Author Report for: Despons LNo contact information in database for Despons L
Louis VL, Despons L, Friedrich A, Martin T, Durrens P, Casaregola S, Neuveglise C, Fairhead C, Marck C and Souciet JL <33 more author(s)> Louis VL, Despons L, Friedrich A, Martin T, Durrens P, Casaregola S, Neuveglise C, Fairhead C, Marck C, Cruz JA, Straub ML, Kugler V, Sacerdot C, Uzunov Z, Thierry A, Weiss S, Bleykasten C, De Montigny J, Jacques N, Jung P, Lemaire M, Mallet S, Morel G, Richard GF, Sarkar A, Savel G, Schacherer J, Seret ML, Talla E, Samson G, Jubin C, Poulain J, Vacherie B, Barbe V, Pelletier E, Sherman DJ, Westhof E, Weissenbach J, Baret PV, Wincker P, Gaillardin C, Dujon B, Souciet JL (- 33) Ref: G3 (Bethesda), 2:299, 2012 : PubMed ESTHER: Louis_2012_G3.(Bethesda)_2_299 PubMedSearch: Louis 2012 G3.(Bethesda) 2 299 PubMedID: 22384408 Gene_locus related to this paper: picso-g8ycc9, picso-g8yet0, picso-g8yb96, picso-g8ym39, erecy-g8jrp5, picso-g8y652 Abstract Polyploidization is an important process in the evolution of eukaryotic genomes, but ensuing molecular mechanisms remain to be clarified. Autopolyploidization or whole-genome duplication events frequently are resolved in resulting lineages by the loss of single genes from most duplicated pairs, causing transient gene dosage imbalance and accelerating speciation through meiotic infertility. Allopolyploidization or formation of interspecies hybrids raises the problem of genetic incompatibility (Bateson-Dobzhansky-Muller effect) and may be resolved by the accumulation of mutational changes in resulting lineages. In this article, we show that an osmotolerant yeast species, Pichia sorbitophila, recently isolated in a concentrated sorbitol solution in industry, illustrates this last situation. Its genome is a mosaic of homologous and homeologous chromosomes, or parts thereof, that corresponds to a recently formed hybrid in the process of evolution. The respective parental contributions to this genome were characterized using existing variations in GC content. The genomic changes that occurred during the short period since hybrid formation were identified (e.g., loss of heterozygosity, unilateral loss of rDNA, reciprocal exchange) and distinguished from those undergone by the two parental genomes after separation from their common ancestor (i.e., NUMT (NUclear sequences of MiTochondrial origin) insertions, gene acquisitions, gene location movements, reciprocal translocation). We found that the physiological characteristics of this new yeast species are determined by specific but unequal contributions of its two parents, one of which could be identified as very closely related to an extant Pichia farinosa strain. Title: Comparative genomics of protoploid Saccharomycetaceae Souciet JL, Dujon B, Gaillardin C, Johnston M, Baret PV, Cliften P, Sherman DJ, Weissenbach J, Westhof E and Talla E <44 more author(s)> Souciet JL, Dujon B, Gaillardin C, Johnston M, Baret PV, Cliften P, Sherman DJ, Weissenbach J, Westhof E, Wincker P, Jubin C, Poulain J, Barbe V, Segurens B, Artiguenave F, Anthouard V, Vacherie B, Val ME, Fulton RS, Minx P, Wilson R, Durrens P, Jean G, Marck C, Martin T, Nikolski M, Rolland T, Seret ML, Casaregola S, Despons L, Fairhead C, Fischer G, Lafontaine I, Leh V, Lemaire M, De Montigny J, Neuveglise C, Thierry A, Blanc-Lenfle I, Bleykasten C, Diffels J, Fritsch E, Frangeul L, Goeffon A, Jauniaux N, Kachouri-Lafond R, Payen C, Potier S, Pribylova L, Ozanne C, Richard GF, Sacerdot C, Straub ML, Talla E (- 44) Ref: Genome Res, 19:1696, 2009 : PubMed ESTHER: Souciet_2009_Genome.Res_19_1696 PubMedSearch: Souciet 2009 Genome.Res 19 1696 PubMedID: 19525356 Gene_locus related to this paper: lactc-c5dci9, lactc-c5ddi5, lactc-c5dew5, lactc-c5dez1, lactc-c5df11, lactc-c5dfh7, lactc-c5dgd1, lactc-c5dif7, lactc-c5din7, lactc-c5dja0, lactc-c5dm95, lactc-c5dn06, lactc-c5dnn9, lactc-c5e2g8, lactc-c5e3n5, lactc-c5e375, zygrc-c5drr0, zygrc-c5dvh0, zygrc-c5dvl2, zygrc-c5dvx0, zygrc-c5dvz8, zygrc-c5dx83, zygrc-c5dxn5, zygrc-c5dxq9, zygrc-c5e0w1, zygrc-c5e1e4, zygrc-c5e1h2, zygro-a0a1q2zt01, 9sach-a0a0p1kuu1, lactc-kex1, zygrc-kex1 Abstract Our knowledge of yeast genomes remains largely dominated by the extensive studies on Saccharomyces cerevisiae and the consequences of its ancestral duplication, leaving the evolution of the entire class of hemiascomycetes only partly explored. We concentrate here on five species of Saccharomycetaceae, a large subdivision of hemiascomycetes, that we call "protoploid" because they diverged from the S. cerevisiae lineage prior to its genome duplication. We determined the complete genome sequences of three of these species: Kluyveromyces (Lachancea) thermotolerans and Saccharomyces (Lachancea) kluyveri (two members of the newly described Lachancea clade), and Zygosaccharomyces rouxii. We included in our comparisons the previously available sequences of Kluyveromyces lactis and Ashbya (Eremothecium) gossypii. Despite their broad evolutionary range and significant individual variations in each lineage, the five protoploid Saccharomycetaceae share a core repertoire of approximately 3300 protein families and a high degree of conserved synteny. Synteny blocks were used to define gene orthology and to infer ancestors. Far from representing minimal genomes without redundancy, the five protoploid yeasts contain numerous copies of paralogous genes, either dispersed or in tandem arrays, that, altogether, constitute a third of each genome. Ancient, conserved paralogs as well as novel, lineage-specific paralogs were identified. Title: Genome evolution in yeasts Dujon B, Sherman D, Fischer G, Durrens P, Casaregola S, Lafontaine I, De Montigny J, Marck C, Neuveglise C and Souciet JL <57 more author(s)> Dujon B, Sherman D, Fischer G, Durrens P, Casaregola S, Lafontaine I, De Montigny J, Marck C, Neuveglise C, Talla E, Goffard N, Frangeul L, Aigle M, Anthouard V, Babour A, Barbe V, Barnay S, Blanchin S, Beckerich JM, Beyne E, Bleykasten C, Boisrame A, Boyer J, Cattolico L, Confanioleri F, de Daruvar A, Despons L, Fabre E, Fairhead C, Ferry-Dumazet H, Groppi A, Hantraye F, Hennequin C, Jauniaux N, Joyet P, Kachouri R, Kerrest A, Koszul R, Lemaire M, Lesur I, Ma L, Muller H, Nicaud JM, Nikolski M, Oztas S, Ozier-Kalogeropoulos O, Pellenz S, Potier S, Richard GF, Straub ML, Suleau A, Swennen D, Tekaia F, Wesolowski-Louvel M, Westhof E, Wirth B, Zeniou-Meyer M, Zivanovic I, Bolotin-Fukuhara M, Thierry A, Bouchier C, Caudron B, Scarpelli C, Gaillardin C, Weissenbach J, Wincker P, Souciet JL (- 57) Ref: Nature, 430:35, 2004 : PubMed ESTHER: Dujon_2004_Nature_430_35 PubMedSearch: Dujon 2004 Nature 430 35 PubMedID: 15229592 Gene_locus related to this paper: canga-apth1, canga-ppme1, canga-q6fik7, canga-q6fiv5, canga-q6fiw8, canga-q6fj11, canga-q6fjh6, canga-q6fjl0, canga-q6fjr8, canga-q6fkj6, canga-q6fkm9, canga-q6fku7, canga-q6fl14, canga-q6flb5, canga-q6fle9, canga-q6flk8, canga-q6fly1, canga-q6fly9, canga-q6fmz4, canga-q6fnx4, canga-q6fp28, canga-q6fpa8, canga-q6fpi6, canga-q6fpv7, canga-q6fpw6, canga-q6fqj3, canga-q6fr97, canga-q6frt7, canga-q6ftm9, canga-q6ftu0, canga-q6ftv9, canga-q6ftz9, canga-q6fuf8, canga-q6fv41, canga-q6fvu3, canga-q6fw36, canga-q6fw94, canga-q6fwk6, canga-q6fwm0, canga-q6fxc7, canga-q6fxd7, debha-apth1, debha-atg15, debha-b5rtk1, debha-b5rub4, debha-b5rue8, debha-b5rue9, debha-bna7, debha-ppme1, debha-q6bgx3, debha-q6bh69, debha-q6bhb8, debha-q6bhc1, debha-q6bhd0, debha-q6bhj7, debha-q6bi97, debha-q6biq7, debha-q6bj53, debha-q6bkd8, debha-q6bks1, debha-q6bky4, debha-q6bm63, debha-q6bmh3, debha-q6bn89, debha-q6bnj6, debha-q6bp08, debha-q6bpb4, debha-q6bpc0, debha-q6bpc6, debha-q6bq10, debha-q6bq11, debha-q6bqd9, debha-q6bqj6, debha-q6br33, debha-q6br93, debha-q6brg1, debha-q6brw7, debha-q6bs23, debha-q6bsc3, debha-q6bsl8, debha-q6bsx6, debha-q6bta5, debha-q6bty5, debha-q6btz0, debha-q6bu73, debha-q6buk9, debha-q6but7, debha-q6bvc4, debha-q6bvg4, debha-q6bvg8, debha-q6bvp4, debha-q6bw82, debha-q6bxr7, debha-q6bxu9, debha-q6bym5, debha-q6byn7, debha-q6bzj8, debha-q6bzk2, debha-q6bzm5, klula-apth1, klula-ppme1, klula-q6cin9, klula-q6ciu6, klula-q6cj47, klula-q6cjc8, klula-q6cjq9, klula-q6cjs1, klula-q6cjv9, klula-q6ckd7, klula-q6ckk4, klula-q6ckx4, klula-q6cl20, klula-q6clm1, klula-q6cly8, klula-q6clz7, klula-q6cm48, klula-q6cm49, klula-q6cmt5, klula-q6cn71, klula-q6cnm1, klula-q6cr74, klula-q6cr90, klula-q6crs0, klula-q6crv8, klula-q6crz9, klula-q6cst8, klula-q6csv8, klula-q6ctp8, klula-q6cu02, klula-q6cu78, klula-q6cu79, klula-q6cuv3, klula-q6cvd3, klula-q6cw70, klula-q6cw92, klula-q6cwu7, klula-q6cx84, klula-q6cxa3, klula-q6cy41, yarli-apth1, yarli-atg15, yarli-BST1B, yarli-lip2, yarli-LIP3, yarli-LIP4, yarli-LIP5, yarli-LIP7, yarli-LIP8, yarli-lipa1, yarli-ppme1, yarli-q6bzp1, yarli-q6bzv7, yarli-q6c1f5, yarli-q6c1f7, yarli-q6c1r3, yarli-q6c2z2, yarli-q6c3h1, yarli-q6c3i6, yarli-q6c3l1, yarli-q6c3u6, yarli-q6c4h8, yarli-q6c5j1, yarli-q6c5m4, yarli-q6c6m4, yarli-q6c6p7, yarli-q6c6v2, yarli-q6c7h3, yarli-q6c7i7, yarli-q6c7j5, yarli-q6c7y6, yarli-q6c8m4, yarli-q6c8q4, yarli-q6c8u4, yarli-q6c8y2, yarli-q6c9r0, yarli-q6c9r1, yarli-q6c9u0, yarli-q6c9v4, yarli-q6c209, yarli-q6c225, yarli-q6c493, yarli-q6c598, yarli-q6c687, yarli-q6c822, yarli-q6cau6, yarli-q6cax2, yarli-q6caz1, yarli-q6cb63, yarli-q6cba7, yarli-q6cbb1, yarli-q6cbe6, yarli-q6cby1, yarli-q6ccr0, yarli-q6cdg1, yarli-q6cdi6, yarli-q6cdv9, yarli-q6ce37, yarli-q6ceg0, yarli-q6cep3, yarli-q6cey5, yarli-q6cf60, yarli-q6cfp3, yarli-q6cfx2, yarli-q6cg13, yarli-q6cg27, yarli-q6cgj3, yarli-q6chb8, yarli-q6ci59, yarli-q6c748, canga-q6fpj0, klula-q6cp11, yarli-q6c4p0, debha-q6btp5, debha-kex1 Abstract Identifying the mechanisms of eukaryotic genome evolution by comparative genomics is often complicated by the multiplicity of events that have taken place throughout the history of individual lineages, leaving only distorted and superimposed traces in the genome of each living organism. The hemiascomycete yeasts, with their compact genomes, similar lifestyle and distinct sexual and physiological properties, provide a unique opportunity to explore such mechanisms. We present here the complete, assembled genome sequences of four yeast species, selected to represent a broad evolutionary range within a single eukaryotic phylum, that after analysis proved to be molecularly as diverse as the entire phylum of chordates. A total of approximately 24,200 novel genes were identified, the translation products of which were classified together with Saccharomyces cerevisiae proteins into about 4,700 families, forming the basis for interspecific comparisons. Analysis of chromosome maps and genome redundancies reveal that the different yeast lineages have evolved through a marked interplay between several distinct molecular mechanisms, including tandem gene repeat formation, segmental duplication, a massive genome duplication and extensive gene loss. | |||||||
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