C. elegans ORFeome version 1.1: experimental verification of the genome annotation and resource for proteome-scale protein expression.
To verify the genome annotation and to create a resource to functionally characterize the proteome, we attempted to Gateway-clone all predicted protein-encoding open reading frames (ORFs), or the 'ORFeome,' of Caenorhabditis elegans. We successfully cloned approximately 12,000 ORFs (ORFeome 1.1), of which roughly 4,000 correspond to genes that are untouched by any cDNA or expressed-sequence tag (EST). More than 50% of predicted genes needed corrections in their intron-exon structures. Notably, approximately 11,000 C. elegans proteins can now be expressed under many conditions and characterized using various high-throughput strategies, including large-scale interactome mapping. We suggest that similar ORFeome projects will be valuable for other organisms, including humans.
Reboul
Jérôme
J
Dana-Farber Cancer Institute and Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA.
Vaglio
Philippe
P
Rual
Jean-François
JF
Lamesch
Philippe
P
Martinez
Monica
M
Armstrong
Christopher M
CM
Li
Siming
S
Jacotot
Laurent
L
Bertin
Nicolas
N
Janky
Rekin's
R
Moore
Troy
T
Hudson
James R
JR
Hartley
James L
JL
Brasch
Michael A
MA
Vandenhaute
Jean
J
Boulton
Simon
S
Endress
Gregory A
GA
Jenna
Sarah
S
Chevet
Eric
E
Papasotiropoulos
Vasilis
V
Tolias
Peter P
PP
Ptacek
Jason
J
Snyder
Mike
M
Huang
Raymond
R
Chance
Mark R
MR
Lee
Hongmei
H
Doucette-Stamm
Lynn
L
Hill
David E
DE
Vidal
Marc
M
D017398:Alternative Splicing; D000818:Animals; D017173:Caenorhabditis elegans / Q000235:genetics*; D003001:Cloning, Molecular; D018076:DNA, Complementary / Q000235:genetics; D018509:DNA, Helminth / Q000235:genetics; D030541:Databases, Genetic; D005091:Exons; D020224:Expressed Sequence Tags; D015870:Gene Expression; D017238:Genes, Helminth; D016678:Genome; D023281:Genomics; D015801:Helminth Proteins / Q000235:genetics; D006801:Humans; D007438:Introns; D016366:Open Reading Frames; D020543:Proteome; D040901:Proteomics
D018076:DNA, Complementary; D018509:DNA, Helminth; D015801:Helminth Proteins; D020543:Proteome