Whole-genome sequence analysis of mutations in rice plants regenerated from zygotes, mature embryos, and immature embryos.

IF 2 4区 农林科学 Q2 AGRONOMY
Breeding Science Pub Date : 2023-06-01 Epub Date: 2023-06-15 DOI:10.1270/jsbbs.22100
Masako Ichikawa, Norio Kato, Erika Toda, Masakazu Kashihara, Yuji Ishida, Yukoh Hiei, Sachiko N Isobe, Kenta Shirasawa, Hideki Hirakawa, Takashi Okamoto, Toshihiko Komari
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Abstract

Somaclonal variation was studied by whole-genome sequencing in rice plants (Oryza sativa L., 'Nipponbare') regenerated from the zygotes, mature embryos, and immature embryos of a single mother plant. The mother plant and its seed-propagated progeny were also sequenced. A total of 338 variants of the mother plant sequence were detected in the progeny, and mean values ranged from 9.0 of the seed-propagated plants to 37.4 of regenerants from mature embryos. The natural mutation rate of 1.2 × 10-8 calculated using the variants in the seed-propagated plants was consistent with the values reported previously. The ratio of single nucleotide variants (SNVs) among the variants in the seed-propagated plants was 91.1%, which is higher than 56.1% previously reported, and not significantly different from those in the regenerants. Overall, the ratio of transitions to transversions of SNVs was lower in the regenerants as shown previously. Plants regenerated from mature embryos had significantly more variants than different progeny types. Therefore, using zygotes and immature embryos can reduce somaclonal variation during the genetic manipulation of rice.

从受精卵、成熟胚胎和未成熟胚胎再生的水稻植株突变的全基因组序列分析。
通过全基因组测序研究了从单个母株的受精卵、成熟胚胎和未成熟胚胎再生的水稻(Oryza sativa L.,“Nipponbare”)的体细胞克隆变异。还对母株及其种子繁殖后代进行了测序。在子代中总共检测到338个母株序列的变体,平均值从种子繁殖植物的9.0到成熟胚胎再生剂的37.4不等。利用种子繁殖植物中的变异计算出的1.2×10-8的自然突变率与之前报道的值一致。在种子繁殖植物中的变体中,单核苷酸变体(SNVs)的比例为91.1%,高于先前报道的56.1%,并且与再生剂中的变体没有显著差异。总体而言,如前所述,再生剂中SNV的转换与颠换的比率较低。从成熟胚胎再生的植物比不同的后代类型有更多的变异。因此,在水稻遗传操作过程中,利用受精卵和未成熟胚胎可以减少体细胞克隆变异。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Breeding Science
Breeding Science 农林科学-农艺学
CiteScore
4.90
自引率
4.20%
发文量
37
审稿时长
1.5 months
期刊介绍: Breeding Science is published by the Japanese Society of Breeding. Breeding Science publishes research papers, notes and reviews related to breeding. Research Papers are standard original articles. Notes report new cultivars, breeding lines, germplasms, genetic stocks, mapping populations, database, software, and techniques significant and useful for breeding. Reviews summarize recent and historical events related breeding. Manuscripts should be submitted by corresponding author. Corresponding author must have obtained permission from all authors prior to submission. Correspondence, proofs, and charges of excess page and color figures should be handled by the corresponding author.
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