A combined protein toxin screening based on the transcriptome and proteome of Solenopsis invicta.

IF 1.6 3区生物学 Q3 BIOCHEMICAL RESEARCH METHODS

Proteome Science Pub Date : 2022-09-21 DOI:10.1186/s12953-022-00197-z

Liuyang Cai, Fengling Yang, Yongfang Wang, Jishun Yang, Yina Zhu, Xueqi Ma, Juan Höfer, Yichao Wang, Yajun Ma, Liang Xiao

{"title":"A combined protein toxin screening based on the transcriptome and proteome of Solenopsis invicta.","authors":"Liuyang Cai, Fengling Yang, Yongfang Wang, Jishun Yang, Yina Zhu, Xueqi Ma, Juan Höfer, Yichao Wang, Yajun Ma, Liang Xiao","doi":"10.1186/s12953-022-00197-z","DOIUrl":null,"url":null,"abstract":"Background: Multi-omics technology provides a good tool to analyze the protein toxin composition and search for the potential pathogenic factors of Solenopsis invicta, under the great harm of the accelerated invasion in southern China.Methods: Species collection, functional annotation, toxin screening, and 3D modeling construction of three interested toxins were performed based on the successfully constructed transcriptome and proteome of S. invicta.Results: A total of 33,231 unigenes and 721 proteins were obtained from the constructed transcriptome and proteome, of which 9,842 (29.62%) and 4,844 (14.58%) unigenes, as well as 469 (65.05%) and 71 (99.45%) proteins were annotated against the databases of Gene Ontology and Kyoto Encyclopedia of Genes and Genomes, respectively. After comparing with the uniprot toxin database, a total of 316 unigenes and 47 proteins (calglandulin, venom allergen 3, and venom prothrombin activator hopsarin-D, etc.) were successfully screened.Conclusions: The update of annotations at the transcriptome and proteome levels presents a progression in the comprehension of S. invicta in China. We also provide a protein toxin list that could be used for further exploration of toxicity as well as its antagonistic strategy by S. invicta.","PeriodicalId":20857,"journal":{"name":"Proteome Science","volume":" ","pages":"15"},"PeriodicalIF":1.6000,"publicationDate":"2022-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9494847/pdf/","citationCount":"2","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Proteome Science","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1186/s12953-022-00197-z","RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"BIOCHEMICAL RESEARCH METHODS","Score":null,"Total":0}

引用次数: 2

Abstract

Background: Multi-omics technology provides a good tool to analyze the protein toxin composition and search for the potential pathogenic factors of Solenopsis invicta, under the great harm of the accelerated invasion in southern China.

Methods: Species collection, functional annotation, toxin screening, and 3D modeling construction of three interested toxins were performed based on the successfully constructed transcriptome and proteome of S. invicta.

Results: A total of 33,231 unigenes and 721 proteins were obtained from the constructed transcriptome and proteome, of which 9,842 (29.62%) and 4,844 (14.58%) unigenes, as well as 469 (65.05%) and 71 (99.45%) proteins were annotated against the databases of Gene Ontology and Kyoto Encyclopedia of Genes and Genomes, respectively. After comparing with the uniprot toxin database, a total of 316 unigenes and 47 proteins (calglandulin, venom allergen 3, and venom prothrombin activator hopsarin-D, etc.) were successfully screened.

Conclusions: The update of annotations at the transcriptome and proteome levels presents a progression in the comprehension of S. invicta in China. We also provide a protein toxin list that could be used for further exploration of toxicity as well as its antagonistic strategy by S. invicta.

Abstract Image

查看原文本刊更多论文

基于无头螺梭转录组和蛋白质组的联合蛋白毒素筛选。

背景:多组学技术为在华南地区加速入侵的情况下，分析索理opsis invicta的蛋白质毒素组成和寻找潜在致病因素提供了良好的工具。方法:基于成功构建的隐球菌转录组和蛋白质组，对3种感兴趣的毒素进行物种收集、功能注释、毒素筛选和三维建模构建。结果:从构建的转录组和蛋白质组中共获得33231个unigenes和721个蛋白，其中9842个(29.62%)和4844个(14.58%)个unigenes, 469个(65.05%)和71个(99.45%)蛋白分别在Gene Ontology和Kyoto Encyclopedia of Genes and Genomes数据库中被注释。通过与单蛋白毒素数据库的比对，成功筛选出316个单基因和47个蛋白(calglandulin、毒液过敏原3、毒液凝血酶原激活物hopsarin-D等)。结论:在转录组和蛋白质组水平上的注释更新表明对中国隐密叶蝉的理解有了进展。本研究还提供了一份蛋白质毒素清单，可用于进一步探索该菌株的毒性及其拮抗策略。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Proteome Science 生物-生化研究方法

CiteScore

2.90

自引率

0.00%

发文量

审稿时长

4.5 months

期刊介绍： Proteome Science is an open access journal publishing research in the area of systems studies. Proteome Science considers manuscripts based on all aspects of functional and structural proteomics, genomics, metabolomics, systems analysis and metabiome analysis. It encourages the submissions of studies that use large-scale or systems analysis of biomolecules in a cellular, organismal and/or environmental context. Studies that describe novel biological or clinical insights as well as methods-focused studies that describe novel methods for the large-scale study of any and all biomolecules in cells and tissues, such as mass spectrometry, protein and nucleic acid microarrays, genomics, next-generation sequencing and computational algorithms and methods are all within the scope of Proteome Science, as are electron topography, structural methods, proteogenomics, chemical proteomics, stem cell proteomics, organelle proteomics, plant and microbial proteomics. In spite of its name, Proteome Science considers all aspects of large-scale and systems studies because ultimately any mechanism that results in genomic and metabolomic changes will affect or be affected by the proteome. To reflect this intrinsic relationship of biological systems, Proteome Science will consider all such articles.