Curation Guidelines for de novo Generated Transposable Element Families.
Curation Guidelines for de novo Generated Transposable Element Families.
复制标题
从头生成的转座元素家族的管理指南。
DOI：
10.1002/cpz1.154
复制
发表时间：
2021-06
期刊：
影响因子：
--
通讯作者：
Smit, Arian F A
中科院分区：
文献类型：
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作者：
Storer, Jessica M;Hubley, Robert;Rosen, Jeb;Smit, Arian F A
转座因子（TE）具有改变个体基因组景观和塑造其所在物种进化过程的能力。这种深刻的变化可以通过研究生物体的生物学及其宿主TE的相互作用来理解。在广泛的物种中表征和策划TE是这一奋进的基本第一步。该方案采用了在为广泛的生物体开发TE文库时磨练的技术，并具体解决了：（1）将截短的从头结果扩展到全长TE家族，（2）TE多序列比对的迭代改进，（3）使用比对可视化来评估模型完整性和亚家族结构。
Transposable elements (TEs) have the ability to alter individual genomic landscapes and shape the course of evolution for species in which they reside. Such profound changes can be understood by studying the biology of the organism and the interplay of the TEs it hosts. Characterizing and curating TEs across a wide range of species is a fundamental first step in this endeavor. This protocol employs techniques honed while developing TE libraries for a wide range of organisms and specifically addresses: (1) the extension of truncated de novo results into full length TE families, (2) the iterative refinement of TE multiple sequence alignments, (3) the use of alignment visualization to assess model completeness and subfamily structure.