Genome sequence and analysis of the Japanese morning glory Ipomoea nil.
Genome sequence and analysis of the Japanese morning glory Ipomoea nil.
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DOI：
10.1038/ncomms13295
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发表时间：
2016-11-08
影响因子：
16.6
通讯作者：
Sakakibara, Yasubumi
中科院分区：
文献类型：
--
作者：
Hoshino, Atsushi;Jayakumar, Vasanthan;Nitasaka, Eiji;Toyoda, Atsushi;Noguchi, Hideki;Itoh, Takehiko;Shin-, Tadasu, I;Minakuchi, Yohei;Koda, Yuki;Nagano, Atsushi J.;Yasugi, Masaki;Honjo, Mie N.;Kudoh, Hiroshi;Seki, Motoaki;Kamiya, Asako;Shiraki, Toshiyuki;Carninci, Piero;Asamizu, Erika;Nishide, Hiroyo;Tanaka, Sachiko;Park, Kyeung-Il;Morita, Yasumasa;Yokoyama, Kohei;Uchiyama, Ikuo;Tanaka, Yoshikazu;Tabata, Satoshi;Shinozaki, Kazuo;Hayashizaki, Yoshihide;Kohara, Yuji;Suzuki, Yutaka;Sugano, Sumio;Fujiyama, Asao;Iida, Shigeru;Sakakibara, Yasubumi
番薯属是旋花科中最大的属。日本牵牛花（Ipomoea nil）已被用作模式植物研究花卉性状的遗传基础，有超过1，500个突变株系。在本研究中，我们利用第二代和第三代测序平台，并已报告了一个草案的基因组I。nil，支架N50为2.88 Mb（重叠群N50为1.87 Mb），覆盖750 Mb基因组的98%。覆盖91.42%组装体的支架锚定到15个假染色体。基因组草图使得Tpn 1家族转座子的鉴定和编目成为可能，Tpn 1家族转座子被称为I. nil，并分析了位于1956年发表的遗传图谱上的矮秆基因，比较基因组学表明，在旋花科，不同于最近的茄科事件的全基因组重复，已经发生后，两个姐妹家庭的分歧。 日本牵牛花（Ipomoea nil）具有多种开花性状。在这里，作者描述了I. nil，基因和转座子的注释，并比较I. nil基因组与其他旋花科和茄目基因组的差异。
Ipomoea is the largest genus in the family Convolvulaceae. Ipomoea nil (Japanese morning glory) has been utilized as a model plant to study the genetic basis of floricultural traits, with over 1,500 mutant lines. In the present study, we have utilized second- and third-generation-sequencing platforms, and have reported a draft genome of I. nil with a scaffold N50 of 2.88 Mb (contig N50 of 1.87 Mb), covering 98% of the 750 Mb genome. Scaffolds covering 91.42% of the assembly are anchored to 15 pseudo-chromosomes. The draft genome has enabled the identification and cataloguing of the Tpn1 family transposons, known as the major mutagen of I. nil, and analysing the dwarf gene, CONTRACTED, located on the genetic map published in 1956. Comparative genomics has suggested that a whole genome duplication in Convolvulaceae, distinct from the recent Solanaceae event, has occurred after the divergence of the two sister families. Japanese morning glory (Ipomoea nil) has diverse flowering traits. Here, the authors describe the reference genome sequence of I. nil, annotations of genes and transposons, and compare evolution of the I. nil genome to other Convolvulaceae and Solanales genomes.
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影响因子：
3.7
作者：
Baird NA;Etter PD;Atwood TS;Currey MC;Shiver AL;Lewis ZA;Selker EU;Cresko WA;Johnson EA
通讯作者：
Johnson EA
影响因子：
10.7
作者：
Hedges SB;Marin J;Suleski M;Paymer M;Kumar S
通讯作者：
Kumar S
DOI：
10.1126/science.aae0344
发表时间：
2016-04-01
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Gordon D;Huddleston J;Chaisson MJ;Hill CM;Kronenberg ZN;Munson KM;Malig M;Raja A;Fiddes I;Hillier LW;Dunn C;Baker C;Armstrong J;Diekhans M;Paten B;Shendure J;Wilson RK;Haussler D;Chin CS;Eichler EE
通讯作者：
Eichler EE
影响因子：
7.4
作者：
Chono, M;Honda, I;Watanabe, Y
通讯作者：
Watanabe, Y
影响因子：
64.8
作者：
Jaillon, Olivier;Aury, Jean-Marc;Wincker, Patrick
通讯作者：
Wincker, Patrick