LTRtype, an Efficient Tool to Characterize Structurally Complex LTR Retrotransposons and Nested Insertions on Genomes
文献类型：期刊论文
| 作者 | Zeng, Fan-Chun1; Zhao, You-Jie1; Zhang, Que-Jie2,3; Gao, Li-Zhi1,2
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| 刊名 | FRONTIERS IN PLANT SCIENCE
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| 出版日期 | 2017-04-04 |
| 卷号 | 8 |
| 关键词 | LTRtype LTR retrotransposons nested insertions structural complexity genome evolution |
| 英文摘要 | The amplification and recombination of long terminal repeat (LTR) retrotransposons have proven to determine the size, organization, function, and evolution of most host genomes, especially very large plant genomes. However, the limitation of tools for an efficient discovery of structural complexity of LTR retrotransposons and the nested insertions is a great challenge to confront ever-growing amount of genomic sequences for many organisms. Here we developed a novel software, called as LTRtype, to characterize different types of structurally complex LTR retrotransposon elements as well as nested events. This system is capable of rapidly scanning large-scale genomic sequences and appropriately characterizing the five complex types of LTR retrotransposon elements. After testing on the Arabidopsis thaliana genome, we found that this program is able to properly annotate a large number of structurally complex elements as well as the nested insertions. Thus, LTRtype can be employed as an automatic and efficient tool that will help to reconstruct the evolutionary history of LTR retrotransposons and better understand the evolution of host genomes. LTRtype is publicly available at: http://www.plantkingdomgdb.com/LTRtype/index.html. |
| 类目[WOS] | Plant Sciences |
| 研究领域[WOS] | Plant Sciences |
| 关键词[WOS] | DE-NOVO IDENTIFICATION ; TRANSPOSABLE ELEMENTS ; ARABIDOPSIS-THALIANA ; REPETITIVE ELEMENTS ; EUKARYOTIC GENOMES ; FLOWERING PLANTS ; EVOLUTION ; CLASSIFICATION ; SEQUENCE ; RICE |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000398178100001 |
| 源URL | [http://ir.kib.ac.cn/handle/151853/51052]  |
| 专题 | 昆明植物研究所_中国西南野生生物种质资源库 |
| 作者单位 | 1.South China Agr Univ, Inst Genom & Bioinformat, Guangzhou, Peoples R China 2.Chinese Acad Sci, Kunming Inst Bot, Plant Germplasm & Genom Ctr, Kunming, Peoples R China 3.Guangdong Acad Agr Sci, Agro biol Gene Res Ctr, Guangzhou, Peoples R China |
| 推荐引用方式 GB/T 7714 | Zeng, Fan-Chun,Zhao, You-Jie,Zhang, Que-Jie,et al. LTRtype, an Efficient Tool to Characterize Structurally Complex LTR Retrotransposons and Nested Insertions on Genomes[J]. FRONTIERS IN PLANT SCIENCE,2017,8. |
| APA | Zeng, Fan-Chun,Zhao, You-Jie,Zhang, Que-Jie,&Gao, Li-Zhi.(2017).LTRtype, an Efficient Tool to Characterize Structurally Complex LTR Retrotransposons and Nested Insertions on Genomes.FRONTIERS IN PLANT SCIENCE,8. |
| MLA | Zeng, Fan-Chun,et al."LTRtype, an Efficient Tool to Characterize Structurally Complex LTR Retrotransposons and Nested Insertions on Genomes".FRONTIERS IN PLANT SCIENCE 8(2017). |
入库方式： OAI收割
来源：昆明植物研究所
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