Definition and variation of human endogenous retrovirus H
Definition and variation of human endogenous retrovirus H
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DOI：
10.1016/j.virol.2004.06.023
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发表时间：
2004-09-13
期刊：
影响因子：
3.7
通讯作者：
Blomberg, J
中科院分区：
文献类型：
--
作者：
Jern, P;Sperber, GO;Blomberg, J
我们定义了丰富的人类内源性逆转录病毒组HERV-H的基础上，polsimilarity。在3661个含有pol的元件中，使用翻译的pol序列，1124个整合与HERV-H RGH 2 pol相似。聚类程序减少到234个代表，适合详细研究。在1124个中，926个聚集成HERV-H，106个聚集成邻近的HERV-H样，其余的与HERV-H更远。HERV-H组又分为RTVLH 2样（705个元件）和RGH 2样（77个元件）两个亚组。在926个HERV-H中，LTR差异为1- 33%，10%具有env，78%具有gag，66%具有组氨酸引物结合位点（PBS），3%（两个亚组）具有苯丙氨酸PBS。等位基因的差异，em，研究了使用方便的温度梯度凝胶电泳（TGGE）方法和基因组单核苷酸多态性（SNP）的搜索。一种有缺陷的元素丰富而缺陷较少的元素较少的模式使我们形成了一个“助产士”主模型，在这个模型中，更完整的元素帮助其他反式元素进行换位。(C)2004年爱思唯尔公司All rights reserved.
We defined the abundant human endogenous retrovirus group HERV-H based on pol similarity. Among 3661 pol-containing elements, 1124 integrations were similar to HERV-H RGH2 pol using translated pol sequences. A clustering procedure lessened these to 234 representatives, amenable to detailed study. Among the 1124, 926 clustered into HERV-H and 106 into adjacent HERV-H-like, the remainder being more distant to HERV-H. The HERV-H group was divided into RTVLH2-like (705 elements) and RGH2-like (77 elements) subgroups. Among 926 HERV-H, LTR differences were 1-33%, 10% had env, 78% had gag, 66% had a histidine primer binding site (PBS), and 3% (both subgroups) had a phenylalanine PBS. Allelic differences in em, were studied using a convenient temperature gradient gel electrophoresis (TGGE) method and a genomic single nucleotide polymorphism (SNP) search. A pattern of abundant defective elements and less abundant less defective ones led us to formulate a "midwife" master model where more complete elements help the others in trans to transpose. (C) 2004 Elsevier Inc. All rights reserved.