Luo C, Zhang Q L, Luo Z R
Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China.
Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
Genet Mol Res. 2014 Apr 16;13(2):3013-24. doi: 10.4238/2014.April.16.10.
Oriental persimmon (Diospyros kaki Thunb.) (2n = 6x = 90) is a major commercial and deciduous fruit tree that is believed to have originated in China. However, rare transcriptomic and genomic information on persimmon is available. Using Roche 454 sequencing technology, the transcriptome from RNA of the flowers of D. kaki was analyzed. A total of 1,250,893 reads were generated and 83,898 unigenes were assembled. A total of 42,711 SSR loci were identified from 23,494 unigenes and 289 polymerase chain reaction primer pairs were designed. Of these 289 primers, 155 (53.6%) showed robust PCR amplification and 98 revealed polymorphism between 15 persimmon genotypes, indicating a polymorphic rate of 63.23% of the productive primers for characterization and genotyping of the genus Diospyros. Transcriptome sequence data generated from next-generation sequencing technology to identify microsatellite loci appears to be rapid and cost-efficient, particularly for species with no genomic sequence information available.
东方柿（柿树，柿科柿属，2n = 6x = 90）是一种主要的商业落叶果树，据信原产于中国。然而，关于柿的转录组和基因组信息却很少。利用罗氏454测序技术，对柿树花的RNA转录组进行了分析。共产生了1,250,893条读数，并组装了83,898个单基因。从23,494个单基因中鉴定出42,711个简单序列重复（SSR）位点，并设计了289对聚合酶链反应引物。在这289对引物中，155对（53.6%）显示出强劲的聚合酶链反应扩增，98对在15个柿基因型之间表现出多态性，表明用于柿属植物鉴定和基因分型的有效引物的多态率为63.23%。利用下一代测序技术生成转录组序列数据以识别微卫星位点似乎既快速又经济高效，特别是对于没有可用基因组序列信息的物种。
