Transcriptome-based selection and validation of optimal house-keeping genes for skin research in goats (Capra hircus).

BMC Genomics
Jipan ZhangYong-Ju Zhao

Abstract

In quantitative real-time polymerase chain reaction (qRT-PCR) experiments, accurate and reliable target gene expression results are dependent on optimal amplification of house-keeping genes (HKGs). RNA-seq technology offers a novel approach to detect new HKGs with improved stability. Goat (Capra hircus) is an economically important livestock species and plays an indispensable role in the world animal fiber and meat industry. Unfortunately, uniform and reliable HKGs for skin research have not been identified in goat. Therefore, this study seeks to identify a set of stable HKGs for the skin tissue of C. hircus using high-throughput sequencing technology. Based on the transcriptome dataset of 39 goat skin tissue samples, 8 genes (SRP68, NCBP3, RRAGA, EIF4H, CTBP2, PTPRA, CNBP, and EEF2) with relatively stable expression levels were identified and selected as new candidate HKGs. Commonly used HKGs including SDHA and YWHAZ from a previous study, and 2 conventional genes (ACTB and GAPDH) were also examined. Four different experimental variables: (1) different development stages, (2) hair follicle cycle stages, (3) breeds, and (4) sampling sites were used for determination and validation. Four algorithms (geNorm, NormFinder, BestKeepe...Continue Reading

References

Apr 9, 2005·Genes and Immunity·J HuggettA Zumla
Jun 16, 2005·Journal of Molecular Endocrinology·S A BustinM W Pfaffl
Jun 13, 2008·Nature Protocols·Thomas D Schmittgen, Kenneth J Livak
Apr 18, 2009·BMC Genomics·Xing FuPhilipp Khaitovich
May 30, 2009·Nature Protocols·Heidi S EricksonMichael R Emmert-Buck
Dec 23, 2009·Methods : a Companion to Methods in Enzymology·Stephen A Bustin
Feb 1, 2012·Plant Molecular Biology·Fuliang XieBaohong Zhang
Apr 12, 2012·Bioinformatics·Jian-Bo PanZhi-Liang Ji
Jul 3, 2013·Trends in Genetics : TIG·Eli Eisenberg, Erez Y Levanon
Oct 1, 2013·Journal of Applied Genetics·Bartłomiej Kozera, Marcin Rapacz
Feb 24, 2015·The Journal of Investigative Dermatology·Leonie C JacobsTamar Nijsten
Jul 2, 2016·In Vitro Cellular & Developmental Biology. Animal·Nimantana HeDongjun Liu
Oct 17, 2017·Nucleic Acids Research·Jian SangZhang Zhang
Dec 5, 2018·Cell Reports·Yaolin SongSarah E Millar
Jan 11, 2019·Scientific Reports·Aldenor G SantosJailson B de Andrade
Sep 13, 2019·Journal of Trace Elements in Medicine and Biology : Organ of the Society for Minerals and Trace Elements (GMS)·Veronika Kloubert, Lothar Rink
Jan 12, 2020·BMC Genomics·Karen Cristine Gonçalves Dos SantosHugo Germain
Jan 25, 2020·Animals : an Open Access Journal From MDPI·Xuelan ZhouPing Yan
Jan 27, 2020·Briefings in Bioinformatics·Le ZhangMing Xiao

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Methods Mentioned

BETA
RNA-seq
biopsies
PCR

Software Mentioned

GraphPad Prism
BMKCloud
PaGeFinder
NormFinder
Excel
PaGeFinder )
BestKeeper
BLAST
Matlab
OmicShare

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