Ruegeria - OmicsDI

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Genomics (208)
Unknown (126)
Proteomics (19)
Transcriptomics (16)
Metabolomics (8)
Other (1)

Organisms

Alphavirus (13)
Anemia (13)
Ruegeria pomeroyi DSS-3 (10)
Ruegeria pomeroyi (4)
gamma proteobacterium HTCC2207 (2)
marine metagenome (2)
Rhodopseudomonas palustris CGA009 (1)
Corynebacterium glutamicum (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)
Aurantiacibacter marinus (1)
Bacillus infantis (1)
Bacillus pacificus (1)
Pseudomonas abyssi (1)
Ruegeria sp. AD91A (1)
Vibrio azureus (1)

Organisms

Ruegeria pomeroyi DSS-3 (67)
prokaryotic metagenome (12)
Emiliania huxleyi (12)
Thalassiosira pseudonana (12)
Ruegeria conchae (3)
Ruegeria atlantica (3)
Ruegeria halocynthiae (3)
Tritonibacter mobilis (3)
Ruegeria sp. (3)
Ruegeria sp. TrichCH4B (2)
Ruegeria lacuscaerulensis (2)
Ruegeria pomeroyi (2)
Ruegeria sp. PrR005 (2)
coral metagenome (2)
Ruegeria sp. TM1040 (1)
Ruegeria sp. 39RL_GOM-46m (1)
Ruegeria sp. 45A_GOM-46m (1)
Ruegeria sp. 52_GOM-46m (1)
Ruegeria sp. R11 (1)
Ruegeria profundi (1)
Ruegeria sediminis (1)
Ruegeria (1)
Ruegeria sp. 6PALISEP08 (1)
Ruegeria sp. P4 (1)
Ruegeria sp. MALMAid1280 (1)
Ruegeria spongiae (1)
Ruegeria faecimaris (1)
Ruegeria phage 67 MN-2018 (1)
Ruegeria discodermiae (1)
Ruegeria sp. YS9 (1)

Repository

ENA (208)
pride (13)
biostudies-arrayexpress (9)
geo (7)
GNPS (4)
MassIVE (3)
MetaboLights (3)
PAXDB (2)
iProX (1)
MetabolomicsWorkbench (1)
NODE (1)

Tissue

Water (1)
Cell culture (1)
Cell suspension culture (1)

Disease

Disease free (1)

Technology Type

Mass Spectrometry (13)
Shotgun proteomics (9)
Mass spectrometry (2)
NMR spectroscopy (1)
NMR (1)
Bottom-up proteomics (1)
Data-dependent acquisition (1)
SWATH MS (1)
Top-down proteomics (1)

Instrument Platform

LTQ FT (2)
Impact II (2)
Thermo Scientific LTQ FT Ultra (2)
AB SOLiD 4 System (1)
Orbitrap Fusion Lumos (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)
2014 (4)
2010 (4)
2015 (3)
2022 (3)
2025 (3)
2019 (3)
2017 (3)
2016 (2)
2011 (2)
2007 (2)
2024 (2)
2020 (2)
2026 (2)
2008 (1)
2018 (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 (65)
2018 (41)
2016 (16)
2013 (16)
2026 (14)
2017 (11)
2015 (11)
2022 (8)
2020 (6)
2023 (5)
2014 (5)
2024 (4)
2019 (4)
2021 (2)

Classification

viruses (3)

Study type

Transcription profiling by array (7)
RNA-seq of coding RNA (1)
RNA-seq of non coding RNA (1)

Release Date

2023 (18)
2025 (13)
2022 (13)
2016 (9)
2018 (9)
2024 (8)
2021 (8)
2020 (8)
2014 (7)
2019 (7)
2017 (7)
2013 (6)
2012 (6)
2015 (5)
2010 (4)
2011 (3)
2026 (2)
2007 (1)
2008 (1)

Lab affiliation

CEA, DRF, IBiTec-S, SPI, Li2D, Laboratory "Innovative technologies for Detection and Diagnostics" (3)
University of Washington, Department of Genome Sciences (3)
CEA-Marcoule, ProGenoMIX platform, DRF-Li2D, 30207 Bagnols-sur-Ceze, France (2)
Director, Simon F.S. Li Marine Science Laboratory, CUHK, Hong Kong Associate Professor, School of Life Sciences, CUHK, Hong Kong (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)
University of Washington, Genome Sciences (1)
Woods Hole Oceanographic Institution USA (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

Ruegeria pomeroyi transporter mutant substrate drawdown

Not available

ORGANISM(S): Ruegeria pomeroyi

ST002381 | MetabolomicsWorkbench

Proteomic changes of Ruegeria pomeroyi grown on cysteinolic acid

Proteomic analysis to identify the pathway responsible for the breakdown of cysteinolic acid by Ruegeria pomeroyi.

ORGANISM(S): Ruegeria pomeroyi DSS-3

2025-12-12 | PXD059358 | Pride

Cysteinolic acid Ruegeria pomeroyi

Proteomic profiling of Ruegeria in response to coral tissue extract

Probiotic applications show great potential for coral restoration, though conventional probiotics may form only transient associations with hosts. A proof-of-concept study revealed that Ruegeria MC10, an evolutionarily endosymbiont lineage, could persistently colonize coral tissue and enhance host h...

ORGANISM(S): Ruegeria sp. JZ08IS16

2026-03-20 | PXD069552 | Pride

Ruegeria Coral-associated bacteria Comparative proteomics Coral tissue extract

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 sp.

Ruegeria sp. genome sequencing and assembly

PRJNA1264799 | ENA

Ruegeria sp.

Ruegeria sp. 3rd generation sequencing-based assembly

PRJNA1275854 | ENA

Ruegeria sp. S263

Ruegeria sp. S263 Genome sequencing

PRJNA1310278 | ENA

Ruegeria sp. S84