Characteristics and Phylogenetic Analysis of Chloroplast Genome of Medicago varia

doi:10.11733/j.issn.1007-0435.2023.06.008

Acta Agrestia Sinica ›› 2023, Vol. 31 ›› Issue (6): 1665-1672.DOI: 10.11733/j.issn.1007-0435.2023.06.008

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Characteristics and Phylogenetic Analysis of Chloroplast Genome of Medicago varia

HAO Xin-yan¹, ZHAO Shu-wen¹, LIU Jia-wei¹, SHI Rui², WANG Xiao-long³, LI Ying⁴, WANG Xiao-yu¹, MI Fu-gui¹

1. Inner Mongolia Agricultural University College of Grassland and Resource Environment, Hohhot, Inner Mongolia 010010, China;
2. Baotou Medical College, Baotou, Inner Mongolia 014040, China;
3. Branch of Animal Husbandry and Veterinary of Heilongjiang Academy of Agricultural Sciences, Qiqihar, Heilongjiang Province 161005, China;
4. Alxa Institute of Forestry and Grassland, Alxa, Inner Mongolia 750306, China

Received:2022-12-07 Revised:2023-01-30 Online:2023-06-15 Published:2023-06-30

杂花苜蓿叶绿体基因组特征及系统发育分析

郝新艳¹, 赵淑文¹, 刘嘉伟¹, 石蕊², 王晓龙³, 李迎⁴, 王晓宇¹, 米福贵¹

1. 内蒙古农业大学草原与资源环境学院/草地资源教育部重点实验室, 内蒙古呼和浩特 010010;
2. 内蒙古包头医学院, 内蒙古包头 014040;
3. 黑龙江省农业科学院畜牧兽医分院, 黑龙江齐齐哈尔 161005;
4. 阿拉善盟林业草原研究所, 内蒙古阿拉善 750306

通讯作者: 米福贵,E-mail:mfguinm@163.com
作者简介:郝新艳(1995-)，女，汉族，河北张家口人，硕士研究生，主要从事牧草种质资源与育种研究，E-mail：haoxinyan0310@163.com
基金资助:
科技部中欧政府间科技合作重点专项(2017YFE0111000)资助

Abstract

Abstract: In this study,the chloroplast genome sequence of Medicago varia 'Caoyuan No.3’ was analyzed,assembled and annotated by the second-generation high-throughput sequencing technology to explore the phylogenetic position and molecular relationship of M. varia with its related other species. The results showed that the total length of the chloroplast genome of M. varia was 125 317 bp,which had a typical tetrad structure. There was no deletion of IR region,and the GC content was 33.87 % in that genome. That chloroplast genome encodes a total of 106 genes,including 54 protein-coding genes,involving 36 498 codons. It was that 88 SSR loci of 3 different types were unevenly distributed;from which 79,7 and 2 SSR loci located in LSC,SSC and IR respectively. The collinearity analysis on seven species in the alfalfa genus showed that the rearrangement of chloroplast genome of M. varia was much profound. Phylogenetic analysis showed that the relationship between M.sativa and M. varia was closer than that with other species. The results of this study could provide a reference or basis for further study on the genetic variation,specific gene unearthing and variety breeding and improvement of Medicago spp.

Key words: Medicago varia, Chloroplast genome, High-throughput sequencing, Phylogeny

摘要： 本研究以'草原3号’杂花苜蓿(Medicago varia 'Caoyuan No.3’)为材料，采用第二代高通量测序技术，对叶绿体基因组序列进行分析、组装及注释，以探究杂花苜蓿在系统发育中的位置及在分子水平上与其近缘物种的关系。结果表明：杂花苜蓿绿体基因组全长125 317 bp，为典型四分体结构，不存在IR区缺失的情况，GC含量为33.87%。叶绿体基因组共编码106个基因，其中蛋白质编码基因54个，涉及36 498个密码子。3种不同类型的88个SSR位点分布不均衡，在LSC，SSC，IR区域的SSR数量各自为79，7和2个。对苜蓿属7个植物进行共线性分析发现其重排现象严重。系统发育分析发现杂花苜蓿与紫花苜蓿的亲缘关系最近。本研究可为苜蓿属植物遗传变异、特异基因挖掘以及品种选育改良等研究提供参考。

关键词: 杂花苜蓿, 叶绿体基因组, 高通量测序, 系统发育

CLC Number:

S732

HAO Xin-yan, ZHAO Shu-wen, LIU Jia-wei, SHI Rui, WANG Xiao-long, LI Ying, WANG Xiao-yu, MI Fu-gui. Characteristics and Phylogenetic Analysis of Chloroplast Genome of Medicago varia[J]. Acta Agrestia Sinica, 2023, 31(6): 1665-1672.

郝新艳, 赵淑文, 刘嘉伟, 石蕊, 王晓龙, 李迎, 王晓宇, 米福贵. 杂花苜蓿叶绿体基因组特征及系统发育分析[J]. 草地学报, 2023, 31(6): 1665-1672.

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Characteristics and Phylogenetic Analysis of Chloroplast Genome of Medicago varia

杂花苜蓿叶绿体基因组特征及系统发育分析

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