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首页> 外文期刊>Genomics Insights >SNP Marker Discovery in Pima Cotton (Gossypium barbadense L.) Leaf Transcriptomes:
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SNP Marker Discovery in Pima Cotton (Gossypium barbadense L.) Leaf Transcriptomes:

机译：皮马棉（Gossypium barbadense L.）叶转录组中的SNP标记发现：

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The objective of this study was to explore the known narrow genetic diversity and discover single-nucleotide polymorphic (SNP) markers for marker-assisted breeding within Pima cotton (Gossypium barbadense L.) leaf transcriptomes. cDNA from 25-day plants of three diverse cotton genotypes [Pima S6 (PS6), Pima S7 (PS7), and Pima 3-79 (P3-79)] was sequenced on Illumina sequencing platform. A total of 28.9 million reads (average read length of 138 bp) were generated by sequencing cDNA libraries of these three genotypes. The de novo assembly of reads generated transcriptome sets of 26,369 contigs for PS6, 25,870 contigs for PS7, and 24,796 contigs for P3-79. A Pima leaf reference transcriptome was generated consisting of 42,695 contigs. More than 10,000 single-nucleotide polymorphisms (SNPs) were identified between the genotypes, with 100% SNP frequency and a minimum of eight sequencing reads. The most prevalent SNP substitutions were C–-T and A–-G in these cotton genotypes. The putative SNPs identified can be utilized for characterizing genetic diversity, genotyping, and eventually in Pima cotton breeding through marker-assisted selection.
机译：这项研究的目的是探索已知的狭窄遗传多样性，并发现单核苷酸多态性（SNP）标记，以在皮马棉（Gossypium barbadense L.）叶转录组内进行标记辅助育种。在Illumina测序平台上对来自三种棉花基因型[Pima S6（PS6），Pima S7（PS7）和Pima 3-79（P3-79）]的25天植物的cDNA进行了测序。通过对这三种基因型的cDNA文库进行测序，共产生了2890万条读数（平均阅读长度为138 bp）。读数的从头组装产生了转录组，其中PS6为26,369个重叠群，PS7为25,870个重叠群，P3-79为24,796个重叠群。产生了由42,695个重叠群组成的Pima叶参考转录组。在基因型之间鉴定出超过10,000个单核苷酸多态性（SNP），SNP频率为100％，最少有8个测序读数。在这些棉花基因型中，最普遍的SNP取代是C–T和A–G。鉴定出的推定的SNP可用于表征遗传多样性，基因分型，并最终通过标记辅助选择在皮马棉育种中使用。

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