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Nat Commun. 2016 Nov 8;7:13295. doi: 10.1038/ncomms13295.

Genome sequence and analysis of the Japanese morning glory Ipomoea nil.

Author information

1
National Institute for Basic Biology, Okazaki, Aichi 444-8585, Japan.
2
Department of Basic Biology, School of Life Science, SOKENDAI (The Graduate University for Advanced Studies), Okazaki, Aichi 444-8585, Japan.
3
Department of Biosciences and Informatics, Keio University, Yokohama, Kanagawa 223-8522, Japan.
4
Graduate School of Science, Kyushu University, Fukuoka, Fukuoka 819-0395, Japan.
5
National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.
6
Department of Biological Information, Tokyo Institute of Technology, Meguro-ku, Tokyo 152-8550, Japan.
7
Center for Ecological Research, Kyoto University, Otsu, Shiga 520-2113, Japan.
8
Faculty of Agriculture, Ryukoku University, Otsu, Shiga 520-2194, Japan.
9
RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa 230-0045, Japan.
10
Core Research for Evolutional Science and Technology (CREST), Japan Science and Technology (JST), 4-1-8 Honcho, Kawaguchi, Saitama 332-0012, Japan.
11
RIKEN Brain Science Institute, Wako, Saitama 351-0198, Japan.
12
RIKEN Center for Life Science Technologies, Yokohama, Kanagawa 230-0045, Japan.
13
Kazusa DNA Research Institute, Kisarazu, Chiba 292-0818, Japan.
14
Department of Horticulture &Life Science, Yeungnam University, Gyeongbuk 712-749, Korea.
15
Suntory Global Innovation Center Ltd, Seika, Kyoto 619-0284, Japan.
16
RIKEN Preventive Medicine and Diagnosis Innovation Program, Wako, Saitama 351-0198, Japan.
17
Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba 277-0882, Japan.
18
Department of Medical Genome Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Bunkyo-ku, Tokyo 108-8639, Japan.
19
Principles of Informatics Research Division, National Institute of Informatics, Chiyoda-ku, Tokyo 101-8430, Japan.

Abstract

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.

PMID:
27824041
PMCID:
PMC5105172
DOI:
10.1038/ncomms13295
[Indexed for MEDLINE]
Free PMC Article

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