ࡱ> =?< Tbjbjв 26к_к_9rr8P,|<h   XZZZZZZ$Y ~-     ~T    X  X   `;R  D0 / /  / $        ~~        /         rX : Numbers of putatively functional full-length CYP genes in 54 whole eukaryotic genomes August 9, 2004 D. Nelson Vertebrates (deuterostomes) Homo sapiens (human) 57 Apr. 2003 Pan troglodytes (chimp) ? (probably 57 or 58) Mus musculus (mouse) 102 Feb. 2003 build 30 Rattus norvegicus (rat) ? Canis familiaris (dog) 54 Sep. 2003 Bos taurus (cow) at least 53 Gallus gallus (chicken) at least 41 Takifugu rubripes (pufferfish) 54 Aug. 2002 v.3.0 Tetraodon nigroviridis (freshwater puffer) ? Danio rerio (zebrafish) at least 81 Urochordates (deuterostomes) Ciona intestinalis (sea squirt) 80 Dec. 2002 Ciona savignyi (sea squirt) 97 Apr. 2003 release 1 Echinoderms (deuterostomes) Strongylocentrotus purpuratus (purple sea urchin) ? Genome size = 870Mb, based on haploid genome of 0.89pg X 0.978 pg/Gb White paper states genome size is about 800Mb. At Caltech: Database: purpuratus-complete Posted date: June 11, 2004 Number of letters in database: 67,056,103 about 8% Number of sequences in database: 89,094 Database: BAC-end sequence tag connectors (STCs) Number of letters in database: 46,412,324 about 5% of the genome Number of sequences in database: 76,020 Database: purpuratus-pmc-ests (ESTs of primary mesenchyme cells) 10,206 sequences; 7,908,988 total letters at Baylor: (BLASTN only) Posted date: Sep 25, 2003 Spurpuratus/genome/Spur20030922-genome 90,680 sequences; 269,576,112 total letters, about 30% of genome at NCBI: over 8.1 million traces in shotgun and WGS (at about 500bp/read) This may be about 4Gb or about 4-5X coverage Insects (protostomes) Drosophila melanogaster (fruit fly) 84 Mar. 2000 Drosophila pseudoobscura (a second fly) 79 Drosophila simulans http://www.genome.wustl.edu/blast/client.pl # of letters in database: 155,439,225 # of sequences in database: 98,443 Drosophila yakuba http://www.genome.wustl.edu/blast/client.pl # of letters in database: 169,400,961 # of sequences in database: 23,959 Anopheles gambiae (mosquito) 105 Oct. 2002 Bombyx mori (silkworm) ~79 Apis mellifera (honeybee) ~60 Nematodes (protostomes) Caenorhabditis elegans (nematode) 74 Dec. 1998 Caenorhabditis briggsae (a second nematode) ? Mycetozoa Dictyostelium discoideum (slime mold) 42 Apr. 2003 Plants Arabidopsis thaliana (thale cress) 249 Dec. 2000 Oryza sativa (rice) 323 Apr. 2002 Chlamydomonas reinhardtii (green algae) at least 33 Cyanidioschyzon merolae (red algae) 5 Fungi Neurospora crassa (bread mold) 38 Apr. 2003 Saccharomyces cerevisiae (bakers yeast) 3 Oct. 1996 Schizosaccharomyces pombe (fission yeast) 2 Feb. 2002 Fusarium graminearum (plant pathogen, fungi) 110 Magnaporthe grisea (rice blast fungus) 120 Aspergillus nidulans (plant pathogen, fungi) 111 Aspergillus fumigatus (filamentous fungi) ? Candida albicans ? http://sequence-www.stanford.edu/group/candida/index.html Coprinus cinereus 10X coverage http://www.broad.mit.edu/annotation/fungi/coprinus_cinereus/whatsnew.html Ustilago maydis 10X coverage http://www.broad.mit.edu/annotation/fungi/ustilago_maydis/whatsnew.html Cryptococcus neoformans 11X coverage 24Mb http://www.broad.mit.edu/annotation/fungi/cryptococcus_neoformans/index.html Encephalitozoon cuniculi 0 Botrytis cinerea = Botryotinia fuckeliana (fungi) 5X ? sequenced at Syngenta (private), cDNA project at Genoscope Natalie L. Catlett, Olen C. Yoder, and B. Gillian Turgeon* Whole-Genome Analysis of Two-Component Signal Transduction Genes in Fungal Pathogens Eukaryotic Cell, December 2003, p. 1151-1161, Vol. 2, No. 6 Torrey Mesa Research Institute/Syngenta Research and Technology, San Diego, California 92121 Gibberella moniliformis = Fusarium verticillioides 5X ? sequenced at Syngenta (private) Natalie L. Catlett, Olen C. Yoder, and B. Gillian Turgeon* Whole-Genome Analysis of Two-Component Signal Transduction Genes in Fungal Pathogens Eukaryotic Cell, December 2003, p. 1151-1161, Vol. 2, No. 6 Torrey Mesa Research Institute/Syngenta Research and Technology, San Diego, California 92121 Cochliobolus heterostrophus = Bipolaris maydis 5X ? sequenced at Syngenta (private) Natalie L. Catlett, Olen C. Yoder, and B. Gillian Turgeon* Whole-Genome Analysis of Two-Component Signal Transduction Genes in Fungal Pathogens Eukaryotic Cell, December 2003, p. 1151-1161, Vol. 2, No. 6 Torrey Mesa Research Institute/Syngenta Research and Technology, San Diego, California 92121 Alveolates/Ciliates (free living) Tetrahymena thermophila (ciliate) 48 Paramecium tetrauralia (ciliate) 22 Alveolates/Apicomplexan parasites Plasmodium falciparum (malaria) 0 Stramenopiles, heterokonts, Chromista Phytophthora ramorum (Sudden Oak Death) 24 Phytophthora sojae (stramenopile) 29 Thalassiosira pseudonana (centric marine diatom) 10 Euglenozoans Trypanosoma cruzi (Chagas disease, euglenozoan) 3 Trypanosoma brucei (African sleeping sickness) 2 Trypanosoma vivax (euglenozoan) 2 Trypanosoma congolense (euglenozoan) 2 Leishmania major (Leishmaniasis organism, euglenozoan) 4 Leishmania infantum (euglenozoan) 4 Parabasala, Archaezoa Giardia lamblia (hiker's diarrhea) 0     -0UVno  # . / @ X Y c y z    * + G H Z y z   F G u v   K L ! 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