Sequencing and comparative analyses of the genomes of zoysiagrasses

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 access...

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Published inDNA research Vol. 23; no. 2; pp. 171 - 180
Main Authors 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
Format Journal Article
LanguageEnglish
Published England Oxford University Press 01.04.2016
Subjects
Base Sequence
Genetic Variation
Genome, Plant
Poaceae - genetics
Sequence Analysis, DNA
Zoysia
turfgrass
comparative analysis
genome sequencing
gene prediction
Zoysia
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Summary: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.
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Edited by Dr Katsumi Isono
These two authors equally contributed to this work.
ISSN:1340-2838
1756-1663
DOI:10.1093/dnares/dsw006