Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.

<h4>Background</h4>Retroelements can successfully colonize eukaryotic genome through RNA-mediated transposition, and are considered to be some of the major mediators of genome size. The migratory locust Locusta migratoria is an insect with a large genome size, and its genome is probably...

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Autores principales:	Feng Jiang, Meiling Yang, Wei Guo, Xianhui Wang, Le Kang
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/a19aef101d774382aea32294f073c250
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spelling	oai:doaj.org-article:a19aef101d774382aea32294f073c2502021-11-18T07:13:09ZLarge-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.1932-620310.1371/journal.pone.0040532https://doaj.org/article/a19aef101d774382aea32294f073c2502012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22792363/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Retroelements can successfully colonize eukaryotic genome through RNA-mediated transposition, and are considered to be some of the major mediators of genome size. The migratory locust Locusta migratoria is an insect with a large genome size, and its genome is probably subject to the proliferation of retroelements. An analysis of deep-sequencing transcriptome data will elucidate the structure, diversity and expression characteristics of retroelements.<h4>Results</h4>We performed a de novo assembly from deep sequencing RNA-seq data and identified 105 retroelements in the locust transcriptome. Phylogenetic analysis of reverse transcriptase sequences revealed 1 copia, 1 BEL, 8 gypsy and 23 non-long terminal repeat (LTR) retroelements in the locust transcriptome. A novel approach was developed to identify full-length LTR retroelements. A total of 5 full-length LTR retroelements and 2 full-length non-LTR retroelements that contained complete structures for retrotransposition were identified. Structural analysis indicated that all these retroelements may have been activated or deprived of retrotransposition activities very recently. Expression profiling analysis revealed that the retroelements exhibited a unique expression pattern at the egg stage and showed differential expression profiles between the solitarious and gregarious phases at the fifth instar and adult stage.<h4>Conclusion</h4>We hereby present the first de novo transcriptome analysis of retroelements in a species whose genome is not available. This work contributes to a comprehensive understanding of the landscape of retroelements in the locust transcriptome. More importantly, the results reveal that non-LTR retroelements are abundant and diverse in the locust transcriptome.Feng JiangMeiling YangWei GuoXianhui WangLe KangPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 7, p e40532 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Feng Jiang Meiling Yang Wei Guo Xianhui Wang Le Kang Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.
description	<h4>Background</h4>Retroelements can successfully colonize eukaryotic genome through RNA-mediated transposition, and are considered to be some of the major mediators of genome size. The migratory locust Locusta migratoria is an insect with a large genome size, and its genome is probably subject to the proliferation of retroelements. An analysis of deep-sequencing transcriptome data will elucidate the structure, diversity and expression characteristics of retroelements.<h4>Results</h4>We performed a de novo assembly from deep sequencing RNA-seq data and identified 105 retroelements in the locust transcriptome. Phylogenetic analysis of reverse transcriptase sequences revealed 1 copia, 1 BEL, 8 gypsy and 23 non-long terminal repeat (LTR) retroelements in the locust transcriptome. A novel approach was developed to identify full-length LTR retroelements. A total of 5 full-length LTR retroelements and 2 full-length non-LTR retroelements that contained complete structures for retrotransposition were identified. Structural analysis indicated that all these retroelements may have been activated or deprived of retrotransposition activities very recently. Expression profiling analysis revealed that the retroelements exhibited a unique expression pattern at the egg stage and showed differential expression profiles between the solitarious and gregarious phases at the fifth instar and adult stage.<h4>Conclusion</h4>We hereby present the first de novo transcriptome analysis of retroelements in a species whose genome is not available. This work contributes to a comprehensive understanding of the landscape of retroelements in the locust transcriptome. More importantly, the results reveal that non-LTR retroelements are abundant and diverse in the locust transcriptome.
format	article
author	Feng Jiang Meiling Yang Wei Guo Xianhui Wang Le Kang
author_facet	Feng Jiang Meiling Yang Wei Guo Xianhui Wang Le Kang
author_sort	Feng Jiang
title	Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.
title_short	Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.
title_full	Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.
title_fullStr	Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.
title_full_unstemmed	Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.
title_sort	large-scale transcriptome analysis of retroelements in the migratory locust, locusta migratoria.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/a19aef101d774382aea32294f073c250
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Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.

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