Ruegeria pomeroyi dss-3 - OmicsDI

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Genomics (92)
Unknown (37)
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Organisms

Ruegeria pomeroyi DSS-3 (10)
Alphavirus (7)
Anemia (7)
Archaea (7)
Bacteria (7)
Betaherpesvirinae (7)
Borrelia (7)
Chlamydomonas reinhardtii (7)
Chlorella vulgaris (7)
Clostridium perfringens (7)
Ruegeria pomeroyi (4)
gamma proteobacterium HTCC2207 (2)
marine metagenome (2)
Rhodopseudomonas palustris CGA009 (1)
Roseovarius sp. 217 (1)
Roseobacter sp. MED193 (1)
Yoonia vestfoldensis SKA53 (1)
Maritimibacter alkaliphilus (1)
Sulfitobacter sp. NAS-14.1 (1)
Oceanicola granulosus HTCC2516 (1)
Ruegeria sp. TM1040 (1)
Jannaschia sp. CCS1 (1)
Sagittula stellata E-37 (1)
Pseudooceanicola batsensis HTCC2597 (1)
Roseovarius nubinhibens ISM (1)
Sulfitobacter sp. EE-36 (1)
Polaribacter sp. MED152 (1)
Candidatus Pelagibacter ubique HTCC1062 (1)
Thalassospira sp. HF15 (1)
Vibrio hepatarius (1)

Organisms

Ruegeria pomeroyi DSS-3 (67)
prokaryotic metagenome (12)
Ruegeria phage DSS3_VP2 (1)
Ruegeria pomeroyi (1)
marine metagenome (1)

Repository

ENA (92)
biostudies-arrayexpress (8)
geo (7)
pride (7)
MetaboLights (3)
PAXDB (2)
GNPS (1)
MassIVE (1)
NODE (1)

Disease

Disease free (1)

Technology Type

Mass Spectrometry (7)
Shotgun proteomics (5)
Mass spectrometry (2)
NMR spectroscopy (1)
Bottom-up proteomics (1)
Data-dependent acquisition (1)

Instrument Platform

Thermo Scientific LTQ FT Ultra (2)
AB SOLiD 4 System (1)
Vanquish UHPLC linked to an Orbitrap Fusion Lumos mass spectrometer (Thermo Fisher Scientific, San Jose, CA, USA) (1)
TSQ Vantage (Thermo Scientific) (1)
Liquid Chromatography Tandem MS (LC-MS/MS) (1)
Nuclear Magnetic Resonance (NMR) - (1)

Publication Date

2023 (5)
2010 (4)
2015 (3)
2014 (2)
2011 (2)
2007 (2)
2025 (2)
2020 (2)
2019 (2)
2016 (1)
2022 (1)
2008 (1)
2018 (1)
2026 (1)

UNIPROT ID/AC

A0A5C6_RUEPO (2)
ACCA_RUEPO (2)
ACUI_RUEPO (2)
ADEC_RUEPO (2)
APT_RUEPO (2)
ARGB_RUEPO (2)
ARGC_RUEPO (2)
ARGJ_RUEPO (2)
ARLY_RUEPO (2)
AROB_RUEPO (2)
AROC_RUEPO (2)
AROQ_RUEPO (2)
ASSY_RUEPO (2)
ATPA_RUEPO (2)
ATPB_RUEPO (2)
ATPD_RUEPO (2)
ATPE_RUEPO (2)
ATPF_RUEPO (2)
ATPG_RUEPO (2)
ATPL_RUEPO (2)
CARA_RUEPO (2)
CCME1_RUEPO (2)
CH10_RUEPO (2)
CH60_RUEPO (2)
CLPP_RUEPO (2)
CLPX_RUEPO (2)
COAD_RUEPO (2)
COAX_RUEPO (2)
COBT_RUEPO (2)
CTAA_RUEPO (2)

CHEBI ID

CHEBI:16691 (2)
CHEBI:26271 (2)
CHEBI:22660 (2)
CHEBI:28300 (2)
CHEBI:17748 (2)
CHEBI:28044 (2)
CHEBI:18211 (2)
CHEBI:29016 (2)
CHEBI:17750 (2)
CHEBI:15891 (2)
CHEBI:16865 (2)
CHEBI:7916 (2)
CHEBI:16027 (2)
CHEBI:16680 (2)
CHEBI:16335 (2)
CHEBI:17596 (2)
CHEBI:50677 (1)
CHEBI:156381 (1)
CHEBI:21615 (1)
CHEBI:142440 (1)
CHEBI:17285 (1)
CHEBI:84459 (1)
CHEBI:36276 (1)
CHEBI:25017|CHEBI:24898 (1)
CHEBI:60996 (1)
CHEBI:84373 (1)
CHEBI:16892 (1)
CHEBI:27744 (1)
CHEBI:28915 (1)
CHEBI:16457 (1)

Metabolite Name

Isethionate (1)
4-amino-5-hydroxymethyl-2-methylpyrimidine (1)
Adenosine 3'-monophosphate (1)
S-(1,2-dicarboxyethyl)glutathione (1)
Homoserine (1)
Syringic acid (1)
Pantothenic acid (1)
Glucose 6-phosphate (1)
Ciliatine (1)
Adenosine 5'-monophosphate (1)
2,3-Dihydroxypropane-1-sulfonate (1)
Xanthosine (1)
Thymidine (1)
Proline (1)
Gamma-aminobutyric acid (1)
Citrulline (1)
Aspartate (1)
Asparagine (1)
Xanthine (1)
Phenylalanine (1)
Threonine (1)
Ornithine (1)
Alanine (1)
Isoleucine (1)
Putrescine (1)
Valine (1)
Taurocholic acid (1)
4-Amino-5-aminomethyl-2-methylpyrimidine (1)
Taurine (1)
Sarcosine (1)

First Public Date

2025 (37)
2018 (37)
2014 (4)
2022 (3)
2016 (3)
2026 (2)
2021 (2)
2023 (1)
2020 (1)
2017 (1)
2013 (1)

Classification

viruses (1)

Study type

Transcription profiling by array (6)
RNA-seq of coding RNA (1)
RNA-seq of non coding RNA (1)

Release Date

2023 (5)
2016 (4)
2015 (4)
2010 (4)
2022 (4)
2014 (3)
2025 (3)
2020 (3)
2018 (3)
2012 (3)
2021 (2)
2013 (2)
2011 (1)
2007 (1)
2026 (1)
2024 (1)
2019 (1)

Lab affiliation

CEA, DRF, IBiTec-S, SPI, Li2D, Laboratory "Innovative technologies for Detection and Diagnostics" (3)
CEA-Marcoule, ProGenoMIX platform, DRF-Li2D, 30207 Bagnols-sur-Ceze, France (1)
School of Chemistry and Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, Parkville, Victoria, Australia (1)
School of Chemistry, University of Melbourne, Parkville, Victoria 3010, Australia. Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, Parkville, Victoria 3010, Australia. (1)
Woods Hole Oceanographic Institution USA (1)

Tags

xref:ArrayExpress:E-MTAB-4468 (1)
xref:PubMed:15602564 (1)
xref:PubMed:20880331 (1)
xref:PubMed:17526795 (1)
pathogen:virus (1)
pathogen (1)

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Evidence for quorum sensing and differential metabolite production by Ruegeria pomeroyi in response to DMSP

Microbial alteration and remineralization of organic matter in the ocean play essential roles in the carbon cycle. The impact of individual compounds as either growth substrates or infochemicals is still poorly constrained in models, particularly for organisms with relatively versatile genomes. Here...

2015-01-29 | MTBLS157 | MetaboLights

Experimental identification of small non-coding RNAs in the model marine bacterium Ruegeria pomeroyi DSS-3

In oligotrophic ocean waters where bacteria are often subjected to chronic nutrient limitation, community transcriptome sequencing has pointed to the presence of highly abundant small RNAs (sRNAs). The role of sRNAs in regulating response to nutrient stress was investigated in a model heterotrophic ...

ORGANISM(S): Ruegeria pomeroyi DSS-3

2016-02-27 | E-MTAB-4468 | biostudies-arrayexpress

Ruegeria pomeroyi DSS-3

Ruegeria pomeroyi DSS-3 Mutation Accumulation

PRJNA320454 | ENA

Ruegeria pomeroyi DSS-3

Ruegeria pomeroyi DSS-3 Mutation Accumulation Project

PRJNA320442 | ENA

Ruegeria pomeroyi DSS-3 isolate:ATCC 700808

Ruegeria pomeroyi DSS-3 Transposon library T8repB_JGI other

PRJNA444443 | ENA

Ruegeria pomeroyi DSS-3 isolate:ATCC 700808

Ruegeria pomeroyi DSS-3 Transposon library T8repC_JGI other

PRJNA444444 | ENA

Ruegeria pomeroyi DSS-3 isolate:ATCC 700808

Ruegeria pomeroyi DSS-3 Transposon library T8repA_JGI other

PRJNA444442 | ENA

Ruegeria pomeroyi DSS-3 isolate:ATCC 700808

Ruegeria pomeroyi DSS-3 Transposon library T8repA_Jun other

PRJNA444445 | ENA

Ruegeria pomeroyi DSS-3 isolate:ATCC 700808

Ruegeria pomeroyi DSS-3 Transposon library T8repB_Jun other

PRJNA444446 | ENA

Ruegeria pomeroyi DSS-3 isolate:ATCC 700808

Ruegeria pomeroyi DSS-3 Transposon library T8repC_Jun other

PRJNA444447 | ENA

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