Browse
Submit Data
Databases
API
Help
Login

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Draft Genome Sequence of Shewanella sp. Strain ISO12, a Candidate Probiotic Isolated from the Intestine of Fundulus heteroclitus.

ABSTRACT: The genome of Shewanella sp. strain ISO12, which was isolated from the intestine of wild-caught Fundulus heteroclitus, was sequenced and is reported here. Bioinformatic analysis revealed genes encoding the bacteriocin marinocine and those potentially associated with probiotic activity. The genome sequence will assist in further identifying probiotic and other antibacterial processes.

PROVIDER: S-EPMC7256264 | BioStudies |

REPOSITORIES: biostudies

ACCESS DATA

Json Xml

Similar Datasets

Technical Analysis of Fundulus heteroclitus cDNA Microarrays

Project description:This SuperSeries is composed of the following subset Series: GSE12858: Technical Analysis of Fundulus heteroclitus cDNA Microarrays, experiment A GSE12898: Technical Analysis of Fundulus heteroclitus cDNA Microarrays, experiment B Refer to individual Series

| E-GEOD-13687 | BioStudies

Effect of water removal on Fundulus heteroclitus embryo transcriptome

Project description:The changes in the transcriptome of Fundulus heteroclitus embryos incubated in water or in air from the blastula stage was investigated. Embryos at blastula stage were sampled after different times under water or air, and at the same temperature, and compared by using a cDNA microarray containing 15.658 probes.

| E-GEOD-19424 | BioStudies

Fundulus heteroclitus heteroclitus

Project description:Fundulus heteroclitus heteroclitus RADseq reads

| PRJNA450424 | ENA

Genetic map for the Atlantic killifish (Fundulus heteroclitus) reference genome assembly (Fundulus_heteroclitus-3.0.2)

Project description:Genetic map that order scaffolds from the Fundulus heteroclitus reference genome assembly Fundulus_heteroclitus-3.0.2, NCBI BioProject PRJNA177717 (https://www.ncbi.nlm.nih.gov/bioproject/PRJNA177717/)

| S-BSST163 | BioStudies

Annotation of the Nuclear Receptors in an Estuarine Fish species, Fundulus heteroclitus.

Project description:The nuclear receptors (NRs) are ligand-dependent transcription factors that respond to various internal as well as external cues such as nutrients, pheromones, and steroid hormones that play crucial roles in regulation and maintenance of homeostasis and orchestrating the physiological and stress responses of an organism. We annotated the Fundulus heteroclitus (mummichog; Atlantic killifish) nuclear receptors. Mummichog are a non-migratory, estuarine fish with a limited home range often used in environmental research as a field model for studying ecological and evolutionary responses to variable environmental conditions such as salinity, oxygen, temperature, pH, and toxic compounds because of their hardiness. F. heteroclitus have at least 74 NRs spanning all seven gene subfamilies. F. heteroclitus is unique in that no RXR? member was found within the genome. Interestingly, some of the NRs are highly conserved between species, while others show a higher degree of divergence such as PXR, SF1, and AR?. Fundulus like other fish species show expansion of the RAR (NR1B), Rev-erb (NR1D), ROR (NR1F), COUPTF (NR2F), ERR (NR3B), RXR (NR2B), and to a lesser extent the NGF (NR4A), and NR3C steroid receptors (GR/AR). Of particular interest is the co-expansion of opposing NRs, Reverb-ROR, and RAR/RXR-COUPTF.

| S-EPMC5552072 | BioStudies

A novel variant of aquaporin 3 is expressed in killifish (Fundulus heteroclitus) intestine.

Project description:Killifish (Fundulus heteroclitus) are euryhaline teleosts that are widely used in environmental and toxicological studies, and they are tolerant to arsenic, in part due to very low assimilation of arsenic from the environment. The mechanism of arsenic uptake by the intestine, a major route of arsenic uptake in humans is unknown. Thus, the goal of this study was to determine if aquaglyceroporins (AQPs), which transport water and other small molecules including arsenite across cell membranes, are expressed in the killifish intestine, and whether AQP expression is affected by osmotic stress. Through RT-PCR and sequence analysis of PCR amplicons, we demonstrated that the intestine expresses kfAQP3a and kfAQP3b, two previously identified variants, and also identified a novel variant of killifish AQP3 (kfAQP3c) in the intestine. The variants likely represent alternate splice forms. A BLAST search of the F. heteroclitus reference genome revealed that the AQP3 gene resides on a single locus, while an alignment of the AQP3 sequence among 384 individuals from eight population ranging from Rhode Island to North Carolina revealed that its coding sequence was remarkably conserved with no fixed polymorphism residing in the region that distinguishes these variants. We further demonstrate that the novel variant transports arsenite into HEK293T cells. Whereas kfAQP3a, which does not transport arsenite, was expressed in both freshwater (FW) and saltwater (SW) acclimated fish, kfAQP3b, an arsenic transporter, was expressed only in FW acclimated fish, and kfAQP3c was expressed only in SW acclimated fish. Thus, we have identified a novel, putative splice variant of kfAQP3, kfAQP3c, which transports arsenic and is expressed only in SW acclimated fish.

| S-EPMC4402271 | BioStudies