• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利：CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法，用中文像聊天一样搜索，搜遍4000万医学文献。AI智能推荐，让科研检索更轻松。

立即免费搜索

文件翻译

保留排版，准确专业，支持PDF/Word/PPT等文件格式，支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述，25分钟生成高质量综述，智能提取关键信息，辅助科研写作。

立即免费体验

大规模转录组分析迁移性蝗虫中的反转录元件。

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

机构信息

State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.

出版信息

PLoS One. 2012;7(7):e40532. doi: 10.1371/journal.pone.0040532. Epub 2012 Jul 6.

DOI:10.1371/journal.pone.0040532
PMID:22792363
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC3391268/
Abstract

BACKGROUND

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.

RESULTS

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.

CONCLUSION

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.

摘要

背景

逆转录元件可通过 RNA 介导的转座成功殖民真核基因组，被认为是基因组大小的主要介导者之一。 迁飞蝗是一种基因组较大的昆虫，其基因组可能受到逆转录元件的增殖影响。 对深度测序转录组数据的分析将阐明逆转录元件的结构、多样性和表达特征。

结果

我们对深度测序 RNA-seq 数据进行从头组装，在蝗转录组中鉴定出 105 个逆转录元件。 逆转录酶序列的系统发育分析显示，蝗转录组中存在 1 个 copia、1 个 BEL、8 个 gypsy 和 23 个非长末端重复（LTR）逆转录元件。 我们开发了一种新方法来鉴定全长 LTR 逆转录元件。 总共鉴定出 5 个全长 LTR 逆转录元件和 2 个全长非 LTR 逆转录元件，它们包含完整的逆转录转座活性结构。 结构分析表明，所有这些逆转录元件可能最近已经被激活或失去了逆转录转座活性。 表达谱分析表明，这些逆转录元件在卵期表现出独特的表达模式，并且在 5 龄期和成虫期的独居和群居阶段表现出不同的表达谱。

结论

我们在此介绍了首个缺乏基因组信息的物种中的逆转录元件的从头转录组分析。 这项工作有助于全面了解蝗转录组中逆转录元件的景观。 更重要的是，结果表明非 LTR 逆转录元件在蝗转录组中丰富多样。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/82c53d0533af/pone.0040532.g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/7aaca94abacc/pone.0040532.g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/f95a9b45487c/pone.0040532.g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/23417dbf30cf/pone.0040532.g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/44f295a5441a/pone.0040532.g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/75d42bf7ad3f/pone.0040532.g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/56f7b27addff/pone.0040532.g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/d9658cb800d7/pone.0040532.g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/82c53d0533af/pone.0040532.g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/7aaca94abacc/pone.0040532.g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/f95a9b45487c/pone.0040532.g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/23417dbf30cf/pone.0040532.g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/44f295a5441a/pone.0040532.g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/75d42bf7ad3f/pone.0040532.g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/56f7b27addff/pone.0040532.g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/d9658cb800d7/pone.0040532.g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/58c3/3391268/82c53d0533af/pone.0040532.g008.jpg

相似文献

1
Large-scale transcriptome analysis of retroelements in the migratory locust, Locusta migratoria.大规模转录组分析迁移性蝗虫中的反转录元件。
PLoS One. 2012;7(7):e40532. doi: 10.1371/journal.pone.0040532. Epub 2012 Jul 6.
2
Transcriptome-wide survey, gene expression profiling and exogenous chemical-induced transcriptional responses of cytochrome P450 superfamily genes in migratory locust (Locusta migratoria).飞蝗（Locusta migratoria）细胞色素P450超家族基因的全转录组调查、基因表达谱分析及外源化学物质诱导的转录反应
Insect Biochem Mol Biol. 2018 Sep;100:66-77. doi: 10.1016/j.ibmb.2018.06.006. Epub 2018 Jun 28.
3
Diversity, distribution and dynamics of full-length Copia and Gypsy LTR retroelements in Solanum lycopersicum.番茄中全长Copia和Gypsy LTR反转录转座子的多样性、分布及动态变化
Genetica. 2017 Oct;145(4-5):417-430. doi: 10.1007/s10709-017-9977-7. Epub 2017 Aug 3.
4
Identification of representative genes of the central nervous system of the locust, Locusta migratoria manilensis by deep sequencing.利用深度测序鉴定东亚飞蝗中枢神经系统的代表性基因。
J Insect Sci. 2012;12:86. doi: 10.1673/031.012.8601.
5
Comparative transcriptomic analysis of immune responses of the migratory locust, Locusta migratoria, to challenge by the fungal insect pathogen, Metarhizium acridum.飞蝗（Locusta migratoria）对真菌昆虫病原体绿僵菌（Metarhizium acridum）攻击的免疫反应的比较转录组分析。
BMC Genomics. 2015 Oct 26;16:867. doi: 10.1186/s12864-015-2089-9.
6
De novo transcriptome analysis of wing development-related signaling pathways in Locusta migratoria manilensis and Ostrinia furnacalis (Guenée).东亚飞蝗和亚洲玉米螟（Guenée）翅膀发育相关信号通路的从头转录组分析
PLoS One. 2014 Sep 10;9(9):e106770. doi: 10.1371/journal.pone.0106770. eCollection 2014.
7
Network dynamics of eukaryotic LTR retroelements beyond phylogenetic trees.真核 LTR 反转录元件的系统发生树之外的网络动态。
Biol Direct. 2009 Nov 2;4:41. doi: 10.1186/1745-6150-4-41.
8
Mollusc genomes reveal variability in patterns of LTR-retrotransposons dynamics.软体动物基因组揭示了 LTR 反转录转座子动态模式的可变性。
BMC Genomics. 2018 Nov 15;19(1):821. doi: 10.1186/s12864-018-5200-1.
9
LTR retroelements are intrinsic components of transcriptional networks in frogs.长末端重复序列逆转录元件是青蛙转录网络的内在组成部分。
BMC Genomics. 2014 Jul 23;15:626. doi: 10.1186/1471-2164-15-626.
10
Large-scale transcriptome data reveals transcriptional activity of fission yeast LTR retrotransposons.大规模转录组数据揭示了裂殖酵母 LTR 反转录转座子的转录活性。
BMC Genomics. 2010 Mar 12;11:167. doi: 10.1186/1471-2164-11-167.

引用本文的文献

1
Transcriptomic and proteomic analysis of resistance to matrine in (Orthoptera: Oedipodidae).（直翅目：斑翅蝗科）对苦参碱抗性的转录组学和蛋白质组学分析
Heliyon. 2024 Sep 20;10(19):e38096. doi: 10.1016/j.heliyon.2024.e38096. eCollection 2024 Oct 15.
2
An expanded odorant-binding protein mediates host cue detection in the parasitic wasp Baryscapus dioryctriae basis of the chromosome-level genome assembly analysis.基于染色体水平基因组组装分析，扩展的气味结合蛋白介导了寄生蜂 Baryscapus dioryctriae 对宿主线索的检测。
BMC Biol. 2024 Sep 11;22(1):196. doi: 10.1186/s12915-024-01998-8.
3
Dynamic Evolution of Repetitive Elements and Chromatin States in Subspecies.

本文引用的文献

1
Evidence for widespread genomic methylation in the migratory locust, Locusta migratoria (Orthoptera: Acrididae).证据表明，在迁徙蝗虫（直翅目：蝗科）中存在广泛的基因组甲基化。
PLoS One. 2011;6(12):e28167. doi: 10.1371/journal.pone.0028167. Epub 2011 Dec 5.
2
A guided tour of large genome size in animals: what we know and where we are heading.动物基因组大小的探索之旅：我们所知与所往。
Chromosome Res. 2011 Oct;19(7):925-38. doi: 10.1007/s10577-011-9248-x.
3
Polyphenism in insects.昆虫的多态现象。
亚种中重复元件和染色质状态的动态演化。
Genes (Basel). 2024 Jan 11;15(1):89. doi: 10.3390/genes15010089.
4
Annotation of transposable elements in the transcriptome of the Neotropical brown stink bug Euschistus heros and its chromosomal distribution.转座元件在新热带棕色臭虫 Euschistus heros 转录组中的注释及其染色体分布。
Mol Genet Genomics. 2023 Nov;298(6):1377-1388. doi: 10.1007/s00438-023-02063-9. Epub 2023 Aug 30.
5
Developmental Transcriptome Analysis of Red-Spotted Apollo Butterfly, .红斑点阿波罗蝶发育转录组分析。
Int J Mol Sci. 2022 Sep 29;23(19):11533. doi: 10.3390/ijms231911533.
6
A transcriptomic atlas underlying developmental plasticity of seasonal forms of Bicyclus anynana butterflies.一种揭示鞍带蛱蝶季节性形态发育可塑性的转录组图谱。
Mol Biol Evol. 2022 Jun 9;39(6). doi: 10.1093/molbev/msac126.
7
A element contributes to the nuclear retention and transcriptional regulation of the resident lncRNA in locusts.一个元素有助于驻留 lncRNA 在蝗虫中的核保留和转录调控。
RNA Biol. 2022;19(1):206-220. doi: 10.1080/15476286.2021.2024032. Epub 2021 Dec 31.
8
Improved draft reference genome for the Glassy-winged Sharpshooter (Homalodisca vitripennis), a vector for Pierce's disease.改良的玻璃翅实蝇（Homalodisca vitripennis）参考基因组草案，该实蝇是皮尔斯病的传播媒介。
G3 (Bethesda). 2021 Sep 27;11(10). doi: 10.1093/g3journal/jkab255.
9
Comparative analysis of phenotypic plasticity sheds light on the evolution and molecular underpinnings of locust phase polyphenism.表型可塑性的比较分析揭示了蝗虫相位多态性的进化和分子基础。
Sci Rep. 2021 Jun 7;11(1):11925. doi: 10.1038/s41598-021-91317-w.
10
Crowdsourced Identification of Potential Target Genes for CTV Induced Gene Silencing for Controlling the Citrus Greening Vector .通过众包方式鉴定可用于控制柑橘黄龙病传播媒介的CTV诱导基因沉默的潜在靶基因
Front Physiol. 2021 Apr 9;12:571826. doi: 10.3389/fphys.2021.571826. eCollection 2021.
Curr Biol. 2011 Sep 27;21(18):R738-49. doi: 10.1016/j.cub.2011.06.006.
4
Dynamic interactions between transposable elements and their hosts.转座元件与其宿主之间的动态相互作用。
Nat Rev Genet. 2011 Aug 18;12(9):615-27. doi: 10.1038/nrg3030.
5
Expression of transposable elements in neural tissues during Xenopus development.在非洲爪蟾发育过程中神经组织中转座元件的表达。
PLoS One. 2011;6(7):e22569. doi: 10.1371/journal.pone.0022569. Epub 2011 Jul 26.
6
DNA methylation in insects: on the brink of the epigenomic era.昆虫中的 DNA 甲基化：处于表观基因组学时代的边缘。
Insect Mol Biol. 2011 Oct;20(5):553-65. doi: 10.1111/j.1365-2583.2011.01092.x. Epub 2011 Jun 24.
7
Novel transposable elements from Anopheles gambiae.冈比亚按蚊的新型转座元件。
BMC Genomics. 2011 May 23;12:260. doi: 10.1186/1471-2164-12-260.
8
HMMER web server: interactive sequence similarity searching.HMMER 网页服务器：交互式序列相似性搜索。
Nucleic Acids Res. 2011 Jul;39(Web Server issue):W29-37. doi: 10.1093/nar/gkr367. Epub 2011 May 18.
9
Modulation of behavioral phase changes of the migratory locust by the catecholamine metabolic pathway.通过儿茶酚胺代谢途径调节迁飞蝗的行为相位变化。
Proc Natl Acad Sci U S A. 2011 Mar 8;108(10):3882-7. doi: 10.1073/pnas.1015098108. Epub 2011 Feb 15.
10
CSP and takeout genes modulate the switch between attraction and repulsion during behavioral phase change in the migratory locust.CSP 和外卖基因调节行为相转变期间在迁徙蝗中的吸引和排斥之间的切换。
PLoS Genet. 2011 Feb 3;7(2):e1001291. doi: 10.1371/journal.pgen.1001291.