Dujon B

References (10)

Title : Pichia sorbitophila, an Interspecies Yeast Hybrid, Reveals Early Steps of Genome Resolution After Polyploidization - Louis_2012_G3.(Bethesda)_2_299
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
Ref : G3 (Bethesda) , 2 :299 , 2012
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.
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

Title : Comparative genomics of protoploid Saccharomycetaceae - Souciet_2009_Genome.Res_19_1696
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
Ref : Genome Res , 19 :1696 , 2009
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.
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

Title : Genome evolution in yeasts - Dujon_2004_Nature_430_35
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
Ref : Nature , 430 :35 , 2004
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.
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

Title : The nucleotide sequence of Saccharomyces cerevisiae chromosome IV - Jacq_1997_Nature_387_75
Author(s) : Jacq C , Alt-Morbe J , Andre B , Arnold W , Bahr A , Ballesta JP , Bargues M , Baron L , Becker A , Biteau N , Blocker H , Blugeon C , Boskovic J , Brandt P , Bruckner M , Buitrago MJ , Coster F , Delaveau T , del Rey F , Dujon B , Eide LG , Garcia-Cantalejo JM , Goffeau A , Gomez-Peris AC , Granotier C , Hanemann V , Hankeln T , Hoheisel JD , Jager W , Jimenez A , Jonniaux JL , Kramer C , Kuster H , Laamanen P , Legros Y , Louis E , Muller-Rieker S , Monnet A , Moro M , Muller-Auer S , Nussbaumer B , Paricio N , Paulin L , Perea J , Perez-Alonso M , Perez-Ortin JE , Pohl TM , Prydz H , Purnelle B , Rasmussen SW , Remacha M , Revuelta JL , Rieger M , Salom D , Saluz HP , Saiz JE , Saren AM , Schafer M , Scharfe M , Schmidt ER , Schneider C , Scholler P , Schwarz S , Soler-Mira A , Urrestarazu LA , Verhasselt P , Vissers S , Voet M , Volckaert G , Wagner G , Wambutt R , Wedler E , Wedler H , Wolfl S , Harris DE , Bowman S , Brown D , Churcher CM , Connor R , Dedman K , Gentles S , Hamlin N , Hunt S , Jones L , McDonald S , Murphy L , Niblett D , Odell C , Oliver K , Rajandream MA , Richards C , Shore L , Walsh SV , Barrell BG , Dietrich FS , Mulligan J , Allen E , Araujo R , Aviles E , Berno A , Carpenter J , Chen E , Cherry JM , Chung E , Duncan M , Hunicke-Smith S , Hyman R , Komp C , Lashkari D , Lew H , Lin D , Mosedale D , Nakahara K , Namath A , Oefner P , Oh C , Petel FX , Roberts D , Schramm S , Schroeder M , Shogren T , Shroff N , Winant A , Yelton M , Botstein D , Davis RW , Johnston M , Hillier L , Riles L , Albermann K , Hani J , Heumann K , Kleine K , Mewes HW , Zollner A , Zaccaria P
Ref : Nature , 387 :75 , 1997
Abstract : The complete DNA sequence of the yeast Saccharomyces cerevisiae chromosome IV has been determined. Apart from chromosome XII, which contains the 1-2 Mb rDNA cluster, chromosome IV is the longest S. cerevisiae chromosome. It was split into three parts, which were sequenced by a consortium from the European Community, the Sanger Centre, and groups from St Louis and Stanford in the United States. The sequence of 1,531,974 base pairs contains 796 predicted or known genes, 318 (39.9%) of which have been previously identified. Of the 478 new genes, 225 (28.3%) are homologous to previously identified genes and 253 (32%) have unknown functions or correspond to spurious open reading frames (ORFs). On average there is one gene approximately every two kilobases. Superimposed on alternating regional variations in G+C composition, there is a large central domain with a lower G+C content that contains all the yeast transposon (Ty) elements and most of the tRNA genes. Chromosome IV shares with chromosomes II, V, XII, XIII and XV some long clustered duplications which partly explain its origin.
ESTHER : Jacq_1997_Nature_387_75
PubMedSearch : Jacq_1997_Nature_387_75
PubMedID: 9169867
Gene_locus related to this paper: yeast-dlhh , yeast-ECM18 , yeast-YDL109C , yeast-YDR428C , yeast-YDR444W

Title : The nucleotide sequence of Saccharomyces cerevisiae chromosome XV - Dujon_1997_Nature_387_98
Author(s) : Dujon B , Albermann K , Aldea M , Alexandraki D , Ansorge W , Arino J , Benes V , Bohn C , Bolotin-Fukuhara M , Bordonne R , Boyer J , Camasses A , Casamayor A , Casas C , Cheret 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 , Vlcek C , Voet M , Volckaert G , Voss H , Wambutt R , Wedler H , Wiemann S , Winsor B , Wolfe KH , Zollner A , Zumstein E , Kleine K
Ref : Nature , 387 :98 , 1997
Abstract : Chromosome XV was one of the last two chromosomes of Saccharomyces cerevisiae to be discovered. It is the third-largest yeast chromosome after chromosomes XII and IV, and is very similar in size to chromosome VII. It alone represents 9% of the yeast genome (8% if ribosomal DNA is included). When systematic sequencing of chromosome XV was started, 93 genes or markers were identified, and most of them were mapped. However, very little else was known about chromosome XV which, in contrast to shorter chromosomes, had not been the object of comprehensive genetic or molecular analysis. It was therefore decided to start sequencing chromosome XV only in the third phase of the European Yeast Genome Sequencing Programme, after experience was gained on chromosomes III, XI and II. The sequence of chromosome XV has been determined from a set of partly overlapping cosmid clones derived from a unique yeast strain, and physically mapped at 3.3-kilobase resolution before sequencing. As well as numerous new open reading frames (ORFs) and genes encoding tRNA or small RNA molecules, the sequence of 1,091,283 base pairs confirms the high proportion of orphan genes and reveals a number of ancestral and successive duplications with other yeast chromosomes.
ESTHER : Dujon_1997_Nature_387_98
PubMedSearch : Dujon_1997_Nature_387_98
PubMedID: 9169874
Gene_locus related to this paper: yeast-FSH3 , yeast-yo059

Title : The nucleotide sequence of Saccharomyces cerevisiae chromosome VII - Tettelin_1997_Nature_387_81
Author(s) : Tettelin H , Agostoni Carbone ML , Albermann K , Albers M , Arroyo J , Backes U , Barreiros T , Bertani I , Bjourson AJ , Bruckner M , Bruschi CV , Carignani G , Castagnoli L , Cerdan E , Clemente ML , Coblenz A , Coglievina M , Coissac E , Defoor E , Del Bino S , Delius H , Delneri D , de Wergifosse P , Dujon B , Kleine K , et al.
Ref : Nature , 387 :81 , 1997
Abstract : The complete nucleotide sequence of Saccharomyces cerevisiae chromosome VII has 572 predicted open reading frames (ORFs), of which 341 are new. No correlation was found between G+C content and gene density along the chromosome, and their variations are random. Of the ORFs, 17% show high similarity to human proteins. Almost half of the ORFs could be classified in functional categories, and there is a slight increase in the number of transcription (7.0%) and translation (5.2%) factors when compared with the complete S. cerevisiae genome. Accurate verification procedures demonstrate that there are less than two errors per 10,000 base pairs in the published sequence.
ESTHER : Tettelin_1997_Nature_387_81
PubMedSearch : Tettelin_1997_Nature_387_81
PubMedID: 9169869
Gene_locus related to this paper: yeast-ROG1 , yeast-SAY1

Title : Life with 6000 genes - Goffeau_1996_Science_274_563
Author(s) : Goffeau A , Barrell BG , Bussey H , Davis RW , Dujon B , Feldmann H , Galibert F , Hoheisel JD , Jacq C , Johnston M , Louis EJ , Mewes HW , Murakami Y , Philippsen P , Tettelin H , Oliver SG
Ref : Science , 274 :546 , 1996
Abstract : The genome of the yeast Saccharomyces cerevisiae has been completely sequenced through a worldwide collaboration. The sequence of 12,068 kilobases defines 5885 potential protein-encoding genes, approximately 140 genes specifying ribosomal RNA, 40 genes for small nuclear RNA molecules, and 275 transfer RNA genes. In addition, the complete sequence provides information about the higher order organization of yeast's 16 chromosomes and allows some insight into their evolutionary history. The genome shows a considerable amount of apparent genetic redundancy, and one of the major problems to be tackled during the next stage of the yeast genome project is to elucidate the biological functions of all of these genes.
ESTHER : Goffeau_1996_Science_274_563
PubMedSearch : Goffeau_1996_Science_274_563
PubMedID: 8849441
Gene_locus related to this paper: yeast-ATG15 , yeast-SAY1

Title : Sequence and analysis of a 33 kb fragment from the right arm of chromosome XV of the yeast Saccharomyces cerevisiae - Galisson_1996_Yeast_12_877
Author(s) : Galisson F , Dujon B
Ref : Yeast , 12 :877 , 1996
Abstract : We have determined the nucleotide sequence of a cosmid (pEOA423) from chromosome XV of Saccharomyces cerevisiae. Analysis of the 33,173 bp sequence reveals the presence of 20 putative open reading frames (ORFs). Five of them correspond to previously known genes (MGM1, STE4, CDC44, STE13, RPB8). The previously published nucleotide sequences are in perfect agreement with our sequence except for STE4 and MGM1. In the latter case, 59 amino acids were truncated from the published protein at its N-terminal end due to a frameshift. The putative translation products of six other ORFs exhibit significant homology with protein sequences in public databases: O50 03 and O50 17 products are homologs of the ANC1 and MIP1 proteins of S. cerevisiae, respectively; O50 05 product is similar to that of a protein of unknown function from Myxococcus xanthus; O50 12 product is probably a new ATP/ADP carrier; O50 13 product shows homology with group II tRNA synthetases; and the O50 16 product exhibits strong similarity with the N-terminal domain of the NifU proteins from several prokaryotes. The remaining nine ORFs show no significant similarity. Among these, two contiguous ORFs (O50 19 and O50 20) are very similar to each other, suggesting an ancient tandem duplication.
ESTHER : Galisson_1996_Yeast_12_877
PubMedSearch : Galisson_1996_Yeast_12_877
PubMedID: 8840505
Gene_locus related to this paper: yeast-dap1

Title : Complete DNA sequence of yeast chromosome II - Feldmann_1994_EMBO.J_13_5795
Author(s) : Feldmann H , Aigle M , Aljinovic G , Andre B , Baclet MC , Barthe C , Baur A , Becam AM , Biteau N , Boles E , Brandt T , Brendel M , Bruckner M , Bussereau F , Christiansen C , Contreras R , Crouzet M , Cziepluch C , Demolis N , Delaveau T , Doignon F , Domdey H , Dusterhus S , Dubois E , Dujon B , El Bakkoury M , Entian KD , Feurmann M , Fiers W , Fobo GM , Fritz C , Gassenhuber H , Glandsdorff N , Goffeau A , Grivell LA , de Haan M , Hein C , Herbert CJ , Hollenberg CP , Holmstrom K , Jacq C , Jacquet M , Jauniaux JC , Jonniaux JL , Kallesoe T , Kiesau P , Kirchrath L , Kotter P , Korol S , Liebl S , Logghe M , Lohan AJ , Louis EJ , Li ZY , Maat MJ , Mallet L , Mannhaupt G , Messenguy F , Miosga T , Molemans F , Muller S , Nasr F , Obermaier B , Perea J , Pierard A , Piravandi E , Pohl FM , Pohl TM , Potier S , Proft M , Purnelle B , Ramezani Rad M , Rieger M , Rose M , Schaaff-Gerstenschlager I , Scherens B , Schwarzlose C , Skala J , Slonimski PP , Smits PH , Souciet JL , Steensma HY , Stucka R , Urrestarazu A , van der Aart QJ , van Dyck L , Vassarotti A , Vetter I , Vierendeels F , Vissers S , Wagner G , de Wergifosse P , Wolfe KH , Zagulski M , Zimmermann FK , Mewes HW , Kleine K , Dsterhus S , Mller S , Pirard A , Schaaff-Gerstenschlger I
Ref : EMBO Journal , 13 :5795 , 1994
Abstract : In the framework of the EU genome-sequencing programmes, the complete DNA sequence of the yeast Saccharomyces cerevisiae chromosome II (807 188 bp) has been determined. At present, this is the largest eukaryotic chromosome entirely sequenced. A total of 410 open reading frames (ORFs) were identified, covering 72% of the sequence. Similarity searches revealed that 124 ORFs (30%) correspond to genes of known function, 51 ORFs (12.5%) appear to be homologues of genes whose functions are known, 52 others (12.5%) have homologues the functions of which are not well defined and another 33 of the novel putative genes (8%) exhibit a degree of similarity which is insufficient to confidently assign function. Of the genes on chromosome II, 37-45% are thus of unpredicted function. Among the novel putative genes, we found several that are related to genes that perform differentiated functions in multicellular organisms of are involved in malignancy. In addition to a compact arrangement of potential protein coding sequences, the analysis of this chromosome confirmed general chromosome patterns but also revealed particular novel features of chromosomal organization. Alternating regional variations in average base composition correlate with variations in local gene density along chromosome II, as observed in chromosomes XI and III. We propose that functional ARS elements are preferably located in the AT-rich regions that have a spacing of approximately 110 kb. Similarly, the 13 tRNA genes and the three Ty elements of chromosome II are found in AT-rich regions. In chromosome II, the distribution of coding sequences between the two strands is biased, with a ratio of 1.3:1. An interesting aspect regarding the evolution of the eukaryotic genome is the finding that chromosome II has a high degree of internal genetic redundancy, amounting to 16% of the coding capacity.
ESTHER : Feldmann_1994_EMBO.J_13_5795
PubMedSearch : Feldmann_1994_EMBO.J_13_5795
PubMedID: 7813418
Gene_locus related to this paper: yeast-LDH1 , yeast-MCFS2 , yeast-yby9

Title : Complete DNA sequence of yeast chromosome XI - Dujon_1994_Nature_369_371
Author(s) : Dujon B , Alexandraki D , Andre B , Ansorge W , Baladron V , Ballesta JP , Banrevi A , Bolle PA , Bolotin-Fukuhara M , Bossier P , Bou G , Boyer J , Bultrago MJ , Cheret G , Colleaux L , Dalgnan-Fornler B , del Rey F , Dlon C , Domdey H , Dsterhoft A , Dsterhus S , Entlan KD , Erfle H , Esteban PF , Feldmann H , Fernandes L , Robo GM , Fritz C , Fukuhara H , Gabel C , Gaillon L , Carcia-Cantalejo JM , Garcia-Ramirez JJ , Gent NE , Ghazvini M , Goffeau A , Gonzalez A , Grothues D , Guerreiro P , Hegemann J , Hewitt N , Hilger F , Hollenberg CP , Horaitis O , Indge KJ , Jacquier A , James CM , Jauniaux C , Jimenez A , Keuchel H , Kirchrath L , Kleine K , Ktter P , Legrain P , Liebl S , Louis EJ , Maia e Silva A , Marck C , Monnier AL , Mostl D , Mller S , Obermaier B , Oliver SG , Pallier C , Pascolo S , Pfeiffer F , Philippsen P , Planta RJ , Pohl FM , Pohl TM , Pohlmann R , Portetelle D , Purnelle B , Puzos V , Ramezani Rad M , Rasmussen SW , Remacha M , Revuelta JL , Richard GF , Rieger M , Rodrigues-Pousada C , Rose M , Rupp T , Santos MA , Schwager C , Sensen C , Skala J , Soares H , Sor F , Stegemann J , Tettelin H , Thierry A , Tzermia M , Urrestarazu LA , van Dyck L , Van Vliet-Reedijk JC , Valens M , Vandenbo M , Vilela C , Vissers S , von Wettstein D , Voss H , Wiemann S , Xu G , Zimmermann J , Haasemann M , Becker I , Mewes HW
Ref : Nature , 369 :371 , 1994
Abstract : The complete DNA sequence of the yeast Saccharomyces cerevisiae chromosome XI has been determined. In addition to a compact arrangement of potential protein coding sequences, the 666,448-base-pair sequence has revealed general chromosome patterns; in particular, alternating regional variations in average base composition correlate with variations in local gene density along the chromosome. Significant discrepancies with the previously published genetic map demonstrate the need for using independent physical mapping criteria.
ESTHER : Dujon_1994_Nature_369_371
PubMedSearch : Dujon_1994_Nature_369_371
PubMedID: 8196765
Gene_locus related to this paper: yeast-mgll