Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics.

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Lai CH, Chou CY, Ch'ang LY, Liu CS, Lin W

Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics.

Genome Res. 2000 May;10(5):703-13.

PubMed ID
10810093 [ View in PubMed
]
Abstract

Modern biomedical research greatly benefits from large-scale genome-sequencing projects ranging from studies of viruses, bacteria, and yeast to multicellular organisms, like Caenorhabditis elegans. Comparative genomic studies offer a vast array of prospects for identification and functional annotation of human ortholog genes. We presented a novel comparative proteomic approach for assembling human gene contigs and assisting gene discovery. The C. elegans proteome was used as an alignment template to assist in novel human gene identification from human EST nucleotide databases. Among the available 18,452 C. elegans protein sequences, our results indicate that at least 83% (15,344 sequences) of C. elegans proteome has human homologous genes, with 7,954 records of C. elegans proteins matching known human gene transcripts. Only 11% or less of C. elegans proteome contains nematode-specific genes. We found that the remaining 7,390 sequences might lead to discoveries of novel human genes, and over 150 putative full-length human gene transcripts were assembled upon further database analyses. [The sequence data described in this paper have been submitted to the

DrugBank Data that Cites this Article

Polypeptides
NameUniProt ID
Tyrosine--tRNA ligase, mitochondrialQ9Y2Z4Details
Methionine-R-sulfoxide reductase B2, mitochondrialQ9Y3D2Details
Leucine carboxyl methyltransferase 1Q9UIC8Details
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13Q9P0J0Details
Glutaredoxin-2, mitochondrialQ9NS18Details
Retinol dehydrogenase 11Q8TC12Details
Gamma-secretase subunit APH-1AQ96BI3Details
60S ribosome subunit biogenesis protein NIP7 homologQ9Y221Details
Trafficking protein particle complex subunit 4Q9Y296Details
Diphthine methyl ester synthaseQ9H2P9Details
RuvB-like 2Q9Y230Details
Zinc transporter ZIP1Q9NY26Details
Elongation of very long chain fatty acids protein 1Q9BW60Details
V-type proton ATPase subunit HQ9UI12Details