January 2007: A new C.briggsae whole-genome shotgun (WGS) assembly available
The cb3 C. briggsae assembly is an update of the cb25 assembly with the help of a genetic map (Hiller et al2007 ) and is available from;
ftp://ftp.sanger.ac.uk/pub/wormbase/cbriggsae/cb3/
WormBase FTP has sequence and annotation for download
Genome Sequencing Center, Washington U. School of Medicine
C. briggsae has now been fully incorporated in to WormBase. Gene names have been transfered from C. elegans where clear orthology can be determined.
Caenorhabditis briggsae is a soil nematode estimated to have diverged from C. elegans approximately 80-100 million years ago, and yet is morphologically almost indistinguishable from it. Areas of sequence encoding proteins are mostly conserved between the two species while most intergenic and intronic sequence are divergent. Areas of similarity between the sequence of the two organisms can suggest coding exons or point to regulatory regions and to RNA genes missed in standard analysis.
Further information can be found in WormBook
| Comparison of C. elegans and C. briggsae Genome Sequences Reveals Extensive Conservation of Chromosome Organization and Synteny. Hillier LW, Miller RD, Baird SE, Chinwalla A, Fulton LA, Koboldt DC, Waterston RH PLoS Biol. 2007;5;e167. PMID: 17608563 DOI: 10.1371/journal.pbio.0050167 |
| The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics. Stein LD, Bao Z, Blasiar D, Blumenthal T, Brent MR, Chen N, Chinwalla A, Clarke L, Clee C, Coghlan A, Coulson A, D'Eustachio P, Fitch DH, Fulton LA, Fulton RE, Griffiths-Jones S, Harris TW, Hillier LW, Kamath R, Kuwabara PE, Mardis ER, Marra MA, Miner TL, Minx P, Mullikin JC, Plumb RW, Rogers J, Schein JE, Sohrmann M, Spieth J, Stajich JE, Wei C, Willey D, Wilson RK, Durbin R, Waterston RH PLoS Biol. 2003;1;E45. PMID: 14624247 DOI: 10.1371/journal.pbio.0000045 |
