laboratory animal science ›› 2016, Vol. 33 ›› Issue (03): 13-19.
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基金资助:
<p>基金项目: 国家科技支撑计划项目( No. 2014BAI01B01) ; 云南省联合支持国家计划项目( No. 2015GA009)</p>
Abstract: Abstract: SNP markers were developed from the transcriptome of tree shrew ( Tupaiabelangeri) abdominal adipose tissues among 6 different normal healthy tree shrews. After detecting 274 278 568 unigenes ( 43 138 415 bp) ,a total of 263 071 SNPs were identified in 262 980 unigenes ( 5. 75%) with the frequency of 1 /164bp, including transition 177 562 and transversion 85 509. A/G and C /T are the main types,accounting for 33. 85% and 33. 66% of all the SNPs, respectively. All the 262 980 SNP of all the unigenes were functionally annotated using the GenBankNrdatabas,geneontology ( GO) ,clusters of orthologous groups ( COG) and KEGG pathways. There are 1 178 SNPs annotated by GO,77 SNPs annotated by COG and 1 080 annotated by KEGG,which may link with the key genes of adipose formation and metabolism in adipose tissue,were obtained.
Key words: <p>Tree shrew, transcriptome, Single nueleotide polymorphism( SNP), functional annotation</p>
摘要: 摘要: 从正常笼养树鼩腹部的脂肪转录组数据开发SNP 分子标记。检测了6 只动物共计274 278 568 条unigene( 总长度43 138 417 bp) 序列信息后,在262 980 条unigene( 5. 75%) 中发现SNP 位点263 071 个,SNP 发生频率为1 /164 bp,其中转换( transition) 177 562 个,颠换( transversion) 85 509 个。在所有变异类型中,A/G 和C/T 发生频率最高,分别达33. 85%和33. 66%。将包含SNP 位点的262 980 条unigene 通过参比序列进行注释,并对其进行GO分类、COG 分类注释和代谢通路注释( KEGGpathway) ,结合已有研究,分别筛选到1 187 个有GO 注释、77 个有COG注释和1 080 条个有KEGG 通路注释的脂肪转录组中的可能与脂肪形成和代谢有关的SNP 标记。
关键词: <, p>, 树鼩, 转录组, 单核苷酸多态性, 功能注释<, /p>
CLC Number:
Q95 - 33
罕园园, 孙晓梅, 匡德宣, 陆彩霞, 仝品芬, 王文广, 李娜, 余波, 代解杰. 树鼩脂肪转录组SNP 位点发掘及其功能注释[J]. 实验动物科学, 2016, 33(03): 13-19.
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