南京林业大学学报(自然科学版) ›› 2014, Vol. 38 ›› Issue (01): 9-14.doi: 10.3969/j.issn.1000-2006.2014.01.002
徐 阳,陈金慧,李 亚,洪 舟,王 颖,赵亚琦,王新民,施季森*
出版日期:
2014-01-15
发布日期:
2014-01-15
基金资助:
XU Yang, CHEN Jinhui, LI Ya, HONG Zhou, WANG Ying, ZHAO Yaqi, WANG Xinmin, SHI Jisen*
Online:
2014-01-15
Published:
2014-01-15
摘要: 利用已经公布的杉木444条EST序列和未公布的杉木基因组文库中1 142条基因序列,进行引物开发效率的比较。去冗余后,利用MISA 搜索SSR 位点,分别得到109个和39个含有SSR的 位点。杉木EST序列中SSR分布密度为964.58个/Mbp,基因组中平均每Mbp出现1 037.24个SSR。在两个独立来源的数据库序列中,六核苷酸重复均为最多的重复类型,且AT-rich的重复类型占较大比例。AGC/CTG是杉木EST序列和基因组库中最多的三碱基重复,通过Primer 3.0分别设计出SSR引物95对和37对。为考察设计引物在杉木不同种源(群体)中的有效性,取12个种源(个体)的优良个体, 利用随机抽取的10个EST-SSR和8个gSSR(基因组SSR)进行引物筛选,结果表明:EST-SSR和gSSR各有4对引物在12个种源(个体)中表现出明显的多态性,多态率分别为40%和50%。8对多态性的SSR引物共扩增出 25 个多态性等位位点,平均每个引物产生 3.125 个多态性等位位点,平均有效的等位位点为2.399 5,PIC平均值为0.519 1; Hot平均为0.307 4。其中gSSR标记在检测群体间存在较大的分化,4个gSSR比4个EST-SSR扩增出更多的等位位点数、平均等位位点数,以及更大的PIC值。
中图分类号:
徐阳,陈金慧,李亚,等. 杉木EST-SSR与基因组SSR引物开发[J]. 南京林业大学学报(自然科学版), 2014, 38(01): 9-14.
XU Yang, CHEN Jinhui, LI Ya, HONG Zhou, WANG Ying, ZHAO Yaqi, WANG Xinmin, SHI Jisen. Development of EST-SSR and genomic-SSR in Chinese fir[J].Journal of Nanjing Forestry University (Natural Science Edition), 2014, 38(01): 9-14.DOI: 10.3969/j.issn.1000-2006.2014.01.002.
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