Identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcane
Background Sugarcane (Saccharum spontaneum L.), the major sugar and biofuel feedstock crop, is cultivated mainly by vegetative propagation worldwide due to the infertility of female reproductive organs resulting in the reduction of quality and output of sugar. Deciphering the gene expression profile...
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| Format: | Article |
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PeerJ Inc.
2021-10-01
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| Online Access: | https://peerj.com/articles/12298.pdf |
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| author | Maokai Yan Xingyue Jin Yanhui Liu Huihuang Chen Tao Ye Zhimin Hou Zhenxia Su Yingzhi Chen Mohammad Aslam Yuan Qin Xiaoping Niu |
| author_facet | Maokai Yan Xingyue Jin Yanhui Liu Huihuang Chen Tao Ye Zhimin Hou Zhenxia Su Yingzhi Chen Mohammad Aslam Yuan Qin Xiaoping Niu |
| author_sort | Maokai Yan |
| collection | DOAJ |
| description | Background Sugarcane (Saccharum spontaneum L.), the major sugar and biofuel feedstock crop, is cultivated mainly by vegetative propagation worldwide due to the infertility of female reproductive organs resulting in the reduction of quality and output of sugar. Deciphering the gene expression profile during ovule development will improve our understanding of the complications underlying sexual reproduction in sugarcane. Optimal reference genes are essential for elucidating the expression pattern of a given gene by quantitative real-time PCR (qRT-PCR). Method In this study, based on transcriptome data obtained from sugarcane ovule, eighteen candidate reference genes were identified, cloned, and their expression levels were evaluated across five developmental stages ovule (AC, MMC, Meiosis, Mitosis, and Mature). Results Our results indicated that FAB2 and MOR1 were the most stably expressed genes during sugarcane female gametophyte development. Moreover, two genes, cell cycle-related genes REC8 and CDK, were selected, and their feasibility was validated. This study provides important insights into the female gametophyte development of sugarcane and reports novel reference genes for gene expression research on sugarcane sexual reproduction. |
| first_indexed | 2024-03-09T06:40:10Z |
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| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T06:40:10Z |
| publishDate | 2021-10-01 |
| publisher | PeerJ Inc. |
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| spelling | doaj.art-5902644084fe4f22b62c84f8b2b8e7072023-12-03T10:51:12ZengPeerJ Inc.PeerJ2167-83592021-10-019e1229810.7717/peerj.12298Identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcaneMaokai Yan0Xingyue Jin1Yanhui Liu2Huihuang Chen3Tao Ye4Zhimin Hou5Zhenxia Su6Yingzhi Chen7Mohammad Aslam8Yuan Qin9Xiaoping Niu10Guangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, ChinaKey Lab of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, College of Life Science, Fuzhou, ChinaKey Lab of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, College of Life Science, Fuzhou, ChinaKey Lab of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, College of Life Science, Fuzhou, ChinaKey Lab of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, College of Life Science, Fuzhou, ChinaKey Lab of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, College of Life Science, Fuzhou, ChinaKey Lab of Genetics, Breeding and Multiple Utilization of Crops, Ministry of Education, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, College of Life Science, Fuzhou, ChinaGuangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, ChinaGuangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, ChinaGuangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, ChinaGuangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, ChinaBackground Sugarcane (Saccharum spontaneum L.), the major sugar and biofuel feedstock crop, is cultivated mainly by vegetative propagation worldwide due to the infertility of female reproductive organs resulting in the reduction of quality and output of sugar. Deciphering the gene expression profile during ovule development will improve our understanding of the complications underlying sexual reproduction in sugarcane. Optimal reference genes are essential for elucidating the expression pattern of a given gene by quantitative real-time PCR (qRT-PCR). Method In this study, based on transcriptome data obtained from sugarcane ovule, eighteen candidate reference genes were identified, cloned, and their expression levels were evaluated across five developmental stages ovule (AC, MMC, Meiosis, Mitosis, and Mature). Results Our results indicated that FAB2 and MOR1 were the most stably expressed genes during sugarcane female gametophyte development. Moreover, two genes, cell cycle-related genes REC8 and CDK, were selected, and their feasibility was validated. This study provides important insights into the female gametophyte development of sugarcane and reports novel reference genes for gene expression research on sugarcane sexual reproduction.https://peerj.com/articles/12298.pdfSugarcaneNovel genesTranscriptome analysisFemale gametophyte |
| spellingShingle | Maokai Yan Xingyue Jin Yanhui Liu Huihuang Chen Tao Ye Zhimin Hou Zhenxia Su Yingzhi Chen Mohammad Aslam Yuan Qin Xiaoping Niu Identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcane PeerJ Sugarcane Novel genes Transcriptome analysis Female gametophyte |
| title | Identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcane |
| title_full | Identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcane |
| title_fullStr | Identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcane |
| title_full_unstemmed | Identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcane |
| title_short | Identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcane |
| title_sort | identification and evaluation of the novel genes for transcript normalization during female gametophyte development in sugarcane |
| topic | Sugarcane Novel genes Transcriptome analysis Female gametophyte |
| url | https://peerj.com/articles/12298.pdf |
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