Genetic Diversity and Population Structure of Cannabis Based on the Genome-Wide Development of Simple Sequence Repeat Markers.
Genetic Diversity and Population Structure of Cannabis Based on the Genome-Wide Development of Simple Sequence Repeat Markers.
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基于简单序列重复标记的全基因组开发的大麻遗传多样性和种群结构
DOI：
10.3389/fgene.2020.00958
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发表时间：
2020
影响因子：
3.7
通讯作者：
Li D
中科院分区：
文献类型：
--
作者：
Zhang J;Yan J;Huang S;Pan G;Chang L;Li J;Zhang C;Tang H;Chen A;Peng D;Biswas A;Zhang C;Zhao L;Li D
大麻被用作营养、药物和纤维的来源。然而，由于缺乏基因组简单重复序列（SSR）标记，限制了大麻属植物的遗传研究。本研究共鉴定出92，409个基序，开发了63，707对互补SSR引物。最丰富的SSR基序有6个重复单元（36.60%）。最丰富的基序类型是二核苷酸（70.90%），其次是三核苷酸，四核苷酸和五核苷酸。随机选取80对SSR标记，其中69对（86.25%）扩增成功，59对（73.75%）具有多态性。使用59个（72个位点）验证的多态性SSR和3个表型标记的遗传多样性和群体结构进行了估计。共检测到310个等位基因，主效基因频率为0.26 ~ 0.85（平均0.56），Nei's遗传多样性为0.28 ~ 0.82（平均0.56），期望杂合度为0.28 ~ 0.81（平均0.56）。多态信息含量为0.25 ~ 0.79（平均0.50），观察到的等位基因数为2 ~ 8（平均4.13），有效等位基因数为0.28 ~ 0.81（平均0.5）。通过无限等位基因模型分析后，大麻种群未显示突变-漂移平衡。采用基于遗传距离的算术平均值，采用未加权对组法进行聚类分析。利用种群结构分析将该种群分为两个亚群。这些结果为大麻的分子育种和深入研究提供了指导。
Cannabis has been used as a source of nutrition, medicine, and fiber. However, lack of genomic simple sequence repeat (SSR) markers had limited the genetic research on Cannabis species. In the present study, 92,409 motifs were identified, and 63,707 complementary SSR primer pairs were developed. The most abundant SSR motifs had six repeat units (36.60%). The most abundant type of motif was dinucleotides (70.90%), followed by trinucleotides, tetranucleotides, and pentanucleotides. We randomly selected 80 pairs of genomic SSR markers, of which 69 (86.25%) were amplified successfully; 59 (73.75%) of these were polymorphic. Genetic diversity and population structure were estimated using the 59 (72 loci) validated polymorphic SSRs and three phenotypic markers. Three hundred ten alleles were identified, and the major allele frequency ranged from 0.26 to 0.85 (average: 0.56), Nei’s genetic diversity ranged from 0.28 to 0.82 (average: 0.56), and the expected heterozygosity ranged from 0.28 to 0.81 (average: 0.56). The polymorphism information content ranged from 0.25 to 0.79 (average: 0.50), the observed number of alleles ranged from 2 to 8 (average: 4.13), and the effective number of alleles ranged from 0.28 to 0.81 (average: 0.5). The Cannabis population did not show mutation-drift equilibrium following analysis via the infinite allele model. A cluster analysis was performed using the unweighted pair group method using arithmetic means based on genetic distances. Population structure analysis was used to divide the germplasms into two subgroups. These results provide guidance for the molecular breeding and further investigation of Cannabis.
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影响因子：
4.9
作者：
Hufbauer, RA;Bogdanowicz, SM;Harrison, RG
通讯作者：
Harrison, RG
影响因子：
--
作者：
Jannatdoust, M.;Darvishzadeh, R.;Hatamnia, A. A.
通讯作者：
Hatamnia, A. A.
影响因子：
5.4
作者：
Mandolino, G;Carboni, A;Ranalli, P
通讯作者：
Ranalli, P
影响因子：
7
作者：
Laverty KU;Stout JM;Sullivan MJ;Shah H;Gill N;Holbrook L;Deikus G;Sebra R;Hughes TR;Page JE;van Bakel H
通讯作者：
van Bakel H
影响因子：
3.7
作者：
Chen, Chen;Chen, Youjun;Wu, Wei
通讯作者：
Wu, Wei