Database Authors
Pallavi Subhraveti1, Anamika Kothari1, Peter Midford1, Ron Caspi1, Lisa Moore1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 22-Nov-2024 from the annotated genome of Yarrowia lipolytica CLIB89(W29), as obtained from RefSeq (annotation date: 10-SEP-2024). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 28.5) [Karp11, Karp16] using MetaCyc version 28.5 [Caspi20]. It has not undergone any manual curation or review, and may contain errors.
Genome
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NC_090774.11310108234,198,534RefSeq:NC_090774.1
NC_090775.11200103174,002,965RefSeq:NC_090775.1
NC_090773.1100079213,629,463RefSeq:NC_090773.1
NC_090772.11440122223,366,276RefSeq:NC_090772.1
NC_090771.18607793,044,971RefSeq:NC_090771.1
NC_090770.11900163272,257,857RefSeq:NC_090770.1
Total:771065211920,500,066
Ortholog data available?No
Database Contents
Genes771
Pathways6
Enzymatic Reactions30
Transport Reactions0
Polypeptides7,918
Protein Complexes0
Enzymes2
Transporters1
Compounds122
tRNAs514
Database Version29.0
Synonyms Candida lipolytica
Endomycopsis lipolytica
Mycotorula lipolytica
Taxonomic Lineage cellular organisms
Eukaryota
Opisthokonta
Fungi
Dikarya
Ascomycota
saccharomyceta
Saccharomycotina
Dipodascomycetes
Dipodascales
Dipodascales incertae sedis
Yarrowia
Yarrowia lipolytica
Genetic Code Number 1 -- Standard
NCBI-Taxonomy4952
Environmentwaste water
Geographic LocationFrance

References

Caspi20: Caspi R, Billington R, Keseler IM, Kothari A, Krummenacker M, Midford PE, Ong WK, Paley S, Subhraveti P, Karp PD (2020). "The MetaCyc database of metabolic pathways and enzymes - a 2019 update." Nucleic Acids Res 48(D1);D445-D453. PMID: 31586394

Karp11: Karp PD, Latendresse M, Caspi R (2011). "The pathway tools pathway prediction algorithm." Stand Genomic Sci 5(3);424-9. PMID: 22675592

Karp16: Karp PD, Latendresse M, Paley SM, Krummenacker M, Ong QD, Billington R, Kothari A, Weaver D, Lee T, Subhraveti P, Spaulding A, Fulcher C, Keseler IM, Caspi R (2016). "Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology." Brief Bioinform 17(5);877-90. PMID: 26454094

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Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC17.