セミナー情報

セミナー情報

Next-generation sequencing and re-annotation of the parental strains Escherichia coli K-12 BW25113 and BW38028 used to construct the Keio and bar-coded single-gene deletion collections

演題 Next-generation sequencing and re-annotation of the parental strains Escherichia coli K-12 BW25113 and BW38028 used to construct the Keio and bar-coded single-gene deletion collections
講演者 Dr. Barry L. Wanner(Dept Microbiology and Immunobiology, Harvard Medical School)
使用言語 English
日時 平成27年3月23日(月曜日) 11:45~12:30
場所 Large seminar room
内容
 I will report the complete genome sequences and new updated annotations for Escherichia coli K-12 BW25113 and BW38028, which were used to construct two large sets of single-gene deletion libraries: the kanamycin-resistant, in-frame, single-gene deletion Keio collection and the bar-coded, chloramphenicol-resistant, turbo-green fluorescent protein fusion substitution collection. I will describe precise differences between the E. coli K-12 BW25113, BW38028 (same as BW38029), and E. coli K-12 MG1655 genomes. Our associated GenBank™ records have numerous corrections and a number of new features unavailable in other E. coli K-12 GenBank™ records or a variety of on-line information resources for E. coli K-12. Upon publication, these data will be made available at GenoBase (http://ecoli.naist.jp/GB/).

Contributors: Yuta Otsuka1,†, Daniel B. Goodman2,†, Atsushi Toyoda3,4, Jonathan Stokes5, Jun Teramoto6,‡, Nicholas Waglechner5, Eric D. Brown5, Sarath C. Janga7, Toru Nakayashiki1, Kenji Nakahigashi8, Tyrrell Conway9, Hirotada Mori1, Barry L. Wanner10,*
 1Graduate School of Biological Sciences, Nara Institute of Science and Technology, Nara 630-0101 Japan;
 2Division of Health Sciences and Technology, Massachusetts Institute of Technology, Bioinformatics and Integrative Genomics, Cambridge, MA 02139 USA;
 3RIKEN Genomic Sciences Center, Yokohama, Kanagawa, Japan;
 4Comparative Genomics Laboratory, National Institute of Genetics, Mishima, Shizuoka, Japan;
 5Department of Biochemistry, McMaster University, Hamilton, Ontario, Canada;
 6Department of Biological Science, Purdue University, 915 W. State Street, West Lafayette, IN 47907-2054 USA;
 7School of Bioinformatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN 46202 USA;
 8Advanced Center for Genome Technology, University of Oklahoma, Norman, OK 73019-0245 USA;
 9Advanced Institute of Biological Sciences, Keio University, Tsuruoka, Yamagata, 997-0017 Japan;
 10Department of Microbiology and Immunobiology, Harvard Medical School, Boston, MA 02115, USA;
 †These authors contributed equally to this work.
 ‡Current address: Department of Microbiology and Immunobiology, Harvard Medical School, Boston, MA 02115, USA

GenoBase: comprehensive resource database of Escherichia coli K-12 Yuta Otsuka†, Ai Muto†, Rikiya Takeuchi†, Chihiro Okada†, Motokazu Ishikawa, Koichiro Nakamura, Natsuko Yamamoto, Hitomi Dose, Kenji Nakahigashi, Shigeki Tanishima, Sivasundaram Suharnan, Wataru Nomura, Toru Nakayashiki, Walid G. Aref, Barry R. Bochner, Tyrrell Conway, Michael Gribskov, Daisuke Kihara, Kenneth E. Rudd, Yukako Tohsato, Barry L. Wanner* and Hirotada Mori* Nucl. Acids Res. (2014)
問合せ先 システム微生物学
森 浩禎 (hmori@gtc.naist.jp)

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