By Per Sunnerhagen, Jure Piskur
Fungal comparative genomics all started in 2000 by means of the genome sequencing of numerous yeast species. when you consider that then, over 30 fungal genome sequences became on hand. This set represents an enormous evolutionary divergence, but additionally comprises heavily comparable genomes. This quantity describes how one can use this set of genomes to track occasions in genome evolution, to extract information regarding hugely conserved and no more conserved series components, and to improve novel equipment in genomics.
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Extra info for Comparative Genomics: Using Fungi as Models (Topics in Current Genetics)
Thus, this includes homologues of Heterochromatin Protein 1 (orthologue of Sz. pombe Swi6), a component of centromeric heterochromatin, and SuVar3-9 (orthologue of Sz. pombe Clr4), a histone 3 Lys9 methyl transferase. It has been shown that loss of proteins required for establishment of RNAi results in loss of silencing at centromeres, aberrant RNAs derived from centromeric repeats, and loss of cohesion from centromeres (Volpe et al. 2002; Hall et al. 2003). In accordance with this, the ribonuclease Dicer and RNA-mediated RNA polymerase, both required for RNAi, are absent in all hemiascomycetes, but are generally found in all other fungi.
One impact of the D1/D2 database has been to permit detection of a large number of new species causing a near doubling of known species since publication of the most recent edition (4th) of The Yeasts, A Taxonomic Study (Kurtzman and Fell 1998). Another use is that the non-taxonomist can now quickly and accurately identify most known species, as well as recognize new species, by sequencing circa 600 nucleotides and doing a BLAST Search in GenBank. The focus of our discussion on species identification from gene sequences has been on rDNA.
Science 304:304-307 Dong A, Yoder JA, Zhang X, Zhou L, Bestor TH, Cheng X (2001) Structure of human DNMT2, an enigmatic DNA methyltransferase homolog that displays denaturantresistant binding to DNA. Nucleic Acids Res 29:439-448 Douzery EJ, Snell EA, Bapteste E, Delsuc F, Philippe H (2004) The timing of eukaryotic evolution: does a relaxed molecular clock reconcile proteins and fossils? Proc Natl Acad Sci USA 101:15386-15391 Dujon B, Albermann K, Aldea M, Alexandraki D, Ansorge W, Arino J, Benes V, Bohn C, Bolotin-Fukuhara M, Bordonné R, Boyer J, Camasses A, Casamayor A, Casas C, Chéret G, Cziepluch C, Daignan-Fornier B, Dang DV, de Haan M, Delius H, Durand P, Fairhead C, Feldmann H, Gaillon L, Galisson F, Gamo FJ, Gancedo C, Goffeau A, Goulding SE, Grivell LA, Habbig B, Hand NJ, Hani J, Hattenhorst U, Hebling U, Hernando Y, Herrero E, Heumann K, Hiesel R, Hilger F, Hofmann B, Hollenberg CP, Hughes B, Jauniaux JC, Kalogeropoulos A, Katsoulou C, Kordes E, Lafuente MJ, Landt O, Louis EJ, Maarse AC, Madania A, Mannhaupt G, Marck C, Martin RP, Mewes HW, Michaux G, Paces V, Parle-McDermott AG, Pearson BM, Perrin A, Pettersson B, Poch O, Pohl TM, Poirey R, Portetelle D, Pujol A, Purnelle B, Ramezani Rad M, Rechmann S, Schwager C, Schweizer M, Sor F, Sterky F, Tarassov IA, Teodoru C, Tettelin H, Thierry A, Tobiasch E, Tzermia M, Uhlen M, Unseld M, Valens M, Vandenbol M, Vetter I, Vicek C, Voet M, Volckaert G, Voss H, Wambutt R, Wedler H, Wiemann S, Winsor B, Wolfe KH, Zollner A, Zumstein E, Kleine K (1997) The nucleotide sequence of Saccharomyces cerevisiae chromosome XV.