This database provides information on the green alga Chlamydomonas reinhardtii and related species.
Information on genetic loci, mutant alleles, sequenced genes
Descriptions of strains in the Chlamydomonas Genetics Center collection
Plasmids in the public collection
cDNA, genomic and BAC clones
Links to GenBank for sequenced genes of Chlamydomonas, Volvox,
Hints on searchingThe main database page lists the principal classes in ChlamyDB. You can search for specific words in any class, or leave the search box blank to browse the entire class. Entries are always displayed in alphabetical order.
Wild-card searches are necessary:
Try searching the Allele class for cw. Now try a search for cw*.If you find errors in the database, please let us know. On every retrieval, there's a link at the bottom right to "Click here to send data or comments to the maintainers". Fill out the form with your comments, and we'll make the revision.
The Locus class in this database comprises all mappable entities, including genes, genetically defined loci for which no specific gene has been identified, transposon insertion sites, BAC ends, and molecular polymorphisms. Alleles are variants at a locus, usually but not necessarily corresponding to mutants.
Locus and Allele names in general follow the guidelines proposed in June 1994 by the nomenclature committee headed by Susan Dutcher. These recommendations were posted to the bionet.chlamydomonas newsgroup and have been published by Susan Dutcher in the Trends in Genetics Genetic Nomenclature Guide [Dutcher, S.K. (1995) Genetic nomenclature guide. Chlamydomonas reinhardtii, Trends in Genetics (18-9)]. A revision of this document is currently being prepared for the web.
Genes have been named wherever possible in accordance with the recommendations of the Commission on Plant Gene Nomenclature. Gene names in this database are case-sensitive; this is to permit the convention of beginning organelle gene names with lower-case letters (atpB is a chloroplast gene, AtpC is a nuclear gene). Locus names are also case-sensitive.
All Locus, Allele, Gene, and Strain citations refer to Chlamydomonas reinhardtii unless otherwise specified.
Clones are DNA segments isolated from Chlamydomonas. Probes are clones, restriction fragment length polymorphisms or other variants used as hybridization markers in molecular mapping studies. Most probes have been mapped to specific linkage groups, as indicated. For many of the probe entries, sample data are given to show the polymorphisms between C. reinhardtii and C. smithii or S1D2.
For information on BACs, use the Clone class and search for BAC*
Contigs are consensus sequences derived by assembly of EST sequences; ChlamyDB will (soon) list all the contigs in the latest EST assembly project. For complete sequence information on contigs, blast results, and other information, please see the Genome Project web pages.
To find an address or phone number for a colleague or another stock collection, check the Colleague and Collection classes respectively.
For information on other Chlamydomonas species, see the Organism class. This class also links to the Wild_type class, which gives location and primary reference for specific strains and their accessions in various algal collections.
Phenotypic_class lists the most common mutant phenotypes of C. reinhardtii. Many of these entries also give instructions on how to score mutant colonies.
ChlamyDB is built on the ACEDB software originally developed for Caenorhabditis elegans by Richard Durbin and Jean Thierry-Mieg.
* For more information contact Elizabeth H. Harris at: firstname.lastname@example.org *
Chlamydomonas Genetics Center
DCMB Box 91000 [postal]
B343 Levine Science Research Center [UPS, FedEx, etc.]
Durham NC 27708-1000