Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Draft genome sequence of Marinobacterium stanieri S30, a strain isolated from a coastal lagoon in Chuuk state in Micronesia.

ABSTRACT: In this study, we isolated xylan-degrading bacteria from a coastal lagoon of Micronesia and identified the bacteria as Marinobacterium stanieri S30. GSFLX 454 pyrosequencing and sequence analysis of the M. stanieri S30 genome generated 4,007 predicted open reading frames (ORFs) that could be candidate genes for producing enzymes with different catalytic functions.

SUBMITTER: Choi YU

PROVIDER: S-EPMC3294781 | biostudies-literature | 2012 Mar

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Draft genome sequence of Marinobacterium stanieri S30, a strain isolated from a coastal lagoon in Chuuk state in Micronesia.

Choi Young-Ung YU Kwon Young-Kyung YK Ye Bo-Ram BR Hyun Jung-Ho JH Heo Soo-Jin SJ Affan Abu A Yoon Kon-Tak KT Park Heung-Sik HS Oh Chulhong C Kang Do-Hyung DH

Journal of bacteriology 20120301 5

In this study, we isolated xylan-degrading bacteria from a coastal lagoon of Micronesia and identified the bacteria as Marinobacterium stanieri S30. GSFLX 454 pyrosequencing and sequence analysis of the M. stanieri S30 genome generated 4,007 predicted open reading frames (ORFs) that could be candidate genes for producing enzymes with different catalytic functions. ...[more]

PMID: 22328757

Similar Datasets

Draft genome sequence of Rubidibacter lacunae strain KORDI 51-2(T), a cyanobacterium isolated from seawater of Chuuk lagoon.

Project description:A photoautotrophic cyanobacterium, Rubidibacter lacunae was reported in 2008 for the first time. The type strain, KORDI 51-2(T), was isolated from seawater of Chuuk lagoon located in a tropical area. Although it belonged to a clade exclusively comprised of extremely halotolerant strains by phylogenetic analyses, R. lacunae is known to be incapable of growth at high salt concentration over 10%. Here we report the main features of the genome of R. lacunae strain KORDI 51-2(T). The genome of R. lacunae contains a gene cluster for phosphonate utilization encoding three transporters, one regulator and eight C-P lyase subunits.

| S-EPMC3910548 | biostudies-literature

DNA barcoding of coral reef fishes from Chuuk State, Micronesia.

Project description:The fish diversity of Chuuk Micronesia is currently under threat due to rapid changes in the coral reef ecosystem. Thus, accurate fish identification using DNA barcodes is fundamental for exploring species biodiversity and resource protection. In this study, we analyzed 162 fish mitochondrial DNA cytochrome c oxidase I (COI) barcodes from Chuuk Micronesia. Consequently, we identified 95 species from 53 genera in 26 families and seven orders. The average Kimura 2-parameter genetic distances within species, genera, families, and orders were calculated as 0.17%, 11.78%, 15.63%, and 21.90%, respectively. Also, we have utilized DNA barcodes to perform genetic divergence and phylogenetic analysis of families recognized as dominant groups in Chuuk State. Our findings confirm that DNA barcodes using COI are an effective approach in identifying coral reef fish species. We anticipate that the results of this study will provide baseline data for the protection of coral reef fish biodiversity at Chuuk Micronesia.

| S-EPMC7671707 | biostudies-literature

Complete Genome Sequence of Marinobacterium sp. Strain LSUCC0821, Isolated from the Coastal Gulf of Mexico.

Project description:Here, we present the complete genome sequence of Marinobacterium sp. strain LSUCC0821, isolated from the coastal Gulf of Mexico with artificial seawater using high-throughput dilution-to-extinction (DTE) cultivation. The 2.36-Mbp circularized genome sequence has 2,231 predicted genes, a 91.5% coding density, and a GC content of 47.8%.

| S-EPMC7714843 | biostudies-literature

Draft genome sequence of Marinobacterium rhizophilum CL-YJ9T (DSM 18822T), isolated from the rhizosphere of the coastal tidal-flat plant Suaeda japonica.

Project description:The genus Marinobacterium belongs to the family Alteromonadaceae within the class Gammaproteobacteria and was reported in 1997. Currently the genus Marinobacterium contains 16 species. Marinobacterium rhizophilum CL-YJ9T was isolated from sediment associated with the roots of a plant growing in a tidal flat of Youngjong Island, Korea. The genome of the strain CL-YJ9T was sequenced through the Genomic Encyclopedia of Type Strains, Phase I: KMG project. Here we report the main features of the draft genome of the strain. The 5,364,574 bp long draft genome consists of 58 scaffolds with 4762 protein-coding and 91 RNA genes. Based on the genomic analyses, the strain seems to adapt to osmotic changes by intracellular production as well as extracellular uptake of compatible solutes, such as ectoine and betaine. In addition, the strain has a number of genes to defense against oxygen stresses such as reactive oxygen species and hypoxia.

| S-EPMC5663061 | biostudies-literature

Marinobacterium stanieri S30

Project description:Marinobacterium stanieri S30 genome sequencing project

| PRJNA67839 | ENA

Draft Genome Sequence of Pelagicola sp. Strain LXJ1103, Isolated from Coastal Surface Seawater.

Project description:Pelagicola sp. strain LXJ1103, a representative of a new species in the family Rhodobacteraceae, was isolated from the coastal surface waters in Xiamen, China. Here, we announce the draft genome sequence and initial findings from a preliminary analysis of strain LXJ1103.

| S-EPMC6256632 | biostudies-literature

Draft Genome Sequence of Romboutsia maritimum sp. nov. Strain CCRI-22766T, Isolated from Coastal Estuarine Mud.

Project description:The Romboutsia maritimum sp. nov. CCRI-22766T strain was isolated from coastal estuarine mud in New Zealand. The genome assembly comprised 2,854,352 bp, with 27.1% G+C content. This is the first documentation that reports the genome sequence of R. maritimum.

| S-EPMC5637497 | biostudies-literature

The complete mitochondrial genome of Menathais tuberosa (Gastropoda, Neogastropoda, Muricidae) collected from Chuuk Lagoon.

Project description:Complete mitochondrial genome of the knobbed rock shell sea snail Menathais tuberosa (Röding, 1798) has been sequenced and phylogenetic relationships evaluated due to mitochondrial protein coding genes. The size of mitochondrial genome for M. tuberosa is 15,294 bp and the nucleotide composition of the mitochondrial genome is 28.4% A, 16.5% C, 17.6% G and 37.5% T. Reconstructed phylogenetic tree of the Neogastropoda showed that M. tuberosa is in the monophyletic Muricidae. This is the first record of complete mitochondrial genome from the genus.

| S-EPMC7800070 | biostudies-literature

Draft Genome Sequence of Zobellia sp. Strain OII3, Isolated from the Coastal Zone of the Baltic Sea.

Project description:Zobellia sp. strain OII3 was isolated from a marine environmental sample due to its heterotrophic lifestyle, i.e., using Escherichia coli cells as prey. It shows strong agar-lytic activity. The genome was assembled into 41 contigs with a total size of 5.4 Mb, revealing the genetic basis for natural product biosynthesis.

| S-EPMC5589523 | biostudies-literature

Draft Genome Sequence of a Polyhydroxyalkanoate-Producing Bacillus cereus Strain Isolated from Nuevo Leon State, Mexico.

Project description:Polyhydroxyalkanoates (PHA) are microbially produced biopolymers which are biodegradable and biocompatible. These compounds produced by microorganisms have been described as a potent alternative to synthetic plastics, which are often recalcitrant. Here, we report the draft genome sequence of a PHA-producing Bacillus cereus isolated in our laboratory.

| S-EPMC9302066 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data