Characterization and comparative profiling of the small RNA transcriptomes in two phases of locust.


BACKGROUND:All the reports on insect small RNAs come from holometabolous insects whose genome sequence data are available. Therefore, study of hemimetabolous insect small RNAs could provide more insights into evolution and function of small RNAs in insects. The locust is an important, economically harmful hemimetabolous insect. Its phase changes, as a phenotypic plasticity, result from differential gene expression potentially regulated at both the post-transcriptional level, mediated by small RNAs, and the transcriptional level. RESULTS:Here, using high-throughput sequencing, we characterize the small RNA transcriptome in the locust. We identified 50 conserved microRNA families by similarity searching against miRBase, and a maximum of 185 potential locust-specific microRNA family candidates were identified using our newly developed method independent of locust genome sequence. We also demonstrate conservation of microRNA*, and evolutionary analysis of locust microRNAs indicates that the generation of miRNAs in locusts is concentrated along three phylogenetic tree branches: bilaterians, coelomates, and insects. Our study identified thousands of endogenous small interfering RNAs, some of which were of transposon origin, and also detected many Piwi-interacting RNA-like small RNAs. Comparison of small RNA expression patterns of the two phases showed that longer small RNAs were expressed more abundantly in the solitary phase and that each category of small RNAs exhibited different expression profiles between the two phases. CONCLUSIONS:The abundance of small RNAs in the locust might indicate a long evolutionary history of post-transcriptional gene expression regulation, and differential expression of small RNAs between the two phases might further disclose the molecular mechanism of phase changes.


Genome Biol


Genome biology


Wei Y,Chen S,Yang P,Ma Z,Kang L




Has Abstract


2009-01-01 00:00:00














  • Anticipating the 1,000 dollar genome.

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    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Mardis ER

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    authors: Morris DR

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    pub_type: 杂志文章


    authors: Reece-Hoyes JS,Deplancke B,Shingles J,Grove CA,Hope IA,Walhout AJ

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    journal_title:Genome biology



    authors: Reppell M,Koch E,Peter BM,Novembre J

    更新日期:2014-12-17 00:00:00

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    authors: Terrenoire E,McRonald F,Halsall JA,Page P,Illingworth RS,Taylor AM,Davison V,O'Neill LP,Turner BM

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    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Wong S,Fares MA,Zimmermann W,Butler G,Wolfe KH

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    authors: Dobrin R,Zhu J,Molony C,Argman C,Parrish ML,Carlson S,Allan MF,Pomp D,Schadt EE

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    authors: Krakau S,Richard H,Marsico A

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    pub_type: 杂志文章,评审


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    abstract:BACKGROUND:There is tremendous potential for genome sequencing to improve clinical diagnosis and care once it becomes routinely accessible, but this will require formalizing research methods into clinical best practices in the areas of sequence data generation, analysis, interpretation and reporting. The CLARITY Challe...

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    authors: Brownstein CA,Beggs AH,Homer N,Merriman B,Yu TW,Flannery KC,DeChene ET,Towne MC,Savage SK,Price EN,Holm IA,Luquette LJ,Lyon E,Majzoub J,Neupert P,McCallie D Jr,Szolovits P,Willard HF,Mendelsohn NJ,Temme R,Finkel R

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    journal_title:Genome biology

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    authors: Chen L,Zheng S

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    authors: Dalrymple BP,Kirkness EF,Nefedov M,McWilliam S,Ratnakumar A,Barris W,Zhao S,Shetty J,Maddox JF,O'Grady M,Nicholas F,Crawford AM,Smith T,de Jong PJ,McEwan J,Oddy VH,Cockett NE,International Sheep Genomics Consortium.

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    更新日期:2016-10-11 00:00:00

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    journal_title:Genome biology

    pub_type: 杂志文章,评审


    authors: Simpson JC,Pepperkok R

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    journal_title:Genome biology

    pub_type: 杂志文章


    authors: Buljan M,Frankish A,Bateman A

    更新日期:2010-01-01 00:00:00