Komp C

References (5)

Title : Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789 - Wei_2007_Proc.Natl.Acad.Sci.U.S.A_104_12825
Author(s) : Wei W , McCusker JH , Hyman RW , Jones T , Ning Y , Cao Z , Gu Z , Bruno D , Miranda M , Nguyen M , Wilhelmy J , Komp C , Tamse R , Wang X , Jia P , Luedi P , Oefner PJ , David L , Dietrich FS , Li Y , Davis RW , Steinmetz LM
Ref : Proc Natl Acad Sci U S A , 104 :12825 , 2007
Abstract : We sequenced the genome of Saccharomyces cerevisiae strain YJM789, which was derived from a yeast isolated from the lung of an AIDS patient with pneumonia. The strain is used for studies of fungal infections and quantitative genetics because of its extensive phenotypic differences to the laboratory reference strain, including growth at high temperature and deadly virulence in mouse models. Here we show that the approximately 12-Mb genome of YJM789 contains approximately 60,000 SNPs and approximately 6,000 indels with respect to the reference S288c genome, leading to protein polymorphisms with a few known cases of phenotypic changes. Several ORFs are found to be unique to YJM789, some of which might have been acquired through horizontal transfer. Localized regions of high polymorphism density are scattered over the genome, in some cases spanning multiple ORFs and in others concentrated within single genes. The sequence of YJM789 contains clues to pathogenicity and spurs the development of more powerful approaches to dissecting the genetic basis of complex hereditary traits.
ESTHER : Wei_2007_Proc.Natl.Acad.Sci.U.S.A_104_12825
PubMedSearch : Wei_2007_Proc.Natl.Acad.Sci.U.S.A_104_12825
PubMedID: 17652520
Gene_locus related to this paper: yeast-AIM2 , yeast-BST1 , yeast-cbpy1 , yeast-cld1 , yeast-ATG15 , yeast-dap1 , yeast-dap2 , yeast-dlhh , yeast-ECM18 , yeast-FSH1 , yeast-FSH3 , yeast-ict1 , yeast-kex01 , yeast-LDH1 , yeast-MCFS1 , yeast-MCFS2 , yeast-met2 , yeast-mgll , yeast-pdat , yeast-ppme1 , yeast-ROG1 , yeast-SAY1 , yeast-tgl1 , yeast-tgl2 , yeast-yby9 , yeast-YDL109C , yeast-YDR428C , yeast-YDR444W , yeast-yfd4 , yeast-yg19 , yeast-yj77 , yeast-yjg8 , yeast-YLL012W , yeast-YLR020C , yeast-YLR118c , yeast-ym60 , yeast-ynl5 , yeast-yo059 , yeast-YPR147C , yeast-hda1

Title : The composite genome of the legume symbiont Sinorhizobium meliloti - Galibert_2001_Science_293_668
Author(s) : Galibert F , Finan TM , Long SR , Puhler A , Abola P , Ampe F , Barloy-Hubler F , Barnett MJ , Becker A , Boistard P , Bothe G , Boutry M , Bowser L , Buhrmester J , Cadieu E , Capela D , Chain P , Cowie A , Davis RW , Dreano S , Federspiel NA , Fisher RF , Gloux S , Godrie T , Goffeau A , Golding B , Gouzy J , Gurjal M , Hernandez-Lucas I , Hong A , Huizar L , Hyman RW , Jones T , Kahn D , Kahn ML , Kalman S , Keating DH , Kiss E , Komp C , Lelaure V , Masuy D , Palm C , Peck MC , Pohl TM , Portetelle D , Purnelle B , Ramsperger U , Surzycki R , Thebault P , Vandenbol M , Vorholter FJ , Weidner S , Wells DH , Wong K , Yeh KC , Batut J
Ref : Science , 293 :668 , 2001
Abstract : The scarcity of usable nitrogen frequently limits plant growth. A tight metabolic association with rhizobial bacteria allows legumes to obtain nitrogen compounds by bacterial reduction of dinitrogen (N2) to ammonium (NH4+). We present here the annotated DNA sequence of the alpha-proteobacterium Sinorhizobium meliloti, the symbiont of alfalfa. The tripartite 6.7-megabase (Mb) genome comprises a 3.65-Mb chromosome, and 1.35-Mb pSymA and 1.68-Mb pSymB megaplasmids. Genome sequence analysis indicates that all three elements contribute, in varying degrees, to symbiosis and reveals how this genome may have emerged during evolution. The genome sequence will be useful in understanding the dynamics of interkingdom associations and of life in soil environments.
ESTHER : Galibert_2001_Science_293_668
PubMedSearch : Galibert_2001_Science_293_668
PubMedID: 11474104
Gene_locus related to this paper: rhime-PTRB , rhime-R01391 , rhime-R01762 , rhime-R02260 , rhime-RB0025 , rhime-RB0171

Title : Nucleotide sequence and predicted functions of the entire Sinorhizobium meliloti pSymA megaplasmid - Barnett_2001_Proc.Natl.Acad.Sci.U.S.A_98_9883
Author(s) : Barnett MJ , Fisher RF , Jones T , Komp C , Abola AP , Barloy-Hubler F , Bowser L , Capela D , Galibert F , Gouzy J , Gurjal M , Hong A , Huizar L , Hyman RW , Kahn D , Kahn ML , Kalman S , Keating DH , Palm C , Peck MC , Surzycki R , Wells DH , Yeh KC , Davis RW , Federspiel NA , Long SR
Ref : Proc Natl Acad Sci U S A , 98 :9883 , 2001
Abstract : The symbiotic nitrogen-fixing soil bacterium Sinorhizobium meliloti contains three replicons: pSymA, pSymB, and the chromosome. We report here the complete 1,354,226-nt sequence of pSymA. In addition to a large fraction of the genes known to be specifically involved in symbiosis, pSymA contains genes likely to be involved in nitrogen and carbon metabolism, transport, stress, and resistance responses, and other functions that give S. meliloti an advantage in its specialized niche.
ESTHER : Barnett_2001_Proc.Natl.Acad.Sci.U.S.A_98_9883
PubMedSearch : Barnett_2001_Proc.Natl.Acad.Sci.U.S.A_98_9883
PubMedID: 11481432
Gene_locus related to this paper: rhime-RA0091 , rhime-RA0138 , rhime-RA0313 , rhime-RA0428 , rhime-RA0633 , rhime-RA0724 , rhime-RA0950 , rhime-RA0980 , rhime-RA1008 , rhime-RA1044 , rhime-RA1075 , rhime-RA1107

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 XVI - Bussey_1997_Nature_387_103
Author(s) : Bussey H , Storms RK , Ahmed A , Albermann K , Allen E , Ansorge W , Araujo R , Aparicio A , Barrell B , Badcock K , Benes V , Botstein D , Bowman S , Bruckner M , Carpenter J , Cherry JM , Chung E , Churcher C , Coster F , Davis K , Davis RW , Dietrich FS , Delius H , DiPaolo T , Dubois E , Dusterhoft A , Duncan M , Floeth M , Fortin N , Friesen JD , Fritz C , Goffeau A , Hall J , Hebling U , Heumann K , Hilbert H , Hillier L , Hunicke-Smith S , Hyman R , Johnston M , Kalman S , Kleine K , Komp C , Kurdi O , Lashkari D , Lew H , Lin A , Lin D , Louis EJ , Marathe R , Messenguy F , Mewes HW , Mirtipati S , Moestl D , Muller-Auer S , Namath A , Nentwich U , Oefner P , Pearson D , Petel FX , Pohl TM , Purnelle B , Rajandream MA , Rechmann S , Rieger M , Riles L , Roberts D , Schafer M , Scharfe M , Scherens B , Schramm S , Schroder M , Sdicu AM , Tettelin H , Urrestarazu LA , Ushinsky S , Vierendeels F , Vissers S , Voss H , Walsh SV , Wambutt R , Wang Y , Wedler E , Wedler H , Winnett E , Zhong WW , Zollner A , Vo DH , Hani J
Ref : Nature , 387 :103 , 1997
Abstract : The nucleotide sequence of the 948,061 base pairs of chromosome XVI has been determined, completing the sequence of the yeast genome. Chromosome XVI was the last yeast chromosome identified, and some of the genes mapped early to it, such as GAL4, PEP4 and RAD1 (ref. 2) have played important roles in the development of yeast biology. The architecture of this final chromosome seems to be typical of the large yeast chromosomes, and shows large duplications with other yeast chromosomes. Chromosome XVI contains 487 potential protein-encoding genes, 17 tRNA genes and two small nuclear RNA genes; 27% of the genes have significant similarities to human gene products, and 48% are new and of unknown biological function. Systematic efforts to explore gene function have begun.
ESTHER : Bussey_1997_Nature_387_103
PubMedSearch : Bussey_1997_Nature_387_103
PubMedID: 9169875
Gene_locus related to this paper: yeast-MCFS1 , yeast-YPR147C