SIRE1, an endogenous retrovirus family from Glycine max, is highly homogeneous and evolutionarily young.
SIRE1, an endogenous retrovirus family from Glycine max, is highly homogeneous and evolutionarily young.
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SIRE1 是来自大豆的内源性逆转录病毒家族，具有高度同质性且进化年轻。
DOI：
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发表时间：
2003
影响因子：
10.7
通讯作者：
D. Voytas
中科院分区：
文献类型：
--
作者：
H. Laten;Ericka R. Havecker;Lisa M. Farmer;D. Voytas
SIRE 1在Ty 1-copia逆转录转座子中是不寻常的，因为它在pol和3' LTR之间具有额外的开放阅读框，其结构特征类似于逆转录病毒包膜蛋白。在这里，我们报告的表征和比较的8个不同的SIRE 1元素来自大豆基因组文库，以及SIRE 1逆转录酶大豆。8个SIRE 1元件的DNA序列是高度同源的，并且共享大于95%的核苷酸同一性。从BAC末端获得的部分序列类似地保守。系统发育分析解决了两个密切相关的SIRE 1谱系，SIRE 1谱系内和之间的核苷酸变化发生了保留功能。gag和env样基因都是在类似的功能限制水平下进化的。在LTR内以及在类核糖体ORF和3' LTR之间的区域中发现了以短重复形式存在的相当大的序列异质性。这些重复表明在复制过程中逆转录酶的滑动。单个插入的LTR之间的序列同一性表明它们在过去7万年内发生了转座。检查了10个SIRE 1插入中的2个与Ty 3-gypsy retroelements相邻。由于大豆基因组含有超过1，000个SIRE 1插入，因此集体数据表明SIRE 1在大豆中经历了非常近期和强大的扩增。
SIRE1 is unusual among Ty1-copia retrotransposons in that it has an additional open reading frame with structural features similar to retroviral envelope proteins between pol and the 3' LTR. Here we report the characterization and comparison of eight different SIRE1 elements derived from a soybean genomic library, as well as SIRE1 reverse transcriptases from Glycine soja. The DNA sequences of the eight SIRE1 elements are highly homogeneous and share greater than 95% nucleotide identity. Partial sequences obtained from BAC ends are similarly conserved. Phylogenetic analyses resolve two closely related SIRE1 lineages, and nucleotide changes within and between SIRE1 lineages have occurred to preserve function. Both the gag and the env-like genes are evolving under similar levels of functional constraint. Considerable sequence heterogeneity in the form of short duplications was found within the LTRs and in the region between the envelope-like ORF and the 3' LTR. These duplications are suggestive of slippage by reverse transcriptase during replication. Sequence identity between LTRs of individual insertions suggests that they transposed within the past 70,000 years. Two of 10 SIRE1 insertions examined abut Ty3-gypsy retroelements. Since the soybean genome harbors more than 1,000 SIRE1 insertions, the collective data suggest that SIRE1 has undergone a very recent and robust amplification in soybean.
DOI：
10.1046/j.1365-313x.1999.00363.x
发表时间：
1999
期刊：
The Plant journal : for cell and molecular biology
影响因子：
--
作者：
S. Yanagisawa;R. Schmidt
通讯作者：
S. Yanagisawa;R. Schmidt
影响因子：
3.3
作者：
R. Nielsen;Ziheng Yang
通讯作者：
R. Nielsen;Ziheng Yang