The inference of genome ancestry and the estimation of molecular relatedness are of great importance for breeding efficiency and association studies. Seventy SSR loci, evenly distributed in 10 chromosomes, were assaye...The inference of genome ancestry and the estimation of molecular relatedness are of great importance for breeding efficiency and association studies. Seventy SSR loci, evenly distributed in 10 chromosomes, were assayed for polymorphism among 187 commonly used maize （Zea mays L.） inbreds which represent the genetic diversity in China. The identified 290 alleles served as raw data for estimating population structure using the coalescent linked loci, based on the ADMIXTURE model. Population number, K, has been inferred to be between five and seven. Specifying five subpopulations （K = 5） led to a distinct decrease and specifying K to be greater than six resulted in only minimal increases in the likelihood value. Therefore, population number, K, has been inferred into six subpopulations, which are PA, BSSS （includes Reid）, PB, Lan （Lancaster Sure Crop）, LRC （Luda Reb Cob, a Chinese landrace, and its derivatives）, and SPT （Si-ping-tou, a Chinese landrace and its derivatives）. The Kullback-Leibler distance of pairwise subpopulation was also inferred as n × p （187 ×6） Q matrices, which gave a detailed percentage of genetic composition of six subpopulations and molecular relatedness of each line. The genome-wide linkage disequilibrium （LD） indicated that the asso- ciation studies in QTLs and/or candidate genes might avoid nonfunctional and spurious associations, as most of the LD blocks were broken among diverse germplasm. The defined population structure has given us a clear genetic structure of these lines for breeding practice and established a good basis for association analysis.展开更多
【目的】分析山西谷子地方品种遗传多样性和群体遗传结构,筛选与谷子农艺性状相关联的分子标记,为谷子杂交组合亲本选配及分子标记辅助育种提供依据。【方法】利用96对SSR标记对595份山西谷子核心资源进行全基因组扫描,采用PowerMarker ...【目的】分析山西谷子地方品种遗传多样性和群体遗传结构,筛选与谷子农艺性状相关联的分子标记,为谷子杂交组合亲本选配及分子标记辅助育种提供依据。【方法】利用96对SSR标记对595份山西谷子核心资源进行全基因组扫描,采用PowerMarker 3.25软件分析群体遗传多样性,利用STRUCTURE 2.3.4软件分析群体遗传结构,使用TASSEL 2.1软件中GLM(general linear model,Q)和MLM(mixed linear model,Q+K)2种方法,进行表型和标记关联分析。【结果】96对SSR引物共扩增出828个等位变异,平均每对引物扩增到8.6个,变化范围为2—26;基因多样性指数变化范围为0.005—0.941,平均为0.610;多态信息量变化范围为0.005—0.938,平均为0.577;各位点杂合度变化范围为0—0.050,平均位点杂合度仅为0.016。群体结构分析将595份核心资源分为3个亚群。4560个SSR位点成对组合中,共线性组合和非共线性组合之间都存在一定的连锁不平衡。D′统计概率(P<0.01)支持的LD成对位点1955个,占全部位点组合的42.9%,D′平均值为0.23。通过GLM方法共检测到12个极显著性位点(P<0.01),表型变异解释率为2.34%—13.94%,平均为6.33%,贡献率较高的等位变异位点是CAAS2050(R2=13.94%)和B153(R2=11.36%);通过MLM方法共检测到9个极显著性位点(P<0.01),表型变异解释率为2.80%—9.22%,平均为5.16%,贡献率较高的等位变异位点是P89(R2=9.22%)和P3*(R2=8.28%);2种方法共同检测到的极显著性位点有7个。【结论】利用SSR标记分析了595份山西谷子核心资源的遗传多样性和群体遗传结构。2种关联分析模型中,GLM方法关联到12个标记与节数、株高、颈长、茎粗、穗长、穗粗、码数、码粒数、蛋白质含量9个性状相关;MLM方法关联到9个标记与节数、颈长、叶宽、茎粗、穗粗、码数、码粒数、千粒重8个性状相关。展开更多
本文主要总结斑点鲶鱼基因组学研究的最新动态。斑点鲶鱼和蓝色鲶鱼是杂交可育的两个近缘种 ,这一杂交体系不仅为数量性状的表型带来最大的变异 ,同时也为基因型的多样性提供了最大的可能性。利用 AF L P、RAPD、微卫星顺序标记、EST以...本文主要总结斑点鲶鱼基因组学研究的最新动态。斑点鲶鱼和蓝色鲶鱼是杂交可育的两个近缘种 ,这一杂交体系不仅为数量性状的表型带来最大的变异 ,同时也为基因型的多样性提供了最大的可能性。利用 AF L P、RAPD、微卫星顺序标记、EST以及 DNA单体多样性标记 ,以建立遗传连锁图。旨在克隆抗病基因、生长基因、抗逆基因、以及控制食物转化率、产肉率、收获率数量性状的基因。另外还对于适合于鲶鱼基因组研究的 DN A指纹技术进行了评估。并通过极端表型、基因型的分析鉴定出了与生长速度、食物转化率及抗病性有连锁的遗传标记。使用基因型分析、辐射细胞溶合及 BA C基因库 ,以建立斑点鲶鱼的遗传连锁图及物理图 ,并用基因薄膜技术、基因芯片技术 。展开更多
Using 219 F2 Individuals developed by crossing the genetic standard line TM-1 and the multiple dominant marker line T586 In Gossyplum hirsutum L., a genetic linkage map with 19 linkage groups was constructed based on ...Using 219 F2 Individuals developed by crossing the genetic standard line TM-1 and the multiple dominant marker line T586 In Gossyplum hirsutum L., a genetic linkage map with 19 linkage groups was constructed based on simple sequence repeat （SSR） markers. Compared with our tetraploid backboned molecular genetic map from a （TM-1xHal 7124）xTM-1 BC1 population, 17 of the 19 I｜nkage groups were combined and anchored to 12 chromosomes （sub-genomes）. Of these groups, four morphological marker genes In T586 had been mapped Into the molecular linkage map. Meanwhile, three quantitative trait loci for lint percentage were tagged and mapped separately on the A03 linkage group and chromosome 6.展开更多
文摘The inference of genome ancestry and the estimation of molecular relatedness are of great importance for breeding efficiency and association studies. Seventy SSR loci, evenly distributed in 10 chromosomes, were assayed for polymorphism among 187 commonly used maize （Zea mays L.） inbreds which represent the genetic diversity in China. The identified 290 alleles served as raw data for estimating population structure using the coalescent linked loci, based on the ADMIXTURE model. Population number, K, has been inferred to be between five and seven. Specifying five subpopulations （K = 5） led to a distinct decrease and specifying K to be greater than six resulted in only minimal increases in the likelihood value. Therefore, population number, K, has been inferred into six subpopulations, which are PA, BSSS （includes Reid）, PB, Lan （Lancaster Sure Crop）, LRC （Luda Reb Cob, a Chinese landrace, and its derivatives）, and SPT （Si-ping-tou, a Chinese landrace and its derivatives）. The Kullback-Leibler distance of pairwise subpopulation was also inferred as n × p （187 ×6） Q matrices, which gave a detailed percentage of genetic composition of six subpopulations and molecular relatedness of each line. The genome-wide linkage disequilibrium （LD） indicated that the asso- ciation studies in QTLs and/or candidate genes might avoid nonfunctional and spurious associations, as most of the LD blocks were broken among diverse germplasm. The defined population structure has given us a clear genetic structure of these lines for breeding practice and established a good basis for association analysis.
文摘【目的】分析山西谷子地方品种遗传多样性和群体遗传结构,筛选与谷子农艺性状相关联的分子标记,为谷子杂交组合亲本选配及分子标记辅助育种提供依据。【方法】利用96对SSR标记对595份山西谷子核心资源进行全基因组扫描,采用PowerMarker 3.25软件分析群体遗传多样性,利用STRUCTURE 2.3.4软件分析群体遗传结构,使用TASSEL 2.1软件中GLM(general linear model,Q)和MLM(mixed linear model,Q+K)2种方法,进行表型和标记关联分析。【结果】96对SSR引物共扩增出828个等位变异,平均每对引物扩增到8.6个,变化范围为2—26;基因多样性指数变化范围为0.005—0.941,平均为0.610;多态信息量变化范围为0.005—0.938,平均为0.577;各位点杂合度变化范围为0—0.050,平均位点杂合度仅为0.016。群体结构分析将595份核心资源分为3个亚群。4560个SSR位点成对组合中,共线性组合和非共线性组合之间都存在一定的连锁不平衡。D′统计概率(P<0.01)支持的LD成对位点1955个,占全部位点组合的42.9%,D′平均值为0.23。通过GLM方法共检测到12个极显著性位点(P<0.01),表型变异解释率为2.34%—13.94%,平均为6.33%,贡献率较高的等位变异位点是CAAS2050(R2=13.94%)和B153(R2=11.36%);通过MLM方法共检测到9个极显著性位点(P<0.01),表型变异解释率为2.80%—9.22%,平均为5.16%,贡献率较高的等位变异位点是P89(R2=9.22%)和P3*(R2=8.28%);2种方法共同检测到的极显著性位点有7个。【结论】利用SSR标记分析了595份山西谷子核心资源的遗传多样性和群体遗传结构。2种关联分析模型中,GLM方法关联到12个标记与节数、株高、颈长、茎粗、穗长、穗粗、码数、码粒数、蛋白质含量9个性状相关;MLM方法关联到9个标记与节数、颈长、叶宽、茎粗、穗粗、码数、码粒数、千粒重8个性状相关。
文摘本文主要总结斑点鲶鱼基因组学研究的最新动态。斑点鲶鱼和蓝色鲶鱼是杂交可育的两个近缘种 ,这一杂交体系不仅为数量性状的表型带来最大的变异 ,同时也为基因型的多样性提供了最大的可能性。利用 AF L P、RAPD、微卫星顺序标记、EST以及 DNA单体多样性标记 ,以建立遗传连锁图。旨在克隆抗病基因、生长基因、抗逆基因、以及控制食物转化率、产肉率、收获率数量性状的基因。另外还对于适合于鲶鱼基因组研究的 DN A指纹技术进行了评估。并通过极端表型、基因型的分析鉴定出了与生长速度、食物转化率及抗病性有连锁的遗传标记。使用基因型分析、辐射细胞溶合及 BA C基因库 ,以建立斑点鲶鱼的遗传连锁图及物理图 ,并用基因薄膜技术、基因芯片技术 。
基金Supported by the Hi-Tech Research and Development （863） Program of China （2004AA211172）, the Program for Changjiang Scholars and Innovative Research Team in University of the Ministry of Education （IRT0432） and the National Natural Science Foundation of China （30070483 and 30270806）.
文摘Using 219 F2 Individuals developed by crossing the genetic standard line TM-1 and the multiple dominant marker line T586 In Gossyplum hirsutum L., a genetic linkage map with 19 linkage groups was constructed based on simple sequence repeat （SSR） markers. Compared with our tetraploid backboned molecular genetic map from a （TM-1xHal 7124）xTM-1 BC1 population, 17 of the 19 I｜nkage groups were combined and anchored to 12 chromosomes （sub-genomes）. Of these groups, four morphological marker genes In T586 had been mapped Into the molecular linkage map. Meanwhile, three quantitative trait loci for lint percentage were tagged and mapped separately on the A03 linkage group and chromosome 6.
