“红富士”苹果叶绿体基因组的比较分析：叶绿体基因组突变率低
Comparative analyses of chloroplast genomes in 'Red Fuji' apples: low rate of chloroplast genome mutations.
作者信息
Miao Haoyu, Bao Jinbo, Li Xueli, Ding Zhijie, Tian Xinmin
机构信息
Xinjiang Key Laboratory of Biological Resources and Genetic Engineering, College of Life Science and Technology, Xinjiang University, Xinjiang, Urumqi, China.
出版信息
PeerJ. 2022 Feb 21;10:e12927. doi: 10.7717/peerj.12927. eCollection 2022.
BACKGROUND
Fuji is a vital apple cultivar, and has been propagated clonally for nearly a century. The chloroplast genome variation of Fuji apples in China has not been investigated.
METHODS
This study used next-generation high-throughput sequencing and bioinformatics to compare and analyze the chloroplast genome of 24 Red Fuji varieties from nine regions in China.
RESULTS
The results showed that the 24 chloroplast genomes were highly conserved in genome size, structure, and organization. The length of the genomes ranged from 160,063 to 160,070 bp, and the GC content was 36.6%. Each of the 24 chloroplast genomes encoded 131 genes, including 84 protein-coding genes, 37 tRNA genes, and eight rRNA genes. The results of repeat sequence detection were consistent; the most common sequence was forward repeats (53.1%), and the least common sequence was complementary repeats (4.1%). The chloroplast genome sequence of Red Fuji was highly conserved. Two indels were detected, but the PI value was 0, and there were no SNP loci. The chloroplast genome variation rate of Red Fuji was low.
背景
富士是一种重要的苹果品种，已经无性繁殖了近一个世纪。中国富士苹果的叶绿体基因组变异尚未得到研究。
方法
本研究采用新一代高通量测序和生物信息学方法，对来自中国九个地区的24个红富士品种的叶绿体基因组进行比较分析。
结果
结果表明，24个叶绿体基因组在基因组大小、结构和组织上高度保守。基因组长度在160,063至160,070 bp之间，GC含量为36.6%。24个叶绿体基因组各编码131个基因，包括84个蛋白质编码基因、37个tRNA基因和8个rRNA基因。重复序列检测结果一致；最常见的序列是正向重复序列（53.1%），最不常见的序列是互补重复序列（4.1%）。红富士的叶绿体基因组序列高度保守。检测到两个插入缺失，但PI值为0，且无SNP位点。红富士的叶绿体基因组变异率较低。
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