Genome sequence and analysis of the Japanese morning glory Ipomoea nil
| Autor: | Hiroshi Kudoh, Atsushi J. Nagano, Atsushi Toyoda, Eiji Nitasaka, Yuki Koda, Yutaka Suzuki, Motoaki Seki, Sachiko Tanaka, Hideki Noguchi, Asako Kamiya, Atsushi Hoshino, Tadasu Shin-I, Yoshihide Hayashizaki, Piero Carninci, Yuji Kohara, Takehiko Itoh, Yasubumi Sakakibara, Satoshi Tabata, Masaki Yasugi, Yasumasa Morita, Sumio Sugano, Hiroyo Nishide, Shigeru Iida, Kyeung-Il Park, Toshiyuki Shiraki, Kohei Yokoyama, Asao Fujiyama, Yoshikazu Tanaka, Vasanthan Jayakumar, Ikuo Uchiyama, Kazuo Shinozaki, Erika Asamizu, Yohei Minakuchi, Mie N. Honjo |
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| Jazyk: | angličtina |
| Rok vydání: | 2016 |
| Předmět: |
0301 basic medicine
Science General Physics and Astronomy Transposases Ipomoea Genes Plant Genome General Biochemistry Genetics and Molecular Biology Article Evolution Molecular 03 medical and health sciences parasitic diseases Brassinosteroids Ipomoea nil Gene Whole genome sequencing Comparative genomics Genetics Multidisciplinary biology Base Sequence fungi food and beverages Reproducibility of Results Molecular Sequence Annotation General Chemistry Sequence Analysis DNA biology.organism_classification Solanales 030104 developmental biology DNA Transposable Elements Convolvulaceae Genome Plant |
| Zdroj: | Nature Communications Nature Communications, Vol 7, Iss 1, Pp 1-10 (2016) |
| ISSN: | 2041-1723 |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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