High-throughput single nucleotide polymorphism(SNP) arrays have emerged as essential genotyping tools,significantly accelerating breeding programs and advancing basic research.In this study,a high-throughput 10K SNP g...High-throughput single nucleotide polymorphism(SNP) arrays have emerged as essential genotyping tools,significantly accelerating breeding programs and advancing basic research.In this study,a high-throughput 10K SNP genotyping array for wax gourd was developed using genotyping by target sequencing(GBTS),featuring 10,722 SNPs evenly distributed across all 12 chromosomes,including 278 functional loci associated with key economic traits.To demonstrate its utility,genetic distances among 19 elite inbred lines were calculated from SNP data and correlated with heterosis for single fruit weight.The results revealed that greater genetic distance was associated with higher middle parent heterosis(MPH) for single fruit weight.Furthermore,56 commercial wax gourd cultivars collected from eight regions were selected and genotyped.Population structure analysis,phylogenetic analysis,and principal component analysis(PCA) collectively indicated that these cultivars fall into two major groups.Group I,comprising black or dark green skinned wax gourds,exhibited lower genetic diversity than Group II,which includes green or light green skinned varieties,reflecting shorter genetic distances within Group I.Finally,60 polymorphic SNPs were used to construct DNA fingerprints for distinguishing the 56 cultivars.As the first high-throughput genotyping platform for wax gourd,this SNP array provides an effective and powerful tool for genetic analysis.展开更多
Eggplant(Solanum melongena L.)is a globally important vegetable crop,renowned for its nutritional value and economic significance.It is abundant in bioactive compounds such as anthocyanins and chlorogenic acid,which h...Eggplant(Solanum melongena L.)is a globally important vegetable crop,renowned for its nutritional value and economic significance.It is abundant in bioactive compounds such as anthocyanins and chlorogenic acid,which have been associated with multiple health-promoting properties(Azuma et al.,2008;Gurbuz et al.,2018).Given its significant hybrid vigor,F1 hybrid varieties are widely preferred in commercial cultivation(Mistry et al.,2018).However,traditional breeding practices predominantly rely on phenotypic selection,a process that is not only labor-intensive but also time-consuming.展开更多
为更好地保护、开发和利用乌饭树资源,采用基因分型测序(GBS,genotyping by sequencing)技术对采集于5个地区的70份乌饭树野生种质进行了SNP分子标记开发,利用开发的标记研究了乌饭树种质的遗传多样性和群体遗传结构。结果显示,通过测...为更好地保护、开发和利用乌饭树资源,采用基因分型测序(GBS,genotyping by sequencing)技术对采集于5个地区的70份乌饭树野生种质进行了SNP分子标记开发,利用开发的标记研究了乌饭树种质的遗传多样性和群体遗传结构。结果显示,通过测序数据分析共筛选得到9752个高质量SNP标记用于后续研究;乌饭树5个群体均具有丰富的遗传多样性,平均有效等位基因数为1.523,平均期望杂合度为0.219,平均观测杂合度为0.231,其中江苏溧阳群体的遗传多样性最高。分子方差分析显示整个群体的遗传变异主要来自个体间(65.45%)。群体间遗传分化系数显示5个群体间遗传分化程度高,其中江苏溧阳与江西上犹群体间的遗传分化系数最高,为0.406。系统进化树(邻接法)显示乌饭树种质聚类为3个进化分支,种质的聚集与其地理来源无确定性关系;群体结构分析将乌饭树种质分为3个亚群,主成分分析结果与群体结构的结果类似,不同地区的乌饭树种质在3个亚群中均有分布,显示了乌饭树资源存在着广泛的基因交流。本研究可为今后乌饭树良种选育和资源保护提供参考。展开更多
基金supported by the Science and Technology Talent Support Project of Hunan Province,China (2022TJ-N15)the Hunan Agricultural Science and Technology Innovation Fund,China (2024CX90 and 2024CX65)the Science and Technology Innovation Program of Hunan Province,China (2021NK1006)。
文摘High-throughput single nucleotide polymorphism(SNP) arrays have emerged as essential genotyping tools,significantly accelerating breeding programs and advancing basic research.In this study,a high-throughput 10K SNP genotyping array for wax gourd was developed using genotyping by target sequencing(GBTS),featuring 10,722 SNPs evenly distributed across all 12 chromosomes,including 278 functional loci associated with key economic traits.To demonstrate its utility,genetic distances among 19 elite inbred lines were calculated from SNP data and correlated with heterosis for single fruit weight.The results revealed that greater genetic distance was associated with higher middle parent heterosis(MPH) for single fruit weight.Furthermore,56 commercial wax gourd cultivars collected from eight regions were selected and genotyped.Population structure analysis,phylogenetic analysis,and principal component analysis(PCA) collectively indicated that these cultivars fall into two major groups.Group I,comprising black or dark green skinned wax gourds,exhibited lower genetic diversity than Group II,which includes green or light green skinned varieties,reflecting shorter genetic distances within Group I.Finally,60 polymorphic SNPs were used to construct DNA fingerprints for distinguishing the 56 cultivars.As the first high-throughput genotyping platform for wax gourd,this SNP array provides an effective and powerful tool for genetic analysis.
基金supported by Yuelushan Laboratory Breeding Program(Grant No.YLS-2025-ZY02013)The Project of National Key Laboratory for Tropical Crop Breeding(Grant No.NKLTCB202341)+4 种基金The New Variety Breeding Project of the Major Science and Technology Projects of Zhejiang(Grant No.2021C02065-1-3)Hunan Provincial Agricultural Science and Technology Innovation Fund Project(Grant No.2025CX115)Key R&D Projects in Hainan Province(Grant No.ZDYF2023XDNY041)Central Public-interest Scientific Institution Basal Research Fund(Grant No.1630062022003)2024 Sanya Technology Stars Program(Grant No.2024KJFX022).
文摘Eggplant(Solanum melongena L.)is a globally important vegetable crop,renowned for its nutritional value and economic significance.It is abundant in bioactive compounds such as anthocyanins and chlorogenic acid,which have been associated with multiple health-promoting properties(Azuma et al.,2008;Gurbuz et al.,2018).Given its significant hybrid vigor,F1 hybrid varieties are widely preferred in commercial cultivation(Mistry et al.,2018).However,traditional breeding practices predominantly rely on phenotypic selection,a process that is not only labor-intensive but also time-consuming.
文摘为更好地保护、开发和利用乌饭树资源,采用基因分型测序(GBS,genotyping by sequencing)技术对采集于5个地区的70份乌饭树野生种质进行了SNP分子标记开发,利用开发的标记研究了乌饭树种质的遗传多样性和群体遗传结构。结果显示,通过测序数据分析共筛选得到9752个高质量SNP标记用于后续研究;乌饭树5个群体均具有丰富的遗传多样性,平均有效等位基因数为1.523,平均期望杂合度为0.219,平均观测杂合度为0.231,其中江苏溧阳群体的遗传多样性最高。分子方差分析显示整个群体的遗传变异主要来自个体间(65.45%)。群体间遗传分化系数显示5个群体间遗传分化程度高,其中江苏溧阳与江西上犹群体间的遗传分化系数最高,为0.406。系统进化树(邻接法)显示乌饭树种质聚类为3个进化分支,种质的聚集与其地理来源无确定性关系;群体结构分析将乌饭树种质分为3个亚群,主成分分析结果与群体结构的结果类似,不同地区的乌饭树种质在3个亚群中均有分布,显示了乌饭树资源存在着广泛的基因交流。本研究可为今后乌饭树良种选育和资源保护提供参考。
