1. CHARACTERIZING THE RESPONSE OF
Vibrio tubiashii TO CHANGES IN
ENVIRONMENTAL CONDITIONS
a funomic approach
Tatyana Marushchak, Sam White, Steven Roberts
School of Aquatic and Fishery Sciences | University of Washington
3. How do changes in the environment
influence Vibrio tubiashii physiology?
4. How do we assess alterations in
Vibrio tubiashii physiology?
changes in expression of genes and proteins
basic biological information complementing
experimental and environmental studies
5. Experiments
• Simple
• Low oxygen conditions
• Little more complex
• Presence of oysters
15. GO Annotations Chart 6
biosynthesis
response to endogenous stimulus
transport
Control
ion transport
signal transduction
cell communication
transcription
protein metabolism
cell cycle
carbohydrate metabolism
protein biosynthesis
cell organization and biogenesis
response to external stimulus
amino acid and derivative metabolism
morphogenesis
protein modification
generation of precursor metabolites and energy
Low Oxygen
death
response to abiotic stimulus
cell death
cell differentiation
cell homeostasis
nucleic acid metabolism
secondary metabolism
catabolism
lipid metabolism
DNA metabolism
response to stress
0 0.025 0.050 0.075 0.100
16. V. tubiashii
V. tubiashii +
live oysters
V. tubiashii +
sterile oysters
Oysters
Experiment Two: Oysters
26. Putative replication protein
HTH-type transcriptional regulator
fructose repressor
Thermostable 8-oxoguanine DNA glycosylase
TrbL/VirB6 plasmid conjugal transfer protein
glutamyl-tRNA synthetase
glycine betaine-binding protein
transcriptional regulator, AraC family protein
peptide ABC transporter,
Na+/proline symporter
putative lipase activator protein
RecF/RecN/SMC N domain protein
putative exopolysaccharide biosynthesis protein
signal transduction histidine kinase
ribosomal protein L15
lipase chaperone
putative transposase
putative extracellular serine protease
putative solute/DNA competence effector
translation initiation factor IF-2
putative ABC transporter
msha biogenesis protein mshf
cobalamin biosynthesis protein
ATP-dependent helicase HrpA
ribose ABC transporter, periplasmic ribose-
binding protein
isocitrate dehydrogenase
nitric oxide reductase
putative anti-sigma B factor antagonist
ABC-type tungstate transport system,
cytochrome c4
Transcriptional regulator, SorC family
arsenate reductase
outer membrane lipoprotein blc
27. peptide ABC transporter
bacterial sugar transferase
Dna-J like membrane chaperone protein
putative ABC transporter substrate-binding protein
translation intiation factor Sui1
putative glycosyltransferase
glycine dehydrogenase
methyl-accepting chemotaxis protein
glycine cleavage system protein T2
fructose 1,6-bisphosphatase II
transposase OrfAB, subunit B
membrane carboxypeptidase
transcriptional regulator, AraC family protein
gp5
Putative replication protein
gamma-glutamyltranspeptidase
30S ribosomal protein S1
HTH-type transcriptional regulator
glutamyl-tRNA synthetase
N-6 DNA Methylase family
28. Summary - Low oxygen
• Low oxygen conditions alter protein
expression patterns
• Comparative genome analysis is effective to
assess physiological response in V. tubiashii
29. Summary - Oyster presence
• NGS is viable option for gene discovery
and expression
• Flagella associated genes are not expressed
at higher levels when oysters are present
• Cellular stress response regulated in V.
tubiashii upon oyster exposure (RSE)
• Protease expression increases at 24 hours
of exposure
30. Future Direction
• Comparative microbial analysis to
determine species specific responses to
environmental change
• Coordinate with experimental and
environmental sampling - relevance
• Characterize the host response in relation
to pathogen physiology