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KEGG GENOME Database

Organisms and ecosystems with genome sequence information

KEGG2 PATHWAY BRITE MODULE KO GENOME GENES SSDB Organisms
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KEGG Organisms

KEGG GENOME is a collection of KEGG organisms, which are the organisms with complete genome sequences and each of which is identified by the three- or four-letter organism code, and additional organisms with draft genome sequences. It now also contains selected viral genomes that are linked from KEGG DISEASE entries. KEGG GENOME is supplemented by MGENOME, a collection of metagenome sequences from environmental samples (ecosystems). The three categories, complete genomes, draft genomes and metagenomes, correspond to the gene catalog databases of GENES, DGENES and MGENES, respectively (see KEGG GENES).

Category DBGET
(genome)
Identifiers DBGET
(genes)
Annotation
Complete genomes
(KEGG Organisms)
GENOME GENOMES T0 numbers / three- or four-
letter organism codes
GENES KOALA/manual
Viral genomes New! T4 numbers
Draft genomes T1 numbers DGENES BlastKOALA
Metagenomes MGENOME T3 numbers MGENES GhostKOALA

Enter KEGG organism code or use Organism button to select
     (Examples) hsa  mmu  dme  cel  ath  sce  eco  bsu  syn  mja

KEGG Taxonomy and NCBI Taxonomy

KEGG organisms are organized in a simple hierarchy of taxonomic classification, here called the KEGG taxonomy. KEGG organisms are also shown in the hierarchy of the NCBI taxonomy with the taxonomic ranks in its abbreviated lineage. The ordering of KEGG organisms is identical in both hierarchies because the KEGG taxonomy is created in a manner consistent with the NCBI taxonomy. As shown above the NCBI taxonomy is used to represent non-complete genomes (plasmids and addendum) categories of the KEGG GENES database. It is also used to compare KEGG organisms and the NCBI reference and representative genomes.

Taxonomy Mapping

The interface below allows mapping of KEGG organisms to the NCBI taxonomy or the KEGG taxonomy according to the three- or four-letter KEGG organism codes. Given a set of NCBI taxonomy IDs, the following interface generates a taxonomy tree.

KEGG Mapping for Genome Comparison and Combination

An organism group may be defined to compare or combine KEGG organisms, other organisms and environmental samples, enabling the analysis of combined pathway maps for the group.
Define organism group (enter organism codes or T numbers):

(Genome comparison)
hsa eco Homo sapiens (human) vs. Escherichia coli K-12 strain
such as Terpenoid backbone biosynthesis
where green for human, red for E.coli, and split for both
(Host-microbiome relationship)
hsa+T30003 Homo sapiens (human) + gut microbiome
such as Global metabolism map
where green for human, red for gut microbiome, and blue for both
(Host-symbiont relationship)
T10018+mlo Lotus japonicus (lotus) + Mesorhizobium loti
api+buc Acyrthosiphon pisum (pea aphid) + Buchnera aphidicola
bmy+wbm Brugia malayi (filaria) + Wolbachia
(Host-vector-pathogen relationship)
hsa+aga+pfa Homo sapiens (human) + Anopheles gambiae (mosquito) + Plasmodium falciparum
There are predefined organism groups in KEGG, such as shown below:
(Taxonomic group)
Vertebrates Vertebrates (defined in KEGG organisms)
(Genus-level pangenome)
Escherichia Escherichia pangenome (defined in KEGG genus list)
(Species-level pangenome)
Escherichia coli Escherichia coli pangenome (defined in KEGG species list)

Last updated: June 1, 2016
KEGG GenomeNet Kanehisa Laboratories