP003479.1 cetorum whale MIT 00-7128, plasmid, NC_017738.1
OTHER
Berg, D.E. 1997. STOP PRESS... The Helicobacter pylori genome sequence: it's out public domain. Trends Microbiol. 13:400.
Berg, D.E., Strausbaugh, L, Shaw, K.J. and Zhang, J. 1997. In memoriam: Claire Berg,
1937-1997. Molec. Microbiol. 26:409-410.
Hoffman, P.S. and Berg, D. E., 1998. Helicobacter pylori and Metronidazole Resistance:
Peptic Ulcer Disease and Gastric Cancer. Bulletin, Alliance for Prudent Use of
Antibiotics (APUA) 16:5.
BOOK
Berg, D.E. and M. M. Howe (editors) 1989.
Microbiology, Washington, DC.
MOBILE DNA, American Society for
OTHER RESEARCH SUPPORTED BY BERG GRANT FUNDS
Fonstein, M., Nikoskaya, T., Zaporojets, D., Nikolsky, Y., Kulakauskas, S and Mironov, A.
1994. Tn10-mediated inversions fuse uridine phosphorylase (udp) and rRNA genes of
Escherichia coli. J. Bacteriol. 176:2265-2271.
Asahi M, Tanaka Y, Izumi T, Ito Y, Naiki H, Kersulyte D, Tsujikawa K, Saito M, Sada K,
Yanagi S, Fujikawa A, Noda M, Itokawa Y. 2003. Helicobacter pylori CagA Containing
ITAM-Like Sequences Localized to Lipid Rafts Negatively Regulates VacA-Induced
Signaling In Vivo. Helicobacter 8:1-14.
PATENTS
DNA transposon Tn5seq1; Inventors: Dilip K. Nag, Henry V. Huang and Douglas E. Berg
Patent number 5,137,829; issued August 11, 1992.
DNA transposon Tn5supF Inventors: Suhas H. Phadnis, Henry V. Huang and Douglas E. Berg
Patent number 5,316,946; issued May 31, 1994.
A transposon-containing cloning vector and uses therefore. . Inventors: Claire M. Berg, Gan
Wang and Douglas E. Berg. Patent number 08/403,582; allowance issued 22 Nov 1996.
(application filed March 15, 1995).
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