GEO DataSets

(Submitter supplied) Beneficial microbial symbionts are often horizontally acquired by their animal hosts from environmental sources, requiring the symbionts to complete a lifestyle transition from free-living in the environment to association with host tissues. In the model symbiosis between the Hawaiian bobtail squid and its microbial symbiont Vibrio fischeri, one mechanism used to make this transition during host colonization is the formation of biofilm-like aggregates on host mucosa. more...

Organism:

Aliivibrio fischeri

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33575

15 Samples

Download data: TXT

(Submitter supplied) The bioluminescent bacterium Vibrio fischeri forms a mutually beneficial symbiosis with the Hawaiian bobtail squid, Euprymna scolopes, in which the bacteria, housed inside a specialized light organ, produce light used by the squid in its nocturnal activities. Upon hatching, E. scolopes juveniles acquire V. fischeri from the seawater through a complex process that requires, among other factors, chemotaxis by the bacteria along a gradient of N-acetylated sugars into the crypts of the light organ, the niche in which the bacteria reside. more...

Organism:

Aliivibrio fischeri

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28616

6 Samples

Download data: TXT

(Submitter supplied) We report the full transcriptome (RNA-Seq) of Vibrio fischeri ES114 in rich medium, seawater, and after venting from the Hawaiian bobtail squid Euprymna scolopes. We also report the effects of ribodepletion on low-biomass samples, down to input amount of 1ng total RNA.

Organism:

Aliivibrio fischeri ES114

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL21766

23 Samples

Download data: CSV

(Submitter supplied) The marine bacterium Vibrio fischeri requires flagellar motility to undergo symbiotic initiation with its host, the Hawaiian bobtail squid Euprymna scolopes. We sought to identify the genes activated by the sigma54-dependent flagellar master regulator, FlrA, in V. fischeri, thereby determining the flagellar regulon in this model symbiont.

Organism:

Aliivibrio fischeri

Type:

Expression profiling by array

Platform:

GPL5074

4 Samples

Download data: CEL

(Submitter supplied) The characterization of microbial community structure via 16S rRNA gene profiling has been greatly advanced in recent years by the application of amplicon pyrosequencing. The possibility of barcode-tagged sequencing of templates gives the opportunity to massively screen multiple samples from environmental or clinical sources for community details. However, an on-going debate questions the reproducibility and semi-quantitative rigour of pyrotag sequencing and, as in the early days of genetic community fingerprinting, pros and cons are continuously provided. more...

Organism:

environmental samples; environmental samples; aquifer metagenome; Aliivibrio fischeri; environmental samples

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL15200 GPL26069 GPL15201

21 Samples

Download data: FASTA, TXT

(Submitter supplied) The bioluminescent bacterium Vibrio fischeri initiates a specific, persistent symbiosis in the light organ of the squid Euprymna scolopes. During the early stages of colonization, V. fischeri is exposed to host-derived nitric oxide (NO). While NO can be both an antimicrobial component of innate immunity and a common signaling molecule of eukaryotes, its roles in beneficial host-microbe associations remain undescribed. more...

Organism:

Aliivibrio fischeri

Type:

Expression profiling by array

Platform:

GPL5074

12 Samples

Download data: CEL, CHP

(Submitter supplied) Acyl-homoserine lactone (acyl-HSL) quorum sensing was first discovered in Vibrio fischeri where it serves as a key control element of the seven-gene luminescence (lux) operon. Since this initial discovery, other bacteria have been shown to control hundreds of genes by acyl-HSL quorum sensing. Until recently, it has been difficult to examine the global nature of quorum sensing in V. fischeri. However, the complete genome sequence of V. more...

Organism:

Aliivibrio fischeri

Type:

Expression profiling by array

Platform:

GPL5074

8 Samples

Download data: CEL

(Submitter supplied) Custom GeneChips (11 uM feature size) representing >99% of the annotated open reading frames in the V. fischeri ES114 genome, as well as 125 intergenic regions greater than 150 bp, were constructed by Affymetrix Inc. (Santa Clara, CA). GeneChips were designed as described by the manufacturer in their GeneChip Custom Express Array Design Guide (www.affymetrix.com) except that, due to the low GC content of V. more...

Organism:

Aliivibrio fischeri

3 Series

24 Samples

Download data: CDF