GenomeNet Coral Resources

A collection of omics data and its annotation related to coral ecosystems (under construction)

KEGG	GENES	GENOME	Blast	Maple

KEGG genomes of coral and its symbionts

Organisms		Source
adf	Acropora digitifera (stoney coral)	OIST
smin	Symbiodinium minutum	OIST

KEGG bacterial genomes associated with coral reefs

Organisms			GenBank	PubMed
Gammaproteobacteria	vcy	Vibrio coralliilyticus RE98	GCA_000772065.1	25523764
	vct	Vibrio coralliilyticus OCN014	GCA_000763535.2	25523774
	pseo	Pseudoalteromonas sp. OCN003	GCA_000788395.1	25593253
Alphaproteobacteria	psf	Pseudovibrio sp. FO-BEG1	GCA_000236645.1	23601235
Alphaproteobacteria	thal	Candidatus Endolissoclinum faulkneri L2	GCA_000319385.1	23185008
Verrucomicrobia	caa	Coraliomargarita akajimensis DSM 45221	GCA_000025905.1	21304713

KEGG metagenomes from coral reefs

Samples		Source
T30770	GS048a - Moorea, Cooks Bay, French Polynesia	iMicrobe/GOS
T30771	GS048b - Inside Cook's Bay, Moorea, French Polynesia	iMicrobe/GOS
T30773	GS050 - Tikehau Lagoon, French Polynesia	iMicrobe/GOS
T30774	GS051 - Rangirora Atoll, French Polynesia	iMicrobe/GOS

KEGG MGENES related resources

Metagenomes: Annotated environmental gene catalog
RefGene: Reference gene catalogs from OM-RGC and IGC
BLAST: Blast search to MGENES and RefGene
Download sequence data:
The annotated sequence data are accessible from the GenomeNet FTP server [README] [FTP].
Other major projects included in MGEMES
- Global Ocean Sampling
- Human Microbiome Project
- MetaHIT
- IGC: Integrated reference catalog of the human gut microbiome
- Metagenome.jp
- NCBI GenBank Env

CREST Meta-omics analysis based on single cell genomics

The project team from Waseda University, Ryukyu University and Kyoto University produces 16S rRNA, metagenome, metatranscriptome, genome, single cell genome and transcriptome data from coral and water samples at Sesoko area. These data will be annotated for metabolic reconstruction and used for constructing mathematical models of environmemtal risk factors. CREST.

Data type	Sample size
16S rRNA	48 samples (6 days)
Metagenome	26 samples (3 days)
Metatranscriptome	26 samples (3 days)
Metatranscriptome (IonPGM)	8 samples (3 days)
Genome	14 samples (2 days)
Single cell genome
Transcriptome	24 samples (2 days)

Draft genomes of isolated bacteria from coral tissues

Date	Genome (Genus)			Annotation		Source
201404	0409	T19964	Alphaproteobactria; Sphingobium	Pathway map	Brite hierarchy	Contigs
	0414	T19965	Alphaproteobactria; Sphingopyxis	Pathway map	Brite hierarchy	Contigs
	0415	T19966	Alphaproteobactria; Brevundimonas	Pathway map	Brite hierarchy	Contigs
	0413	T19967	Gammaproteobactria; Stenotrophomonas	Pathway map	Brite hierarchy	Contigs
	0416	T19968	Actinobacteria; Microbacterium	Pathway map	Brite hierarchy	Contigs
201407	0712	T19969	Alphaproteobactria; Sphingomonas	Pathway map	Brite hierarchy	Contigs
	0708	T19970	Actinobacteria; Microbacterium	Pathway map	Brite hierarchy	Contigs
	0713	T19971	Actinobacteria; Mycobacterium	Pathway map	Brite hierarchy	Contigs
	0715	T19972	Firmicutes; Bacillus	Pathway map	Brite hierarchy	Contigs
	0717	T19973	Firmicutes; Bacillus	Pathway map	Brite hierarchy	Contigs
	0728	T19974	Firmicutes; Bacillus	Pathway map	Brite hierarchy	Contigs
	0737	T19975	Firmicutes; Bacillus	Pathway map	Brite hierarchy	Contigs
	0743	T19976	Firmicutes; Bacillus	Pathway map	Brite hierarchy	Contigs
	0749	T19977	Firmicutes; Bacillus	Pathway map	Brite hierarchy	Contigs
201411	1107	T19978	Alphaproteobactria; Mesorhizobium	Pathway map	Brite hierarchy	Contigs
	1112	T19979	Alphaproteobactria; Chelativorans	Pathway map	Brite hierarchy	Contigs
	1104	T19980	Gammaproteobactria; Stenotrophomonas	Pathway map	Brite hierarchy	Contigs
	1144	T19981	Gammaproteobactria; Stenotrophomonas	Pathway map	Brite hierarchy	Contigs
	1102	T19982	Actinobacteria; Nocardioides	Pathway map	Brite hierarchy	Contigs
	1123	T19983	Actinobacteria; Rhodococcus	Pathway map	Brite hierarchy	Contigs
	1157	T19984	Actinobacteria; Rhodococcus	Pathway map	Brite hierarchy	Contigs
	1132	T19985	Actinobacteria; Mycobacterium	Pathway map	Brite hierarchy	Contigs
	1135	T19986	Actinobacteria; Mycobacterium	Pathway map	Brite hierarchy	Contigs
201502	0209	T19987	Alphaproteobactria; Sphingomonas	Pathway map	Brite hierarchy	Contigs
	0214	T19988	Alphaproteobactria; Brevundimonas	Pathway map	Brite hierarchy	Contigs
	P11	T19989	Alphaproteobactria; Ruegeria	Pathway map	Brite hierarchy	Contigs
	P15	T19990	Gammaproteobactria; Vibrio	Pathway map	Brite hierarchy	Contigs
	0221	T19991	Gammaproteobactria; Psychrobacter	Pathway map	Brite hierarchy	Contigs
	0222	T19992	Gammaproteobactria; Pseudomonas	Pathway map	Brite hierarchy	Contigs
	0232	T19993	Gammaproteobactria; Alcanivorax	Pathway map	Brite hierarchy	Contigs
	0204	T19994	Firmicutes; Staphylococcus	Pathway map	Brite hierarchy	Contigs
	0225	T19995	Firmicutes; Staphylococcus	Pathway map	Brite hierarchy	Contigs
	0226	T19996	Firmicutes; Bacillus	Pathway map	Brite hierarchy	Contigs
	0228	T19997	Firmicutes; Bacillus	Pathway map	Brite hierarchy	Contigs
	0235	T19998	Actinobacteria; Rhodococcus	Pathway map	Brite hierarchy	Contigs
	P01	T19999	Bacteroidetes; Dokdonia	Pathway map	Brite hierarchy	Contigs

Keyword search to annotated genes: Bfind

BLAST search to annotated genes or contigs: Login page

Feedback	KEGG	GenomeNet	Kyoto University Bioinformatics Center