Identification of a dominant housekeeping genes to normalize mRNA level in dioecious Palmyra palm

IF 0.2 Q4 Biochemistry, Genetics and Molecular Biology
Soorya Suchilkumar, Sukumaran Swapna Thacheril, Siju Senan, Kalluvettankuzhy Krishnan Nair Sabu
{"title":"Identification of a dominant housekeeping genes to normalize mRNA level in dioecious Palmyra palm","authors":"Soorya Suchilkumar, Sukumaran Swapna Thacheril, Siju Senan, Kalluvettankuzhy Krishnan Nair Sabu","doi":"10.25303/1901rjbt01021","DOIUrl":null,"url":null,"abstract":"A stable housekeeping gene is required for precise and consistent qPCR data analysis. Palmyra palm is an important tropical dioecious tree crop with diverse uses. However, no reliable gene expression studies or housekeeping gene standardization have been documented, which limit crop improvement and utilization. In this work, four frequently used statistical tools such as RefFinder, NormFinder, Delta CT method and BestKeeper were applied to evaluate the constancy and fluctuation in expression of a chosen 10 internal control genes such as NADH dehydrogenase subunit 5-like (NAD5), β-actin, ACTIN CRD, alpha-tubulin, UBCE, EIF, EF2, AP1, GAPDH and UBQ2 in both vegetative and reproductive tissues of dioecious Palmyra palm. Six flower tissues and two leaf tissues from male and female palms were used in this study. The findings indicated that NAD5-2 is the most reliable and constant housekeeping gene expressed during Palmyra palm flower development. The AGAMOUS and SEEDSTICK genes expression pattern in the flower development were used to validate the normalized expression of the four housekeeping genes that were chosen in order to further support the stability of those genes. Our results will be useful for further research on gene transcription level in Palmyra palms and also the above mentioned tool is very useful for the normalization of housekeeping genes of biological samples with different experimental conditions.","PeriodicalId":21091,"journal":{"name":"Research Journal of Biotechnology","volume":"149 ","pages":""},"PeriodicalIF":0.2000,"publicationDate":"2023-12-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Research Journal of Biotechnology","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.25303/1901rjbt01021","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"Biochemistry, Genetics and Molecular Biology","Score":null,"Total":0}
引用次数: 0

Abstract

A stable housekeeping gene is required for precise and consistent qPCR data analysis. Palmyra palm is an important tropical dioecious tree crop with diverse uses. However, no reliable gene expression studies or housekeeping gene standardization have been documented, which limit crop improvement and utilization. In this work, four frequently used statistical tools such as RefFinder, NormFinder, Delta CT method and BestKeeper were applied to evaluate the constancy and fluctuation in expression of a chosen 10 internal control genes such as NADH dehydrogenase subunit 5-like (NAD5), β-actin, ACTIN CRD, alpha-tubulin, UBCE, EIF, EF2, AP1, GAPDH and UBQ2 in both vegetative and reproductive tissues of dioecious Palmyra palm. Six flower tissues and two leaf tissues from male and female palms were used in this study. The findings indicated that NAD5-2 is the most reliable and constant housekeeping gene expressed during Palmyra palm flower development. The AGAMOUS and SEEDSTICK genes expression pattern in the flower development were used to validate the normalized expression of the four housekeeping genes that were chosen in order to further support the stability of those genes. Our results will be useful for further research on gene transcription level in Palmyra palms and also the above mentioned tool is very useful for the normalization of housekeeping genes of biological samples with different experimental conditions.
鉴定雌雄异株棕榈 mRNA 水平正常化的显性看家基因
要进行精确一致的 qPCR 数据分析,需要一个稳定的看家基因。棕榈是一种重要的热带雌雄异株乔木作物,具有多种用途。然而,目前还没有可靠的基因表达研究或看家基因标准化的记录,这限制了作物的改良和利用。本研究应用 RefFinder、NormFinder、Delta CT 法和 BestKeeper 等四种常用统计工具,对棕榈雌雄异株植物组织和生殖组织中 10 个内控基因(如 NADH 脱氢酶亚基 5-like(NAD5)、β-肌动蛋白、ACTIN CRD、α-tubulin、UBCE、EIF、EF2、AP1、GAPDH 和 UBQ2)表达的恒定性和波动性进行了评估。本研究使用了雌雄棕榈树的六个花组织和两个叶组织。研究结果表明,NAD5-2 是棕榈花发育过程中表达最可靠、最稳定的看家基因。花发育过程中 AGAMOUS 和 SEEDSTICK 基因的表达模式被用来验证所选的四个看家基因的归一化表达,以进一步支持这些基因的稳定性。我们的研究结果将有助于对棕榈树基因转录水平的进一步研究,而且上述工具对不同实验条件下生物样本看家基因的归一化也非常有用。
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
Research Journal of Biotechnology
Research Journal of Biotechnology 工程技术-生物工程与应用微生物
CiteScore
0.60
自引率
0.00%
发文量
192
审稿时长
1.5 months
期刊介绍: We invite you to contribute Research Papers / Short Communications / Review Papers: -In any field of Biotechnology, Biochemistry, Microbiology and Industrial Microbiology, Soil Technology, Agriculture Biotechnology. -in any field related to Food Biotechnology, Nutrition Biotechnology, Genetic Engineering and Commercial Biotechnology. -in any field of Biotechnology related to Drugs and Pharmaceutical products for human beings, animals and plants. -in any field related to Environmental Biotechnolgy, Waste Treatment of Liquids, Soilds and Gases; Sustainability. -in inter-realted field of Chemical Sciences, Biological Sciences, Environmental Sciences and Life Sciences. -in any field related to Biotechnological Engineering, Industrial Biotechnology and Instrumentation. -in any field related to Nano-technology. -in any field related to Plant Biotechnology.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信