The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications

Philippsen, Peter; Kleine, K.; Pöhlmann, Rainer; Düsterhöft, Andreas; K, Hamberg; Jh, Hegemann; Obermaier, B.; La, Urrestarazu; Aert, Rita; Albermann, Kaj; Altmann, R; André, B.; Baladron,; Jp, Ballesta; Am, Bécam; Beinhauer, Jens; Boskovic, Jasminka; Mj, Buitrago; Bussereau, F; Coster, Françoise; Crouzet, Marc; D’Angelo, Michela; F, Dal Pero; A, De Antoni; F, Del Rey; Doignon, François; Domdey, Horst; Dubois, Evelyne; Fiedler, Thomas; Fleig, Ursula; Floeth, Michaela; Fritz, Christian; Gaillardin, Claude; Jm, Garcia-Cantalejo; Nn, Glansdorff; Goffeau, André; Gueldener, U.; Herbert, Christopher J.; Heumann, Klaus G.; Heuss-Neitzel, D; Hilbert, Helmut; K, Hinni; Houssaini, Iraqui; Jacquet, Michel; Jiménez, Ana; Jl, Jonniaux; Karpfinger, L; Lanfranchi, Gerolamo; Lépingle, Andrée; Lévesque, H.; Lyck, Ruth; Maftahi, Mohamed; Mallet, Laurent; Kc, Maurer; Messenguy, Francine; Mewes, Hw.; Mösti, D; Nasr, Fahd; Nicaud, Jean‐Marc; Rk, Niedenthal; Pandolfo, Davide; Pierard, André; Piravandi, E.; Rj, Planta; Tm, Pohl; Purnelle, Bénédicte; Rebischung, Corinne; Remacha, Miguel; Jl, Revuelta; Rinke, Martha L.; Je, Saiz; Sartorello, Francesca; Scherens, Bart; Sen-Gupta, M; Soler-mira, Aida; Jh, Urbanus; Valle, Giorgio; L, Van Dyck; Verhasselt, Peter; Vierendeels, Fabienne; Vissers, Stéphan; Voet, Marleen; Volckaert, Guido; Wach, Achim; Wambutt, R.; Wedler, Holger; Zollner, Alfred; Hani, Jean

doi:10.1038/387s093

Cited by 66 publications

(25 citation statements)

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“…One striking result was the discovery of duplicated groups of genes on chromosome XIV and, more comprehensively, the WGD (Philippsen et al 1997; Wolfe and Shields 1997). The yeast genome sequence was instrumental in getting other genome sequencing efforts under way.…”

Section: Discussionmentioning

confidence: 99%

Chromosome Number Reduction in Eremothecium coryli by Two Telomere-to-Telomere Fusions

Wendland

Walther

2014

Genome Biology and Evolution

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The genus Eremothecium belongs to the Saccharomyces complex of pre-whole-genome duplication (WGD) yeasts and contains both dimorphic and filamentous species. We established the 9.1-Mb draft genome of Eremothecium coryli, which encodes 4,682 genes, 186 tRNA genes, and harbors several Ty3 transposons as well as more than 60 remnants of transposition events (LTRs). The initial de novo assembly resulted in 19 scaffolds, which were assembled based on synteny to other Eremothecium genomes into six chromosomes. Interestingly, we identified eight E. coryli loci that bear centromeres in the closely related species E. cymbalariae. Two of these E. coryli loci, CEN1 and CEN8, however, lack conserved DNA elements and did not convey centromere function in a plasmid stability assay. Correspondingly, using a comparative genomics approach we identified two telomere-to-telomere fusion events in E. coryli as the cause of chromosome number reduction from eight to six chromosomes. Finally, with the genome sequences of E. coryli, E. cymbalariae, and Ashbya gossypii a reconstruction of three complete chromosomes of an Eremothecium ancestor revealed that E. coryli is more syntenic to this ancestor than the other Eremothecium species.

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Section: Discussionmentioning

confidence: 99%

Chromosome Number Reduction in Eremothecium coryli by Two Telomere-to-Telomere Fusions

Wendland

Walther

2014

Genome Biology and Evolution

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“…CND5 and CND15 are located adjacent to each other in Botrytis cinerea and are speculated to be involved in the synthesis of a secondary metabolite involved in virulence (Viaud et al, 2003). TC27406 shares signiWcant similarity with a S. cerevisiae transcription factor (Crz1p) involved in stress response and whose nuclear localization is positively regulated by calcineurin-mediated dephosphorylation (Philippsen et al, 1997). The exact role of this or any of the potential virulence-associated genes described above in F. verticillioides will be determined by further studies.…”

Section: Maize-tissue Induced Estsmentioning

confidence: 96%

Comparative analysis of 87,000 expressed sequence tags from the fumonisin-producing fungus Fusarium verticillioides

Brown

Cheung²,

Proctor

et al. 2005

Fungal Genetics and Biology

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Fusarium verticillioides (teleomorph Gibberella moniliformis) is a pathogen of maize worldwide and produces fumonisins, a family of mycotoxins that have been associated with several animal diseases as well as cancer in humans. In this study, we sought to identify fungal genes that affect fumonisin production and/or the plant-fungal interaction. We generated over 87,000 expressed sequence tags from nine different cDNA libraries that correspond to 11,119 unique sequences and are estimated to represent 80% of the genomic complement of genes. A comparative analysis of the libraries showed that all 15 genes in the fumonisin gene cluster were differentially expressed. In addition, nine candidate fumonisin regulatory genes and a number of genes that may play a role in plant-fungal interaction were identified. Analysis of over 700 FUM gene transcripts from five different libraries provided evidence for transcripts with unspliced introns and spliced introns with alternative 3' splice sites. The abundance of the alternative splice forms and the frequency with which they were found for genes involved in the biosynthesis of a single family of metabolites as well as their differential expression suggest they may have a biological function. Finally, analysis of an EST that aligns to genomic sequence between FUM12 and FUM13 provided evidence for a previously unidentified gene (FUM20) in the FUM gene cluster.

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“…Recently, the complete genome of Saccharomyces cerevisiae was analyzed by several groups (Oliver et al 1992;Dojon et al 1994Dojon et al , 1997Feldman et al 1994;Johnston et al 1994Johnston et al , 1997Bussey et al 1995Bussey et al , 1997Murakami et al 1995;Galibert et al 1996;Goffeau et al 1996;Bowman et al 1997;Churcher et al 1997;Dietrich et al 1997;Jacq et Philippsen et al 1997;Tettelin et al 1997). We used their data from GenomeNet (http://www.genome.ad.jp) and analyzed them with a personal computer.…”

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confidence: 99%

Gene assembly consisting of small units with similar amino acid composition in the Saccharomyces cerevisiae genome

Sorimachi

Okayasu

2003

Mycoscience

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Amino acid compositions of all genes in Saccharomyces cerevisiae were determined using a computer analysis of the complete genome. The amino acid composition of an assembly of several genes or a single gene consisted of 3000-7000 amino acid residues forming a certain pattern of amino acid composition. This rule was independent not only of the gene size, but also of the gene position. Thus, the small units, consisting of 3000-7000 amino acid residues, showed a similar amino acid composition, and they formed all the genes in the complete genome.

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The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications

Cited by 66 publications

References 0 publications

Chromosome Number Reduction in Eremothecium coryli by Two Telomere-to-Telomere Fusions

Chromosome Number Reduction in Eremothecium coryli by Two Telomere-to-Telomere Fusions

Comparative analysis of 87,000 expressed sequence tags from the fumonisin-producing fungus Fusarium verticillioides

Gene assembly consisting of small units with similar amino acid composition in the Saccharomyces cerevisiae genome

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