Tanaka Hidenori, Hirakawa Hideki, Kosugi Shunichi, Nakayama Shinobu, Ono Akiko, Watanabe Akiko, Hashiguchi Masatsugu, Gondo Takahiro, Ishigaki Genki, Muguerza Melody, Shimizu Katsuya, Sawamura Noriko, Inoue Takayasu, Shigeki Yuichi, Ohno Naoki, Tabata Satoshi, Akashi Ryo, Sato Shusei
Faculty of Agriculture, University of Miyazaki, 1-1 Gakuenkibanadai-Nishi, Miyazaki 889-2192, Japan.
Kazusa DNA Research Institute, 2-6-7 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan.
DNA Res. 2016 Apr;23(2):171-80. doi: 10.1093/dnares/dsw006. Epub 2016 Mar 14.
Zoysiais a warm-season turfgrass, which comprises 11 allotetraploid species (2n= 4x= 40), each possessing different morphological and physiological traits. To characterize the genetic systems of Zoysia plants and to analyse their structural and functional differences in individual species and accessions, we sequenced the genomes of Zoysia species using HiSeq and MiSeq platforms. As a reference sequence of Zoysia species, we generated a high-quality draft sequence of the genome of Z. japonica accession 'Nagirizaki' (334 Mb) in which 59,271 protein-coding genes were predicted. In parallel, draft genome sequences of Z. matrella 'Wakaba' and Z. pacifica 'Zanpa' were also generated for comparative analyses. To investigate the genetic diversity among the Zoysia species, genome sequence reads of three additional accessions, Z. japonica'Kyoto', Z. japonica'Miyagi' and Z. matrella'Chiba Fair Green', were accumulated, and aligned against the reference genome of 'Nagirizaki' along with those from 'Wakaba' and 'Zanpa'. As a result, we detected 7,424,163 single-nucleotide polymorphisms and 852,488 short indels among these species. The information obtained in this study will be valuable for basic studies on zoysiagrass evolution and genetics as well as for the breeding of zoysiagrasses, and is made available in the 'Zoysia Genome Database' at http://zoysia.kazusa.or.jp.
结缕草是一种暖季型草坪草，由11个异源四倍体物种（2n = 4x = 40）组成，每个物种都具有不同的形态和生理特征。为了表征结缕草植物的遗传系统，并分析它们在各个物种和种质中的结构和功能差异，我们使用HiSeq和MiSeq平台对结缕草物种的基因组进行了测序。作为结缕草物种的参考序列，我们生成了日本结缕草品种‘Nagirizaki’（334 Mb）基因组的高质量草图序列，其中预测有59,271个蛋白质编码基因。同时，也生成了沟叶结缕草‘Wakaba’和平卧结缕草‘Zanpa’的基因组草图序列用于比较分析。为了研究结缕草物种之间的遗传多样性，积累了另外三个种质日本结缕草‘Kyoto’、日本结缕草‘Miyagi’和沟叶结缕草‘Chiba Fair Green’的基因组序列读数，并将它们与‘Nagirizaki’以及‘Wakaba’和‘Zanpa’的基因组序列读数一起与‘Nagirizaki’的参考基因组进行比对。结果，我们在这些物种中检测到7,424,163个单核苷酸多态性和852,488个短插入缺失。本研究中获得的信息对于结缕草进化和遗传学基础研究以及结缕草育种具有重要价值，并可在http://zoysia.kazusa.or.jp的“结缕草基因组数据库”中获取。
