Transcriptomic dataset of Phaseolus vulgaris leaves in response to the inoculation of pathogenic Xanthomonas citri pv. fuscans and its type III secretion system-defective mutant hrcV

IF 1 Q3 MULTIDISCIPLINARY SCIENCES

Data in Brief Pub Date : 2024-09-21 DOI:10.1016/j.dib.2024.110938

Christopher Gihaut , Chrystelle Brin , Martial Briand , Jérôme Verdier , Matthieu Barret , Thomas Roitsch , Tristan Boureau

{"title":"Transcriptomic dataset of Phaseolus vulgaris leaves in response to the inoculation of pathogenic Xanthomonas citri pv. fuscans and its type III secretion system-defective mutant hrcV","authors":"Christopher Gihaut , Chrystelle Brin , Martial Briand , Jérôme Verdier , Matthieu Barret , Thomas Roitsch , Tristan Boureau","doi":"10.1016/j.dib.2024.110938","DOIUrl":null,"url":null,"abstract":"<div><div><em>Xanthomonas citri</em> pv. <em>fuscans</em> (<em>Xcf</em>) and <em>Xanthomonas phaseoli</em> pv. <em>phaseoli</em> (<em>Xpp</em>) are responsible for the Common Bacterial Blight (CBB), a major common bean (<em>Phaseolus vulgaris</em>) disease. The pathogenicity of <em>Xcf</em> and <em>Xpp</em> is known to be dependent upon a functional Type III Secretion System (T3SS) allowing the injection of numerous bacterial Type III Effectors (T3Es) into plant cells. T3Es have been described as able to disrupt plant defence and manipulate plant metabolism.</div><div>In this work we described the transcriptomic response of one susceptible (Flavert) and one resistant (Vezer) cultivars of <em>P. vulgaris</em> to the inoculation of the virulent strain <em>Xcf</em> CFBP4885 or its avirulent T3SS-defective <em>hrcV</em> mutant (CFBP13802).</div><div>Leaves of both bean cultivars were infiltrated with water or bacterial suspensions. Inoculated leaves were sampled at 24 or 48 h post inoculation (hpi). The experiment was independently repeated three times for total RNA extraction and sequencing analysis. Library construction and total RNA sequencing were performed with BGISEQ-500 at Beijing Genomics Institute (BGI, Hong-Kong), generating an average of 24M of paired-end reads of 100bp per sample. FastQC was used to check reads quality. Mapping analyses were made using a quasi-mapping alignment from Salmon (version 1.2.1) against the <em>Phaseolus vulgaris</em> reference genome (version 2.1), revealing the expression profiles of 36,978 transcripts in leaf tissues.</div><div>Fastq raw data and count files from 36 samples are available in the Gene Expression Omnibus (GEO) repository of the National Center for Biotechnology Information (NCBI) under the accession number GSE271236.</div><div>This dataset is a valuable resource to investigate the role of T3Es in subverting the cellular functions of bean.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":null,"pages":null},"PeriodicalIF":1.0000,"publicationDate":"2024-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Data in Brief","FirstCategoryId":"1085","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S2352340924009016","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"MULTIDISCIPLINARY SCIENCES","Score":null,"Total":0}

引用次数: 0

Abstract

Xanthomonas citri pv. fuscans (Xcf) and Xanthomonas phaseoli pv. phaseoli (Xpp) are responsible for the Common Bacterial Blight (CBB), a major common bean (Phaseolus vulgaris) disease. The pathogenicity of Xcf and Xpp is known to be dependent upon a functional Type III Secretion System (T3SS) allowing the injection of numerous bacterial Type III Effectors (T3Es) into plant cells. T3Es have been described as able to disrupt plant defence and manipulate plant metabolism.

In this work we described the transcriptomic response of one susceptible (Flavert) and one resistant (Vezer) cultivars of P. vulgaris to the inoculation of the virulent strain Xcf CFBP4885 or its avirulent T3SS-defective hrcV mutant (CFBP13802).

Leaves of both bean cultivars were infiltrated with water or bacterial suspensions. Inoculated leaves were sampled at 24 or 48 h post inoculation (hpi). The experiment was independently repeated three times for total RNA extraction and sequencing analysis. Library construction and total RNA sequencing were performed with BGISEQ-500 at Beijing Genomics Institute (BGI, Hong-Kong), generating an average of 24M of paired-end reads of 100bp per sample. FastQC was used to check reads quality. Mapping analyses were made using a quasi-mapping alignment from Salmon (version 1.2.1) against the Phaseolus vulgaris reference genome (version 2.1), revealing the expression profiles of 36,978 transcripts in leaf tissues.

Fastq raw data and count files from 36 samples are available in the Gene Expression Omnibus (GEO) repository of the National Center for Biotechnology Information (NCBI) under the accession number GSE271236.

This dataset is a valuable resource to investigate the role of T3Es in subverting the cellular functions of bean.

查看原文本刊更多论文

普通相思豆叶片对病原性柠檬黄单胞菌 pv. fuscans 及其 III 型分泌系统缺陷突变体 hrcV 接种反应的转录组数据集

柠檬黄单胞菌（Xanthomonas citri pv. fuscans，Xcf）和相思豆黄单胞菌（Xanthomonas phaseoli pv. phaseoli，Xpp）是普通细菌性疫病（CBB）的致病菌，CBB是一种主要的普通豆类（Phaseolus vulgaris）病害。已知 Xcf 和 Xpp 的致病性取决于功能性 III 型分泌系统（T3SS），该系统允许将大量细菌 III 型效应物（T3Es）注入植物细胞。在这项工作中，我们描述了一种易感性（Flavert）和一种抗性（Vezer）豆角菌栽培品种对接种毒力菌株 Xcf CFBP4885 或其无毒 T3SS 缺陷 hrcV 突变体（CFBP13802）的转录组反应。在接种后 24 或 48 小时（hpi）对接种叶片进行取样。实验独立重复三次，进行总 RNA 提取和测序分析。文库构建和总 RNA 测序由北京基因组研究所（BGI，香港）的 BGISEQ-500 进行，平均每个样本产生 24M 个 100bp 的成对末端读数。使用 FastQC 检查读数质量。利用 Salmon（1.2.1 版）与 Phaseolus vulgaris 参考基因组（2.1 版）的准映射比对进行了映射分析，揭示了叶组织中 36,978 个转录本的表达谱。36 个样本的 Fastq 原始数据和计数文件可在美国国家生物技术信息中心（NCBI）的基因表达总库（GEO）中找到，登录号为 GSE271236。

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

Data in Brief MULTIDISCIPLINARY SCIENCES-

CiteScore

3.10

自引率

0.00%

发文量

996

审稿时长

70 days

期刊介绍： Data in Brief provides a way for researchers to easily share and reuse each other''s datasets by publishing data articles that: -Thoroughly describe your data, facilitating reproducibility. -Make your data, which is often buried in supplementary material, easier to find. -Increase traffic towards associated research articles and data, leading to more citations. -Open up doors for new collaborations. Because you never know what data will be useful to someone else, Data in Brief welcomes submissions that describe data from all research areas.