title: Complete DNA sequence of Kuraishia capsulata illustrates novel genomic features among budding yeasts (Saccharomycotina).
abstract: The numerous yeast genome sequences presently available provide a rich source of information for functional as well as evolutionary genomics but unequally cover the large phylogenetic diversity of extant yeasts. We present here the complete sequence of the nuclear genome of the haploid-type strain of Kuraishia capsulata (CBS1993(T)), a nitrate-assimilating Saccharomycetales of uncertain taxonomy, isolated from tunnels of insect larvae underneath coniferous barks and characterized by its copious production of extracellular polysaccharides. The sequence is composed of seven scaffolds, one per chromosome, totaling 11.4 Mb and containing 6,029 protein-coding genes, ~13.5% of which being interrupted by introns. This GC-rich yeast genome (45.7%) appears phylogenetically related with the few other nitrate-assimilating yeasts sequenced so far, Ogataea polymorpha, O. parapolymorpha, and Dekkera bruxellensis, with which it shares a very reduced number of tRNA genes, a novel tRNA sparing strategy, and a common nitrate assimilation cluster, three specific features to this group of yeasts. Centromeres were recognized in GC-poor troughs of each scaffold. The strain bears MAT alpha genes at a single MAT locus and presents a significant degree of conservation with Saccharomyces cerevisiae genes, suggesting that it can perform sexual cycles in nature, although genes involved in meiosis were not all recognized. The complete absence of conservation of synteny between K. capsulata and any other yeast genome described so far, including the three other nitrate-assimilating species, validates the interest of this species for long-range evolutionary genomic studies among Saccharomycotina yeasts.
authors: Institut Pasteur, Unité de Génétique Moléculaire des Levures, CNRS UMR3525, Univ. P. M. Curie UFR927, Paris, France.
authors: Lucia
authors: L
authors: Morales
authors: Benjamin
authors: B
authors: Noel
authors: Betina
authors: B
authors: Porcel
authors: Marina
authors: M
authors: Marcet-Houben
authors: Marie-Francoise
authors: MF
authors: Hullo
authors: Christine
authors: C
authors: Sacerdot
authors: Fredj
authors: F
authors: Tekaia
authors: Véronique
authors: V
authors: Leh-Louis
authors: Laurence
authors: L
authors: Despons
authors: Varun
authors: V
authors: Khanna
authors: Jean-Marc
authors: JM
authors: Aury
authors: Valérie
authors: V
authors: Barbe
authors: Arnaud
authors: A
authors: Couloux
authors: Karen
authors: K
authors: Labadie
authors: Eric
authors: E
authors: Pelletier
authors: Jean-Luc
authors: JL
authors: Souciet
authors: Teun
authors: T
authors: Boekhout
authors: Toni
authors: T
authors: Gabaldon
authors: Patrick
authors: P
authors: Wincker
authors: Bernard
authors: B
authors: Dujon
mesh_terms: D000818:Animals; D001482:Base Composition / Q000235:genetics; D001483:Base Sequence; D002503:Centromere / Q000235:genetics; D004271:DNA, Fungal / Q000032:analysis*; D022761:Gene Transfer, Horizontal; D016681:Genome, Fungal / Q000235:genetics*; D007313:Insecta / Q000382:microbiology; D007814:Larva / Q000382:microbiology; D008540:Meiosis / Q000235:genetics; D009566:Nitrates / Q000378:metabolism; D010802:Phylogeny; D012343:RNA, Transfer; D022661:RNA, Untranslated / Q000235:genetics; D004718:Saccharomycetales / Q000235:genetics* / Q000302:isolation & purification; D017422:Sequence Analysis, DNA
chemical_list: D004271:DNA, Fungal; D009566:Nitrates; D022661:RNA, Untranslated; D012343:RNA, Transfer
keywords: centromere; introgression; noncoding RNA; phylogeny; synteny