Identification of suitable internal control genes for gene expression analysis of banana in response to BBTV infection

IF 2.2 Q3 GENETICS & HEREDITY

Plant Gene Pub Date : 2022-12-01 DOI:10.1016/j.plgene.2022.100383

Jen Daine L. Nocum , Anand Noel C. Manohar , Jay-Vee S. Mendoza , Fe M. Dela Cueva , Roanne R. Gardoce , Grace C. Lachica , Darlon V. Lantican

{"title":"Identification of suitable internal control genes for gene expression analysis of banana in response to BBTV infection","authors":"Jen Daine L. Nocum , Anand Noel C. Manohar , Jay-Vee S. Mendoza , Fe M. Dela Cueva , Roanne R. Gardoce , Grace C. Lachica , Darlon V. Lantican","doi":"10.1016/j.plgene.2022.100383","DOIUrl":null,"url":null,"abstract":"<div>Banana is one of the most abundant crops produced annually in the Philippines. The presence of banana bunchy top virus (BBTV) leading to banana bunchy top disease is one of the factors hindering the continuous production of the fruit crop. The use of an appropriate and stable internal control gene as reference in validation of differentially-expressed genes in an organism is important. This study aims to identify appropriate internal control genes for differential gene expression analysis in Musa balbisiana and Musa acuminata specific for BBTV infection. RNA extraction, complementary DNA (cDNA) synthesis and RT-qPCR (quantitative real time polymerase chain reaction) of BBTV-resistant and BBTV-susceptible Musa genotypes were performed. The RT-qPCR quantification data were then subjected to analysis on RefFinder software and geomean ranking values were calculated along with the four statistical algorithms (delta Cq, Genorm, BestKeeper and NormFinder). Based on the comprehensive ranking values in the software, L2 gene was the most suitable internal control gene for the differential expression analysis of both BBTV-resistant and BBTV-susceptible banana accessions. The internal control gene is recommended for the validation of selected candidate resistance and host factor genes in response to BBTV infection.</div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"32 ","pages":"Article 100383"},"PeriodicalIF":2.2000,"publicationDate":"2022-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"2","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Plant Gene","FirstCategoryId":"1085","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S2352407322000336","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"GENETICS & HEREDITY","Score":null,"Total":0}

引用次数: 2

Abstract

Banana is one of the most abundant crops produced annually in the Philippines. The presence of banana bunchy top virus (BBTV) leading to banana bunchy top disease is one of the factors hindering the continuous production of the fruit crop. The use of an appropriate and stable internal control gene as reference in validation of differentially-expressed genes in an organism is important. This study aims to identify appropriate internal control genes for differential gene expression analysis in Musa balbisiana and Musa acuminata specific for BBTV infection. RNA extraction, complementary DNA (cDNA) synthesis and RT-qPCR (quantitative real time polymerase chain reaction) of BBTV-resistant and BBTV-susceptible Musa genotypes were performed. The RT-qPCR quantification data were then subjected to analysis on RefFinder software and geomean ranking values were calculated along with the four statistical algorithms (delta C_q, Genorm, BestKeeper and NormFinder). Based on the comprehensive ranking values in the software, L2 gene was the most suitable internal control gene for the differential expression analysis of both BBTV-resistant and BBTV-susceptible banana accessions. The internal control gene is recommended for the validation of selected candidate resistance and host factor genes in response to BBTV infection.

查看原文本刊更多论文

香蕉抗BBTV感染基因表达分析的内控基因鉴定

香蕉是菲律宾每年产量最高的作物之一。导致香蕉束顶病的香蕉束顶病毒(BBTV)的存在是阻碍水果作物连续生产的因素之一。在验证生物体内差异表达基因时，使用合适且稳定的内控基因作为参考是很重要的。本研究旨在寻找适合于BBTV感染的巴尔比西Musa和尖锐Musa基因差异表达分析的内控基因。采用RNA提取、cDNA合成和RT-qPCR (rt - real time polymerase chain reaction，实时荧光定量聚合酶链反应)对抗性和敏感菌株进行检测。RT-qPCR定量数据在RefFinder软件上进行分析，并使用四种统计算法(delta Cq、Genorm、BestKeeper和NormFinder)计算几何排序值。从软件综合排序值来看，L2基因是最适合进行香蕉抗、感bbtv差异表达分析的内控基因。内控基因被推荐用于对BBTV感染反应的候选抗性和宿主因子基因的验证。

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

Plant Gene Agricultural and Biological Sciences-Plant Science

CiteScore

4.50

自引率

0.00%

发文量

审稿时长

51 days

期刊介绍： Plant Gene publishes papers that focus on the regulation, expression, function and evolution of genes in plants, algae and other photosynthesizing organisms (e.g., cyanobacteria), and plant-associated microorganisms. Plant Gene strives to be a diverse plant journal and topics in multiple fields will be considered for publication. Although not limited to the following, some general topics include: Gene discovery and characterization, Gene regulation in response to environmental stress (e.g., salinity, drought, etc.), Genetic effects of transposable elements, Genetic control of secondary metabolic pathways and metabolic enzymes. Herbal Medicine - regulation and medicinal properties of plant products, Plant hormonal signaling, Plant evolutionary genetics, molecular evolution, population genetics, and phylogenetics, Profiling of plant gene expression and genetic variation, Plant-microbe interactions (e.g., influence of endophytes on gene expression; horizontal gene transfer studies; etc.), Agricultural genetics - biotechnology and crop improvement.