Arid
DOI10.3390/ijms17071110
De Novo Assembly and Characterization of the Transcriptome of Grasshopper Shirakiacris shirakii
Qiu, Zhongying1; Liu, Fei1,2; Lu, Huimeng3; Yuan, Hao1; Zhang, Qin1; Huang, Yuan1
通讯作者Huang, Yuan
来源期刊INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
ISSN1422-0067
出版年2016
卷号17期号:7
英文摘要

Background: The grasshopper Shirakiacris shirakii is an important agricultural pest and feeds mainly on gramineous plants, thereby causing economic damage to a wide range of crops. However, genomic information on this species is extremely limited thus far, and transcriptome data relevant to insecticide resistance and pest control are also not available. Methods: The transcriptome of S. shirakii was sequenced using the Illumina HiSeq platform, and we de novo assembled the transcriptome. Results: Its sequencing produced a total of 105,408,878 clean reads, and the de novo assembly revealed 74,657 unigenes with an average length of 680 bp and N50 of 1057 bp. A total of 28,173 unigenes were annotated for the NCBI non-redundant protein sequences (Nr), NCBI non-redundant nucleotide sequences (Nt), a manually-annotated and reviewed protein sequence database (Swiss-Prot), Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases. Based on the Nr annotation results, we manually identified 79 unigenes encoding cytochrome P450 monooxygenases (P450s), 36 unigenes encoding carboxylesterases (CarEs) and 36 unigenes encoding glutathione S-transferases (GSTs) in S. shirakii. Core RNAi components relevant to miroRNA, siRNA and piRNA pathways, including Pasha, Loquacious, Argonaute-1, Argonaute-2, Argonaute-3, Zucchini, Aubergine, enhanced RNAi-1 and Piwi, were expressed in S. shirakii. We also identified five unigenes that were homologous to the Sid-1 gene. In addition, the analysis of differential gene expressions revealed that a total of 19,764 unigenes were up-regulated and 4185 unigenes were down-regulated in larvae. In total, we predicted 7504 simple sequence repeats (SSRs) from 74,657 unigenes. Conclusions: The comprehensive de novo transcriptomic data of S. shirakii will offer a series of valuable molecular resources for better studying insecticide resistance, RNAi and molecular marker discovery in the transcriptome.


英文关键词Shirakiacris shirakii transcriptome insecticide resistance RNAi differentially-expressed unigenes (DEUs)
类型Article
语种英语
国家Peoples R China
收录类别SCI-E
WOS记录号WOS:000381500900124
WOS关键词RNA INTERFERENCE ; HELICOVERPA-ARMIGERA ; SCHISTOCERCA-GREGARIA ; FUNCTIONAL GENOMICS ; LOCUSTA-MIGRATORIA ; DESERT LOCUST ; SYSTEMIC RNAI ; GENE ; ANNOTATION ; SEQ
WOS类目Biochemistry & Molecular Biology ; Chemistry, Multidisciplinary
WOS研究方向Biochemistry & Molecular Biology ; Chemistry
资源类型期刊论文
条目标识符http://119.78.100.177/qdio/handle/2XILL650/193762
作者单位1.Shaanxi Normal Univ, Coll Life Sci, Xian 710062, Peoples R China;
2.Shaanxi Xueqian Normal Univ, Coll Life Sci & Food Engn, Xian 710061, Peoples R China;
3.Northwestern Polytech Univ, Key Lab Space Biosci & Biotechnol, Sch Life Sci, Xian 710072, Peoples R China
推荐引用方式
GB/T 7714
Qiu, Zhongying,Liu, Fei,Lu, Huimeng,et al. De Novo Assembly and Characterization of the Transcriptome of Grasshopper Shirakiacris shirakii[J],2016,17(7).
APA Qiu, Zhongying,Liu, Fei,Lu, Huimeng,Yuan, Hao,Zhang, Qin,&Huang, Yuan.(2016).De Novo Assembly and Characterization of the Transcriptome of Grasshopper Shirakiacris shirakii.INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES,17(7).
MLA Qiu, Zhongying,et al."De Novo Assembly and Characterization of the Transcriptome of Grasshopper Shirakiacris shirakii".INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 17.7(2016).
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