AUTHOR=Zhou Bujin , Chen Peng , Khan Aziz , Zhao Yanhong , Chen Lihong , Liu Dongmei , Liao Xiaofang , Kong Xiangjun , Zhou Ruiyang 

TITLE=Candidate Reference Genes Selection and Application for RT-qPCR Analysis in Kenaf with Cytoplasmic Male Sterility Background

JOURNAL=Frontiers in Plant Science

VOLUME=8

YEAR=2017

URL=https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2017.01520

DOI=10.3389/fpls.2017.01520

ISSN=1664-462X

ABSTRACT=<p>Cytoplasmic male sterility (CMS) is a maternally inherited trait that results in the production of dysfunctional pollen. Based on reliable reference gene-normalized real-time quantitative PCR (RT-qPCR) data, examining gene expression profile can provide valuable information on the molecular mechanism of kenaf CMS. However, studies have not been conducted regarding selection of reference genes for normalizing RT-qPCR data in the CMS and maintainer lines of kenaf crop. Therefore, we studied 10 candidate reference genes (<italic>ACT3, ELF1A, G6PD, PEPKR1, TUB, TUA, CYP, GAPDH, H3</italic>, and <italic>18S</italic>) to assess their expression stability at three stages of pollen development in CMS line 722A and maintainer line 722B of kenaf. Five computational statistical approaches (GeNorm, NormFinder, ΔCt, BestKeeper, and RefFinder) were used to evaluate the expression stability levels of these genes. According to RefFinder and GeNorm, the combination of <italic>TUB, CYP</italic>, and <italic>PEPKR1</italic> was identified as an internal control for the accurate normalization across all sample set, which was further confirmed by validating the expression of <italic>HcPDIL5-2a</italic>. Furthermore, the combination of <italic>TUB, CYP</italic>, and <italic>PEPKR1</italic> was used to differentiate the expression pattern of five mitochondria F<sub>1</sub>F<sub>0</sub>-ATPase subunit genes (<italic>atp1, atp4, atp6, atp8</italic>, and <italic>atp9</italic>) by RT-qPCR during pollen development in CMS line 722A and maintainer line 722B. We found that <italic>atp1, atp6</italic>, and <italic>atp9</italic> exhibited significantly different expression patterns during pollen development in line 722A compared with line 722B. This is the first systematic study of reference genes selection for CMS and will provide useful information for future research on the gene expressions and molecular mechanisms underlying CMS in kenaf.</p>