ABASM 2014 Registration, Dinner & Workshop Reservation form (send to newman@lycoming.edu )
Name_________________________
Institution ______________________________________
Friday November 7, 2014
2:30 – 5:00 PM Hands-On Workshop. No Cost. Descriptions on next page. Attending? Y/N________.
If yes, rank sessions below by order of preference. Each session limited to 20 participants.
You will be notified of which session you are in within 48 hours of submission.
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Bacterial Whole Genome Assembly and Annotation with GCAT-SEEK
Medium throughput Phenotyping of YOUR Organism with Biolog GenIII plates
Fatty Acid Methyl Ester (FAME) Analysis of YOUR Organism
HPLC with Diode Array Detector analysis of non-polar pigments from YOUR Organism
5:15 – 6:30 PM Buffet Dinner. Cost $20 (3 entrées – Beef/poultry/vegetarian). Attending?
Y/N________.
6:30 – 6:45 PM Welcome and Opening Remarks
6:45 – 7:45 PM ASM Branch Lecturer
Dr. John F. Stolz, Director, Center for Environmental Research and Education, Duquesne
University. "Life in the Frac Pitt" The Microbiology of Unconventional Shale Gas Extraction.
8:00 – 9:30 PM Student Planned “Fun” Activity
Attending? Y/N________.
8:00 – 10:30 PM Hands-On Workshop. No Cost. Descriptions on next page. Attending? Y/N________.
If yes, rank sessions below by preference. Each session limited to 20 participants.
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______
______
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Bacterial Whole Genome Assembly and Annotation with GCAT-SEEK
Medium throughput Phenotyping of YOUR Organism with Biolog GenIII plates
Fatty Acid Methyl Ester (FAME) Analysis of YOUR Organism
HPLC with Diode Array Detector analysis of non-polar pigments from YOUR Organism
Saturday November 8, 2014
7:30-10:30 AM
7:30-8:45 AM
8:45-9:00 AM
9:00-10:30 AM
10:30-10:45
10:45-12:00
12:00-1:30 PM
12:00-1:30 PM
1:45-2:30 PM
2:30-3:30 PM
3:30-3:45 PM
3:45-4:45 PM
4:45-5:00 PM
Attending? Y/N________.
Registration, Poster Set-Up – Heim Ground Floor
Continental Breakfast, Faculty Exchange of Best Practice, – Heim G-09
Welcome and Opening Remarks, Dr. Jeff Newman, Lycoming College
Session 1 Poster Presentations (odd numbered posters), – Heim Building Ground Floor
Snacks Heim G-09
Session 1 Oral Presentations, Heim G-11
ABASM Business Meeting and Lunch, Jonas Room in Wertz Student Center
Student lunch and career panel, Schultz Room in Wertz Student Center
Amy Cheng Vollmer, Swarthmore College.
Lessons learned from studying bacterial stress response in E. coli
Session 2 Poster Presentations (even numbered posters) – Heim Ground Floor
Snacks Heim G-09
Session 2 Oral Presentations, Heim G-11
Awards presentation and Closing Remarks, Jeff Newman, Lycoming College, Heim G-11
Hands-On Workshop Descriptions.
Bacterial Whole Genome Assembly and Annotation with GCAT-SEEK
Participants will access the GCAT-SEEK server at Juniata College to initiate a de novo assembly of
a bacterial genome from raw MiSeq data. Assembly statistics and output will be reviewed, the
assembly will be uploaded to RAST for automated annotation. Annotated genomes will be
reviewed to predict phenotypes, compared to identify shared and unique genes, and used to
calculate average nucleotide identity (ANI), average amino acid identity (AAI) and estimated
DNA-DNA hybridization value (DDH). A drawing will be done from participants for a free
genome sequence (~1/30th of a MiSeq run) through GCAT-SEEK.
Medium Throughput Phenotyping of YOUR Organism with Biolog GenIII Plates
Participants will bring an actively growing plate of their organism streaked for single colonies.
(Biolog Universal Growth medium + Blood preferred, TSA + Blood 2nd choice, TSA 3rd choice,
other complex rich medium acceptable). During the workshop, participants will suspend their
organism in inoculating fluid, dispense the suspension into the wells of the Biolog GenIII plate
with a multi-channel pipettor, and load the plate into the Lycoming College Omnilog Instrument
for incubation and monitoring at 27oC. Initial data will be available at 5 PM on Saturday. Final
results will be sent via email.
Fatty Acid Methyl Ester (FAME) Analysis of YOUR Organism
Participants will bring an actively growing plate of their organism streaked for single colonies.
(Tryptic Soy Broth Agar preferred, TSA 2nd choice, TSA + Blood 3rd choice, other complex rich
medium acceptable). During the workshop, participants will harvest cells from the plate,
saponify the lipids, methylate the fatty acids, extract the fatty acid methyl esters, and determine
the percentage of each fatty acid methyl ester via gas chromatography on Lycoming College’s
Microbial ID Inc. Sherlock System. This system also compares the percentages to a database to
identify the organism. Final results will be available at 5 PM on Saturday.
HPLC with Diode Array Detector Analysis of Non-polar Pigments from YOUR Organism
Participants will bring an actively growing plate of their pigmented organism streaked for single
colonies (any medium acceptable). During the workshop, participants will harvest cells from the
plate, extract non-polar pigments with acetone, separate the pigments by reversed phase HPLC,
and obtain the UV-VIS spectrum of the pigments with the diode array detector. Final results will
be available at 5 PM on Saturday and will include a 3-D “pigment landscape” and excel data file
with elution profiles at peak wavelengths as well as spectra for pigment peaks.