TY - JOUR
AU1 - Lincoln D, Stein
AU2 - Zhirong, Bao
AU3 - Darin, Blasiar
AU4 - Thomas, Blumenthal
AU5 - Michael R, Brent
AU6 - Nansheng, Chen
AU7 - Asif, Chinwalla
AU8 - Laura, Clarke
AU9 - Chris, Clee
AU1 - Avril, Coghlan
AU1 - Alan, Coulson
AU1 - Peter, D'Eustachio
AU1 - David H. A, Fitch
AU1 - Lucinda A, Fulton
AU1 - Robert E, Fulton
AU1 - Sam, Griffiths-Jones
AU1 - Todd W, Harris
AU1 - LaDeana W, Hillier
AU1 - Ravi, Kamath
AU2 - Patricia E, Kuwabara
AU2 - Elaine R, Mardis
AU2 - Marco A, Marra
AU2 - Tracie L, Miner
AU2 - Patrick, Minx
AU2 - James C, Mullikin
AU2 - Robert W, Plumb
AU2 - Jane, Rogers
AU2 - Jacqueline E, Schein
AU2 - Marc, Sohrmann
AU3 - John, Spieth
AU3 - Jason E, Stajich
AU3 - Chaochun, Wei
AU3 - David, Willey
AU3 - Richard K, Wilson
AU3 - Richard, Durbin
AU3 - Robert H, Waterston
AB - The soil nematodes Caenorhabditis briggsae and Caenorhabditis elegans diverged from a common ancestor roughly 100 million years ago and yet are almost indistinguishable by eye. They have the same chromosome number and genome sizes, and they occupy the same ecological niche. To explore the basis for this striking conservation of structure and function, we have sequenced the C. briggsae genome to a high-quality draft stage and compared it to the finished C. elegans sequence. We predict approximately 19,500 protein-coding genes in the C. briggsae genome, roughly the same as in C. elegans . Of these, 12,200 have clear C. elegans orthologs, a further 6,500 have one or more clearly detectable C. elegans homologs, and approximately 800 C. briggsae genes have no detectable matches in C. elegans . Almost all of the noncoding RNAs (ncRNAs) known are shared between the two species. The two genomes exhibit extensive colinearity, and the rate of divergence appears to be higher in the chromosomal arms than in the centers. Operons, a distinctive feature of C. elegans , are highly conserved in C. briggsae , with the arrangement of genes being preserved in 96% of cases. The difference in size between the C. briggsae (estimated at approximately 104 Mbp) and C. elegans (100.3 Mbp) genomes is almost entirely due to repetitive sequence, which accounts for 22.4% of the C. briggsae genome in contrast to 16.5% of the C. elegans genome. Few, if any, repeat families are shared, suggesting that most were acquired after the two species diverged or are undergoing rapid evolution. Coclustering the C. elegans and C. briggsae proteins reveals 2,169 protein families of two or more members. Most of these are shared between the two species, but some appear to be expanding or contracting, and there seem to be as many as several hundred novel C. briggsae gene families. The C. briggsae draft sequence will greatly improve the annotation of the C. elegans genome. Based on similarity to C. briggsae , we found strong evidence for 1,300 new C. elegans genes. In addition, comparisons of the two genomes will help to understand the evolutionary forces that mold nematode genomes.
TI - The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics
JF - PLoS Biology
DO - 10.1371/journal.pbio.0000045
DA - 2003-11-17
UR - https://www.deepdyve.com/lp/public-library-of-science-plos-journal/the-genome-sequence-of-caenorhabditis-briggsae-a-platform-for-0LBv9Ksbkv
VL - 1
IS - 2
DP - DeepDyve
ER -