Author Report for: Albermann KNo contact information in database for Albermann K
Andersen MR, Salazar MP, Schaap PJ, van de Vondervoort PJ, Culley D, Thykaer J, Frisvad JC, Nielsen KF, Albang R and Baker SE <37 more author(s)> Andersen MR, Salazar MP, Schaap PJ, van de Vondervoort PJ, Culley D, Thykaer J, Frisvad JC, Nielsen KF, Albang R, Albermann K, Berka RM, Braus GH, Braus-Stromeyer SA, Corrochano LM, Dai Z, van Dijck PW, Hofmann G, Lasure LL, Magnuson JK, Menke H, Meijer M, Meijer SL, Nielsen JB, Nielsen ML, van Ooyen AJ, Pel HJ, Poulsen L, Samson RA, Stam H, Tsang A, van den Brink JM, Atkins A, Aerts A, Shapiro H, Pangilinan J, Salamov A, Lou Y, Lindquist E, Lucas S, Grimwood J, Grigoriev IV, Kubicek CP, Martinez D, van Peij NN, Roubos JA, Nielsen J, Baker SE (- 37) Ref: Genome Res, 21:885, 2011 : PubMed ESTHER: Andersen_2011_Genome.Res_21_885 PubMedSearch: Andersen 2011 Genome.Res 21 885 PubMedID: 21543515 Gene_locus related to this paper: aspna-g3y4g9, aspna-g3yal2, aspna-g3ycq2, aspnc-a2qbh3, aspnc-a2qe77, aspnc-a2qf54, aspnc-a2qfe9, aspnc-a2qg33, aspnc-a2qh76, aspnc-a2qhe2, aspnc-a2qi32, aspnc-a2ql89, aspnc-a2ql90, aspnc-a2qla0, aspnc-a2qmk5, aspnc-a2qn56, aspnc-a2qs22, aspnc-a2qti9, aspnc-a2qtz0, aspnc-a2quc1, aspnc-a2qx92, aspnc-a2qyf0, aspnc-a2qys7, aspnc-a2qz72, aspnc-a2qzn6, aspnc-a2qzr0, aspnc-a2qzx0, aspnc-a2qzx4, aspnc-a2r0p4, aspnc-a2r1r5, aspnc-a2r2i5, aspnc-a2r5r4, aspnc-a2r6h5, aspnc-a2r8r3, aspnc-a2r8z3, aspnc-a2r273, aspnc-a2r496, aspnc-a2r502, aspnc-a5abe5, aspnc-a5abe8, aspnc-a5abh9, aspnc-a5abk1, aspnc-axe1, aspnc-cuti1, aspnc-cuti2, aspng-a2qs46, aspng-a2qv27, aspni-EstA, aspkw-g7y0v7, aspnc-a2qt47, aspnc-a2qt66, aspna-g3xpq9, aspnc-a2qqa1, aspna-g3xsl3, aspna-g3y5a6, aspna-g3xpw9, aspaw-a0a401kpx5, aspnc-a2qw57, aspaw-a0a401kcz4, aspna-alba, aspna-azac Abstract The filamentous fungus Aspergillus niger exhibits great diversity in its phenotype. It is found globally, both as marine and terrestrial strains, produces both organic acids and hydrolytic enzymes in high amounts, and some isolates exhibit pathogenicity. Although the genome of an industrial enzyme-producing A. niger strain (CBS 513.88) has already been sequenced, the versatility and diversity of this species compel additional exploration. We therefore undertook whole-genome sequencing of the acidogenic A. niger wild-type strain (ATCC 1015) and produced a genome sequence of very high quality. Only 15 gaps are present in the sequence, and half the telomeric regions have been elucidated. Moreover, sequence information from ATCC 1015 was used to improve the genome sequence of CBS 513.88. Chromosome-level comparisons uncovered several genome rearrangements, deletions, a clear case of strain-specific horizontal gene transfer, and identification of 0.8 Mb of novel sequence. Single nucleotide polymorphisms per kilobase (SNPs/kb) between the two strains were found to be exceptionally high (average: 7.8, maximum: 160 SNPs/kb). High variation within the species was confirmed with exo-metabolite profiling and phylogenetics. Detailed lists of alleles were generated, and genotypic differences were observed to accumulate in metabolic pathways essential to acid production and protein synthesis. A transcriptome analysis supported up-regulation of genes associated with biosynthesis of amino acids that are abundant in glucoamylase A, tRNA-synthases, and protein transporters in the protein producing CBS 513.88 strain. Our results and data sets from this integrative systems biology analysis resulted in a snapshot of fungal evolution and will support further optimization of cell factories based on filamentous fungi. Title: Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum van den Berg MA, Albang R, Albermann K, Badger JH, Daran JM, Driessen AJ, Garcia-Estrada C, Fedorova ND, Harris DM and Bovenberg RA <15 more author(s)> van den Berg MA, Albang R, Albermann K, Badger JH, Daran JM, Driessen AJ, Garcia-Estrada C, Fedorova ND, Harris DM, Heijne WH, Joardar V, Kiel JA, Kovalchuk A, Martin JF, Nierman WC, Nijland JG, Pronk JT, Roubos JA, van der Klei IJ, van Peij NN, Veenhuis M, von Dohren H, Wagner C, Wortman J, Bovenberg RA (- 15) Ref: Nat Biotechnol, 26:1161, 2008 : PubMed ESTHER: van den Berg_2008_Nat.Biotechnol_26_1161 PubMedSearch: van den Berg 2008 Nat.Biotechnol 26 1161 PubMedID: 18820685 Gene_locus related to this paper: pench-b6gw01, pench-b6gwp9, pench-b6gzt9, pench-b6h2r5, pench-b6h3c6, pench-b6h3s3, pench-b6h6w7, pench-b6h7m0, pench-b6h043, pench-b6h270, pench-b6h303, pench-b6hcx0, pench-b6hfx1, pench-b6hjt6, pench-b6hm64, pench-b6hmg2, pench-b6hnf2, pench-b6hnf7, pench-b6hph0, pench-b6huc9, penrw-b6hdc6, pench-q3v6c9, pencw-atg15, pencw-b6gwt5, pencw-b6gx34, pencw-b6gzd8, pencw-b6gzp7, pencw-b6h2f4, pencw-b6h2h0, pencw-b6h2n4, pencw-b6h3u7, pencw-b6h4n3, pencw-b6h4s6, pencw-b6h5k2, pencw-b6h6t6, pencw-b6h7f0, pencw-b6h7r1, pencw-b6h8a0, pencw-b6h8i1, pencw-b6h828, pencw-b6ha41, pencw-b6hat0, pencw-b6hb79, pencw-b6hcq8, pencw-b6hfx7, pencw-b6hgb0, pencw-b6hhg8, pencw-b6hjj1, pencw-b6hl02, pencw-b6hmd9, pencw-b6hmh5, pencw-b6hmh7, pencw-b6hpn2, pencw-b6hpz6, pencw-b6hqu4, pencw-b6hs49, pencw-b6hun6, pencw-b6hv09, pencw-cuti1, pencw-cuti2, pencw-dapb, pencw-b6had0, pencw-b6h497, pencw-b6gw76, pencw-b6hs05, pencw-b6h0h6, penna-a0a1v6yep8, penrw-b6huu8, penrw-kex1, penrw-cbpya, penrw-adrd Abstract Industrial penicillin production with the filamentous fungus Penicillium chrysogenum is based on an unprecedented effort in microbial strain improvement. To gain more insight into penicillin synthesis, we sequenced the 32.19 Mb genome of P. chrysogenum Wisconsin54-1255 and identified numerous genes responsible for key steps in penicillin production. DNA microarrays were used to compare the transcriptomes of the sequenced strain and a penicillinG high-producing strain, grown in the presence and absence of the side-chain precursor phenylacetic acid. Transcription of genes involved in biosynthesis of valine, cysteine and alpha-aminoadipic acid-precursors for penicillin biosynthesis-as well as of genes encoding microbody proteins, was increased in the high-producing strain. Some gene products were shown to be directly controlling beta-lactam output. Many key cellular transport processes involving penicillins and intermediates remain to be characterized at the molecular level. Genes predicted to encode transporters were strongly overrepresented among the genes transcriptionally upregulated under conditions that stimulate penicillinG production, illustrating potential for future genomics-driven metabolic engineering. Title: Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88 Pel HJ, de Winde JH, Archer DB, Dyer PS, Hofmann G, Schaap PJ, Turner G, de Vries RP, Albang R and Stam H <59 more author(s)> Pel HJ, de Winde JH, Archer DB, Dyer PS, Hofmann G, Schaap PJ, Turner G, de Vries RP, Albang R, Albermann K, Andersen MR, Bendtsen JD, Benen JA, van den Berg M, Breestraat S, Caddick MX, Contreras R, Cornell M, Coutinho PM, Danchin EG, Debets AJ, Dekker P, van Dijck PW, van Dijk A, Dijkhuizen L, Driessen AJ, d'Enfert C, Geysens S, Goosen C, Groot GS, de Groot PW, Guillemette T, Henrissat B, Herweijer M, van den Hombergh JP, van den Hondel CA, van der Heijden RT, van der Kaaij RM, Klis FM, Kools HJ, Kubicek CP, van Kuyk PA, Lauber J, Lu X, van der Maarel MJ, Meulenberg R, Menke H, Mortimer MA, Nielsen J, Oliver SG, Olsthoorn M, Pal K, van Peij NN, Ram AF, Rinas U, Roubos JA, Sagt CM, Schmoll M, Sun J, Ussery D, Varga J, Vervecken W, van de Vondervoort PJ, Wedler H, Wosten HA, Zeng AP, van Ooyen AJ, Visser J, Stam H (- 59) Ref: Nat Biotechnol, 25:221, 2007 : PubMed ESTHER: Pel_2007_Nat.Biotechnol_25_221 PubMedSearch: Pel 2007 Nat.Biotechnol 25 221 PubMedID: 17259976 Gene_locus related to this paper: aspna-g3yal2, aspnc-a2q8r7, aspnc-a2q814, aspnc-a2qb93, aspnc-a2qbd3, aspnc-a2qbh3, aspnc-a2qbx7, aspnc-a2qdj6, aspnc-a2qe77, aspnc-a2qf54, aspnc-a2qfe9, aspnc-a2qg33, aspnc-a2qgj6, aspnc-a2qgm6, aspnc-a2qh52, aspnc-a2qh76, aspnc-a2qh85, aspnc-a2qhe2, aspnc-a2qi32, aspnc-a2qib2, aspnc-a2qk14, aspnc-a2ql23, aspnc-a2ql89, aspnc-a2ql90, aspnc-a2qla0, aspnc-a2qlz0, aspnc-a2qm14, aspnc-a2qmk5, aspnc-a2qms0, aspnc-a2qn29, aspnc-a2qn56, aspnc-a2qn70, aspnc-a2qnw9, aspnc-a2qr21, aspnc-a2qs22, aspnc-a2qt50, aspnc-a2qti9, aspnc-a2qtz0, aspnc-a2quc1, aspnc-a2qw06, aspnc-a2qwz6, aspnc-a2qx92, aspnc-a2qyf0, aspnc-a2qys7, aspnc-a2qz72, aspnc-a2qzn6, aspnc-a2qzr0, aspnc-a2qzs1, aspnc-a2qzx0, aspnc-a2qzx4, aspnc-a2r0p4, aspnc-a2r0u0, aspnc-a2r1p3, aspnc-a2r1r5, aspnc-a2r2i5, aspnc-a2r2l0, aspnc-a2r3s8, aspnc-a2r4c0, aspnc-a2r4j8, aspnc-a2r5r4, aspnc-a2r6g3, aspnc-a2r6h5, aspnc-a2r6h8, aspnc-a2r7q1, aspnc-a2r8r3, aspnc-a2r8z3, aspnc-a2r9y8, aspnc-a2r032, aspnc-a2r040, aspnc-a2r273, aspnc-a2r496, aspnc-a2r502, aspnc-a2ra07, aspnc-a2rap4, aspnc-a2raq2, aspnc-a2rav1, aspnc-a5aaf4, aspnc-a5ab63, aspnc-a5abc6, aspnc-a5abe5, aspnc-a5abe8, aspnc-a5abf0, aspnc-a5abh9, aspnc-a5abk1, aspnc-a5abt2, aspnc-a5abz1, aspnc-atg15, aspnc-axe1, aspnc-cuti1, aspnc-cuti2, aspnc-faec, aspng-a2q8w0, aspng-a2qs46, aspng-a2qst4, aspng-a2qv27, aspng-a2qzk9, aspng-a2r0p8, aspng-a2r225, aspng-DAPB, aspng-DPP5, aspng-faeb, aspni-APSC, aspni-EstA, aspni-FAEA, aspni-PAPA, aspkw-g7y0v7, aspnc-a2qt47, aspnc-a2qt66, aspnc-a2r199, aspnc-a2r871, aspnc-a2qbp6, aspnc-a2qqa1, aspnc-a2qt70, aspna-g3y5a6, aspna-g3xpw9, aspnc-a2qw57, aspaw-a0a401kcz4, aspna-alba, aspnc-kex1, aspnc-cbpya Abstract The filamentous fungus Aspergillus niger is widely exploited by the fermentation industry for the production of enzymes and organic acids, particularly citric acid. We sequenced the 33.9-megabase genome of A. niger CBS 513.88, the ancestor of currently used enzyme production strains. A high level of synteny was observed with other aspergilli sequenced. Strong function predictions were made for 6,506 of the 14,165 open reading frames identified. A detailed description of the components of the protein secretion pathway was made and striking differences in the hydrolytic enzyme spectra of aspergilli were observed. A reconstructed metabolic network comprising 1,069 unique reactions illustrates the versatile metabolism of A. niger. Noteworthy is the large number of major facilitator superfamily transporters and fungal zinc binuclear cluster transcription factors, and the presence of putative gene clusters for fumonisin and ochratoxin A synthesis. Title: The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI Bussey H, Storms RK, Ahmed A, Albermann K, Allen E, Ansorge W, Araujo R, Aparicio A, Barrell B and Hani J <79 more 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 (- 79) Ref: Nature, 387:103, 1997 : PubMed ESTHER: Bussey_1997_Nature_387_103 PubMedSearch: Bussey 1997 Nature 387 103 PubMedID: 9169875 Gene_locus related to this paper: yeast-MCFS1, yeast-YPR147C 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. Title: The nucleotide sequence of Saccharomyces cerevisiae chromosome XV Dujon B, Albermann K, Aldea M, Alexandraki D, Ansorge W, Arino J, Benes V, Bohn C, Bolotin-Fukuhara M and Kleine K <87 more 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 (- 87) Ref: Nature, 387:98, 1997 : PubMed ESTHER: Dujon_1997_Nature_387_98 PubMedSearch: Dujon 1997 Nature 387 98 PubMedID: 9169874 Gene_locus related to this paper: yeast-FSH3, yeast-yo059 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. Title: The nucleotide sequence of Saccharomyces cerevisiae chromosome IV Jacq C, Alt-Morbe J, Andre B, Arnold W, Bahr A, Ballesta JP, Bargues M, Baron L, Becker A and Zaccaria P <126 more 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 (- 126) Ref: Nature, 387:75, 1997 : PubMed 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 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. Title: The nucleotide sequence of Saccharomyces cerevisiae chromosome XII Johnston M, Hillier L, Riles L, Albermann K, Andre B, Ansorge W, Benes V, Bruckner M, Delius H and Hoheisel JD <47 more author(s)> Johnston M, Hillier L, Riles L, Albermann K, Andre B, Ansorge W, Benes V, Bruckner M, Delius H, Dubois E, Dusterhoft A, Entian KD, Floeth M, Goffeau A, Hebling U, Heumann K, Heuss-Neitzel D, Hilbert H, Hilger F, Kleine K, Kotter P, Louis EJ, Messenguy F, Mewes HW, Miosga T, Mostl D, Muller-Auer S, Nentwich U, Obermaier B, Piravandi E, Pohl TM, Portetelle D, Purnelle B, Rechmann S, Rieger M, Rinke M, Rose M, Scharfe M, Scherens B, Scholler P, Schwager C, Schwarz S, Underwood AP, Urrestarazu LA, Vandenbol M, Verhasselt P, Vierendeels F, Voet M, Volckaert G, Voss H, Wambutt, Wedler E, Wedler H, Zimmermann FK, Zollner A, Hani J, Hoheisel JD (- 47) Ref: Nature, 387:87, 1997 : PubMed ESTHER: Johnston_1997_Nature_387_87 PubMedSearch: Johnston 1997 Nature 387 87 PubMedID: 9169871 Gene_locus related to this paper: yeast-ict1, yeast-YLR118c Abstract The yeast Saccharomyces cerevisiae is the pre-eminent organism for the study of basic functions of eukaryotic cells. All of the genes of this simple eukaryotic cell have recently been revealed by an international collaborative effort to determine the complete DNA sequence of its nuclear genome. Here we describe some of the features of chromosome XII. Title: The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications Philippsen P, Kleine K, Pohlmann R, Dusterhoft A, Hamberg K, Hegemann JH, Obermaier B, Urrestarazu LA, Aert R and Hani J <78 more author(s)> Philippsen P, Kleine K, Pohlmann R, Dusterhoft A, Hamberg K, Hegemann JH, Obermaier B, Urrestarazu LA, Aert R, Albermann K, Altmann R, Andre B, Baladron V, Ballesta JP, Becam AM, Beinhauer J, Boskovic J, Buitrago MJ, Bussereau F, Coster F, Crouzet M, D'Angelo M, Dal Pero F, De Antoni A, del Rey F, Doignon F, Domdey H, Dubois E, Fiedler T, Fleig U, Floeth M, Fritz C, Gaillardin C, Garcia-Cantalejo JM, Glansdorff NN, Goffeau A, Gueldener U, Herbert C, Heumann K, Heuss-Neitzel D, Hilbert H, Hinni K, Iraqui Houssaini I, Jacquet M, Jimenez A, Jonniaux JL, Karpfinger L, Lanfranchi G, Lepingle A, Levesque H, Lyck R, Maftahi M, Mallet L, Maurer KC, Messenguy F, Mewes HW, Mosti D, Nasr F, Nicaud JM, Niedenthal RK, Pandolfo D, Pierard A, Piravandi E, Planta RJ, Pohl TM, Purnelle B, Rebischung C, Remacha M, Revuelta JL, Rinke M, Saiz JE, Sartorello F, Scherens B, Sen-Gupta M, Soler-Mira A, Urbanus JH, Valle G, van Dyck L, Verhasselt P, Vierendeels F, Vissers S, Voet M, Volckaert G, Wach A, Wambutt R, Wedler H, Zollner A, Hani J (- 78) Ref: Nature, 387:93, 1997 : PubMed ESTHER: Philippsen_1997_Nature_387_93 PubMedSearch: Philippsen 1997 Nature 387 93 PubMedID: 9169873 Gene_locus related to this paper: yeast-SCYNR064C, yeast-hda1 Abstract In 1992 we started assembling an ordered library of cosmid clones from chromosome XIV of the yeast Saccharomyces cerevisiae. At that time, only 49 genes were known to be located on this chromosome and we estimated that 80% to 90% of its genes were yet to be discovered. In 1993, a team of 20 European laboratories began the systematic sequence analysis of chromosome XIV. The completed and intensively checked final sequence of 784,328 base pairs was released in April, 1996. Substantial parts had been published before or had previously been made available on request. The sequence contained 419 known or presumptive protein-coding genes, including two pseudogenes and three retrotransposons, 14 tRNA genes, and three small nuclear RNA genes. For 116 (30%) protein-coding sequences, one or more structural homologues were identified elsewhere in the yeast genome. Half of them belong to duplicated groups of 6-14 loosely linked genes, in most cases with conserved gene order and orientation (relaxed interchromosomal synteny). We have considered the possible evolutionary origins of this unexpected feature of yeast genome organization. Title: The nucleotide sequence of Saccharomyces cerevisiae chromosome VII Tettelin H, Agostoni Carbone ML, Albermann K, Albers M, Arroyo J, Backes U, Barreiros T, Bertani I, Bjourson AJ and et al. <16 more 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. (- 16) Ref: Nature, 387:81, 1997 : PubMed ESTHER: Tettelin_1997_Nature_387_81 PubMedSearch: Tettelin 1997 Nature 387 81 PubMedID: 9169869 Gene_locus related to this paper: yeast-ROG1, yeast-SAY1 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. | |||||||
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