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一个位于WD40基因内部的微型反向重复转座元件AddIn-MITE在须芒草族禾本科植物中保守存在。

A miniature inverted-repeat transposable element, AddIn-MITE, located inside a WD40 gene is conserved in Andropogoneae grasses.

作者信息

Grativol Clicia, Thiebaut Flavia, Sangi Sara, Montessoro Patricia, Santos Walaci da Silva, Hemerly Adriana S, Ferreira Paulo C G

机构信息

Laboratório de Química e Função de Proteínas e Peptídeos/Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense, Campos dos Goytacazes, Rio de Janeiro, Brazil.

Laboratório de Biologia Molecular de Plantas/Instituto de Bioquímica Médica Leopoldo De Meis, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Rio de Janeiro, Brazil.

出版信息

PeerJ. 2019 Jan 11;7:e6080. doi: 10.7717/peerj.6080. eCollection 2019.

DOI:10.7717/peerj.6080
PMID:30648010
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6331000/
Abstract

Miniature inverted-repeat transposable elements (MITEs) have been associated with genic regions in plant genomes and may play important roles in the regulation of nearby genes via recruitment of small RNAs (sRNA) to the MITEs loci. We identified eight families of MITEs in the sugarcane genome assembly with MITE-Hunter pipeline. These sequences were found to be upstream, downstream or inserted into 67 genic regions in the genome. The position of the most abundant MITE (Stowaway-like) in genic regions, which we call AddIn-MITE, was confirmed in a WD40 gene. The analysis of four monocot species showed conservation of the AddIn-MITE sequence, with a large number of copies in their genomes. We also investigated the conservation of the AddIn-MITE' position in the WD40 genes from sorghum, maize and, in sugarcane cultivars and wild species. In all analyzed plants, AddIn-MITE has located in WD40 intronic region. Furthermore, the role of AddIn-MITE-related sRNA in WD40 genic region was investigated. We found sRNAs preferentially mapped to the AddIn-MITE than to other regions in the WD40 gene in sugarcane. In addition, the analysis of the small RNA distribution patterns in the WD40 gene and the structure of AddIn-MITE, suggests that the MITE region is a proto-miRNA locus in sugarcane. Together, these data provide insights into the AddIn-MITE role in Andropogoneae grasses.

摘要

微型反向重复转座元件（MITEs）与植物基因组中的基因区域相关联，并且可能通过将小RNA（sRNA）募集到MITEs位点来在附近基因的调控中发挥重要作用。我们使用MITE-Hunter管道在甘蔗基因组组装中鉴定出八个MITEs家族。这些序列被发现位于基因组中67个基因区域的上游、下游或插入其中。在一个WD40基因中证实了在基因区域中最丰富的MITE（类Stowaway）的位置，我们将其称为AddIn-MITE。对四个单子叶植物物种的分析表明AddIn-MITE序列具有保守性，在它们的基因组中有大量拷贝。我们还研究了高粱、玉米以及甘蔗栽培品种和野生种中WD40基因中AddIn-MITE位置的保守性。在所有分析的植物中，AddIn-MITE都位于WD40内含子区域。此外，还研究了与AddIn-MITE相关的sRNA在WD40基因区域中的作用。我们发现，在甘蔗中，sRNA优先映射到AddIn-MITE而不是WD40基因中的其他区域。此外，对WD40基因中小RNA分布模式和AddIn-MITE结构的分析表明，MITE区域是甘蔗中的一个原始微小RNA基因座。总之，这些数据为AddIn-MITE在须芒草中的作用提供了见解。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/126d4d7fdd05/peerj-07-6080-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/72fa9323b4e4/peerj-07-6080-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/cade89e234e5/peerj-07-6080-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/c37523e44c33/peerj-07-6080-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/f565239d379c/peerj-07-6080-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/126d4d7fdd05/peerj-07-6080-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/72fa9323b4e4/peerj-07-6080-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/cade89e234e5/peerj-07-6080-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/c37523e44c33/peerj-07-6080-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/f565239d379c/peerj-07-6080-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6139/6331000/126d4d7fdd05/peerj-07-6080-g008.jpg

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