Draft genome sequence of Saccharomyces cerevisiae IR-2, a useful industrial strain for highly efficient production of bioethanol

Genome Announcements

Volumn 2, Issue 1, 2014, Pages

  Sahara, Takehiko ^a   Fujimori, Kazuhiro E ^a   Nezuo, Maiko ^b   Tsukahara, Masatoshi ^b   Tochigi, Yuki ^c,d   Ohgiya, Satoru ^a,c   Kamagata, Yoichi ^a,c  

^a NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^b BioJet Co Ltd   (Japan)

^c NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^d NIPPON VETERINARY AND LIFE SCIENCE UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84998717633     PISSN: None     EISSN: 21698287     Source Type: Journal    
DOI: 10.1128/genomeA.e01160-13     Document Type: Article

References (17)

1. Akao T, Yashiro I, Hosoyama A, Kitagaki H, Horikawa H, Watanabe D, Akada R, Ando Y, Harashima S, Inoue T, Inoue Y, Kajiwara S, Kitamoto K, Kitamoto N, Kobayashi O, Kuhara S, Masubuchi T, Mizoguchi H, Nakao Y, Nakazato A, Namise M, Oba T, Ogata T, Ohta A, Sato M, Shibasaki S, Takatsume Y, Tanimoto S, Tsuboi H, Nishimura A, Yoda K, Ishikawa T, Iwashita K, Fujita N, Shimoi H. 2011. Whole-genome sequencing of sake yeast Saccharomyces cerevisiae Kyokai no. 7. DNA Res. 18:423-434. http://dx.doi.org/10.1093/dnares/dsr029.
2. Argueso JL, Carazzolle MF, Mieczkowski PA, Duarte FM, Netto OV, Missawa SK, Galzerani F, Costa GG, Vidal RO, Noronha MF, Dominska M, Andrietta MG, Andrietta SR, Cunha AF, Gomes LH, Tavares FC, Alcarde AR, Dietrich FS, McCusker JH, Petes TD, Pereira GA. 2009. Genome structure of a Saccharomyces cerevisiae strain widely used in bioethanol production. Genome Res. 19:2258-2270. http://dx.doi.org/10.11 01/gr.091777.109.
3. Babrzadeh F, Jalili R, Wang C, Shokralla S, Pierce S, Robinson-Mosher A, Nyren P, Shafer RW, Basso LC, de Amorim HV, de Oliveira AJ, Davis RW, Ronaghi M, Gharizadeh B, Stambuk BU. 2012. Wholegenome sequencing of the efficient industrial fuel-ethanol fermentative Saccharomyces cerevisiae strain CAT-1. Mol. Genet. Genomics 287: 485-494. http://dx.doi.org/10.1007/s00438-012-0695-7.
4. Zheng DQ, Wang PM, Chen J, Zhang K, Liu TZ, Wu XC, Li YD, Zhao YH. 2012. Genome sequencing and genetic breeding of a bioethanol Saccharomyces cerevisiae strain YJS329. BMC Genomics 13:479. http://dx.doi.org/10.1186/1471-2164-13-479.
5. Borneman AR, Desany BA, Riches D, Affourtit JP, Forgan AH, Pretorius IS, Egholm M, Chambers PJ. 2011. Whole-genome comparison reveals novel genetic elements that characterize the genome of industrial strains of Saccharomyces cerevisiae. PLoS Genet. 7:e1001287. http://dx.doi.org/10.1371/journal.pgen.1001287.
6. Hiroshi K, Yoshio S, Toshio M, Harumi K, Yorikazu S. 1985. Continuous ethanol fermentation with cell recycling using flocculating yeast. J. Ferment. Technol. 63:159-165.
7. Kida K, Morimura S, Kume K, Suruga K, Sonoda Y. 1991. Repeatedbatch ethanol fermentation by a flocculating yeast, Saccharomyces cerevisiae IR-2. J. Ferment. Bioeng. 71:340-344. http://dx.doi.org/10.1016/092 2-338X(91)90347-J.
8. Kida K, Kume K, Morimura S, Sonoda Y. 1992. Repeated-batch fermentation process using a thermotolerant flocculating yeast constructed by protoplast fusion. J. Ferment. Bioeng. 74:169-173. http://dx.doi.org/10.1 016/0922-338X(92)90078-9.
9. Matsushika A, Inoue H, Watanabe S, Kodaki T, Makino K, Sawayama S. 2009. Efficient bioethanol production by a recombinant flocculent Saccharomyces cerevisiae strain with a genome-integrated NADP+-dependent xylitol dehydrogenase gene. Appl. Environ. Microbiol. 75: 3818-3822. http://dx.doi.org/10.1128/AEM.02636-08.
10. Matsushika A, Inoue H, Murakami K, Takimura O, Sawayama S. 2009. Bioethanol production performance of five recombinant strains of laboratory and industrial xylose-fermenting Saccharomyces cerevisiae. Bioresour. Technol. 100:2392-2398. http://dx.doi.org/10.1016/j.biortech.200 8.11.047.
11. Li H, Durbin R. 2009. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25:1754-1760. http://dx.doi.org/10.1093/bioinformatics/btp324.
12. Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and memoryefficient alignment of short DNA sequences to the human genome. Genome Biol. 10:R25. http://dx.doi.org/10.1186/gb-2009-10-3-r25.
13. Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R, 1000 Genome Project Data Processing Subgroup, 2009 The Sequence Alignment/Map format and SAMtools. Bioinformatics 25:2078-2079. http://dx.doi.org/10.1093/bioinformatics/btp352.
14. Stanke M, Diekhans M, Baertsch R, Haussler D. 2008. Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics 24:637-644. http://dx.doi.org/10.1093/bioinformatics/btn013.
15. Slater GS, Birney E. 2005. Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics 6:31. http://dx.doi.org/10.1186/1471-2105-6-31.
16. Cherry JM, Hong EL, Amundsen C, Balakrishnan R, Binkley G, Chan ET, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Karra K, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Simison M, Weng S, Wong ED. 2012. Saccharomyces genome database: the genomics resource of budding yeast. Nucleic Acids Res. 40:D700-D705. http://dx.doi.org/10.1093/nar/gkr1029.
17. Camacho C, Coulouris G, Avagyan V, Ma N, Papadopoulos J, Bealer K, Madden TL. 2009. BLAST+: architecture and applications. BMC Bioinformatics 10:421. http://dx.doi.org/10.1186/1471-2105-10-421.