Sequencing and comparative analyses of the genomes of zoysiagrasses.
Sequencing and comparative analyses of the genomes of zoysiagrasses.
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DOI：
10.1093/dnares/dsw006
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发表时间：
2016-04
期刊：
影响因子：
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通讯作者：
Sato S
中科院分区：
文献类型：
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作者：
Tanaka H;Hirakawa H;Kosugi S;Nakayama S;Ono A;Watanabe A;Hashiguchi M;Gondo T;Ishigaki G;Muguerza M;Shimizu K;Sawamura N;Inoue T;Shigeki Y;Ohno N;Tabata S;Akashi R;Sato S
结缕草是一种暖季草坪草，由11个异源四倍体种（2n = 4x = 40）组成，每个种都具有不同的形态和生理特征。为了表征结缕草属植物的遗传系统，并分析其在个体和品种间的结构和功能差异，我们利用HiSeq和MiSeq平台对结缕草属植物的基因组进行了测序。作为结缕草种的参考序列，我们构建了高质量的结缕草品种Nagirizaki基因组草图序列（334 Mb），其中预测了59,271个蛋白质编码基因。同时，还生成了Z. matrella ‘ Wakaba ’和Z. pacifica ‘ Zanpa ’的基因组序列草图，用于比较分析。为了研究结缕草物种间的遗传多样性，我们收集了另外3个品种Z. japonica ‘ Kyoto ’、Z. japonica ‘ Miyagi ’和Z. matrella ‘ Chiba Fair Green ’的基因组序列，并与‘ Nagirizaki ’、‘ Wakaba ’和‘ Zanpa ’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个短序列。本研究获得的信息将为结缕草的进化和遗传基础研究以及结缕草的育种提供有价值的信息，并已在结缕草基因组数据库中提供。
Zoysia is 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 .