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論文

Draft genome sequence of calcium-dependent ${it Paenibacillus}$ sp. strain TCA20, isolated from a hot spring containing a high concentration of calcium ions

藤浪 俊*; 武田 喜代子*; 小野寺 威文*; 佐藤 勝也; 佐野 元彦*; 高橋 優嘉*; 鳴海 一成*; 伊藤 政博*

Genome Announcements (Internet), 2(5), p.e00866-14_1 - e00866-14_2, 2014/09

Calcium-dependent ${it Paenibacillus}$ sp. strain TCA20 was isolated from a water sample of a hot spring containing a high concentration of calcium ions. Here, we report the draft genome sequence of this bacterium, which may be the basis for the research of calcium ion homeostasis. The draft genome sequence of ${it Paenibacillus}$ sp. strain TCA20 totals 5,631,463 bp in length and is composed of 33 large contigs ($$>$$ 500 bp) that was deposited at DDBJ/EMBL/Genbank under the accession no. BBIW00000000. The annotation of the draft genome sequence shows that ${it Paenibacillus}$ sp. strain TCA20 has a calcium-specific calcium/proton antiporter, ChaA, and a P-type calcium-transporting ATPase, YloB, was identified as calcium transporters. These transporters may also be important for the growth of ${it Paenibacillus}$ sp. strain TCA20 under the high concentration of calcium ions.

論文

Draft genome sequence of potassium-dependent alkaliphilic ${it Bacillus}$ sp. strain TS-2, isolated from a jumping spider

藤浪 俊*; 武田 喜代子*; 小野寺 威文*; 佐藤 勝也; 佐野 元彦*; 鳴海 一成*; 伊藤 政博*

Genome Announcements (Internet), 2(3), p.e00458-14_1 - e00458-14_2, 2014/05

The potassium-dependent alkaliphilic ${it Bacillus}$ sp. strain TS-2 was isolated from the mashed extract of a jumping spider, and its draft genome sequence was obtained. Comparative genomic analysis with a previously sequenced sodium-dependent alkaliphilic ${it Bacillus}$ species may reveal potassium-dependent alkaline adaptation mechanisms. The draft genome sequence of ${it Bacillus}$ sp. strain TS-2 was 4,360,646 bp in total length, comprised 58 large contigs ($$>$$ 500 bp) that was deposited at DDBJ/EMBL/Genbank under the accession number BAWL00000000. In the draft genome sequence of ${it Bacillus}$ sp. strain TS-2, two sets of ${it mrp}$ genes, which encode multisubunit secondary cation/proton antiporter-3 family proteins, were annotated. The Mrp complex acts as an Na$$^{+}$$/H$$^{+}$$ antiporter in typical alkaliphilic ${it Bacillus}$ species and plays a critical role in the sodium-dependent alkaline adaptation mechanism.

論文

Draft genome sequence of sodium-independent alkaliphilic ${it Microbacterium}$ sp. strain TS-1

藤浪 俊*; 武田 喜代子; 小野寺 威文*; 佐藤 勝也; 佐野 元彦*; 鳴海 一成*; 伊藤 政博*

Genome Announcements (Internet), 1(6), P. e01043-13, 2013/12

Alkaliphilic ${it Microbacterium}$ sp. strain TS-1, newly isolated from the jumping spider, showed Na$$^{+}$$-independent growth and motility. Here, we report the draft genome sequence of this bacterium, which may provide beneficial information for Na$$^{+}$$-independent alkaline adaptation mechanisms. The draft genome sequence of ${it Microbacterium}$ sp. strain TS-1 was 3,396,165 bp in total length and comprised 3 large contigs (2,699,404 bp, 691,278 bp, and 5,483 bp) that was deposited at DDBJ/ EMBL/GenBank under the accession number BASQ00000000. The annotation of the draft genome sequence indicated that this bacterium has 3 sets of ${it mrp}$ genes, which encode multisubunit secondary cation/proton antiporter-3 family proteins for pH homeostasis. The annotation also indicated that this bacterium has genes involved in chemotaxis/flagellar components, including one set of ${it mot}$ genes.

論文

The H-Invitational Database (H-InvDB); A Comprehensive annotation resource for human genes and transcripts

山崎 千里*; 村上 勝彦*; 藤井 康之*; 佐藤 慶治*; 原田 えりみ*; 武田 淳一*; 谷家 貴之*; 坂手 龍一*; 喜久川 真吾*; 嶋田 誠*; et al.

Nucleic Acids Research, 36(Database), p.D793 - D799, 2008/01

 被引用回数:51 パーセンタイル:71.49(Biochemistry & Molecular Biology)

ヒトゲノム解析のために、転写産物データベースを構築した。34057個のタンパク質コード領域と、642個のタンパク質をコードしていないRNAを見いだすことができた。

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