Abstract
miRNAs have recently been reported to modulate somatic embryogenesis (SE), a key pathway of plant regeneration in vitro. For expression level detection and subsequent function dissection of miRNAs in certain biological processes, qRT-PCR is one of the most effective and sensitive techniques, for which suitable reference gene selection is a prerequisite. In this study, three miRNAs and eight non-coding RNAs (ncRNA) were selected as reference candidates, and their expression stability was inspected in developing citrus SE tissues cultured at 20, 25, and 30 °C. Stability of the eight non-miRNA ncRNAs was further validated in five adult tissues without temperature treatment. The best single reference gene for SE tissues was snoR14 or snoRD25, while for the adult tissues the best one was U4; although they were not as stable as the optimal multiple references snoR14 + U6 for SE tissues and snoR14 + U5 for adult tissues. For expression normalization of less abundant miRNAs in SE tissues, miR3954 was assessed as a viable reference. Single reference gene snoR14 outperformed multiple references for the overall SE and adult tissues. As one of the pioneer systematic studies on reference gene identification for plant miRNA normalization, this study benefits future exploration on miRNA function in citrus and provides valuable information for similar studies in other higher plants.
Key message Three miRNAs and eight non-coding RNAs were tested as reference candidates on developing citrus SE tissues. Best single references snoR14 or snoRD25 and optimal multiple references snoR14 + U6, snoR14 + U5 were identified.
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Abbreviations
- miRNA:
-
microRNA
- ncRNA:
-
Non-coding RNA
- qRT-PCR:
-
Quantitative reverse transcription-polymerase chain reaction
- SE:
-
Somatic embryogenesis
- NEC:
-
Non-embryogenic callus
- EC:
-
Embryogenic callus
- E1/2/3/4:
-
Embryogenic callus induced for somatic embryo for 1/2/3/4 weeks
- GE:
-
Globular embryo
- HE:
-
Heart embryo
- CE:
-
Cotyledonary embryo
- Ct:
-
Cycle threshold
- Csi:
-
Citrus sinensis
- TPM:
-
Times per million
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Acknowledgments
This research was financially supported by the Ministry of Science & Technology of China (nos. 2011CB100606, 2011AA100205), the National NSF of China and the Doctoral Research Fund of Ministry of Education of China (no. 20100146110008). The authors thank Dr. Bo Zheng (Huazhong Agric. Univ.) for reading the manuscript.
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Communicated by R. Rose.
S.-J. Kou and X.-M Wu contributed equally to this work.
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Kou, SJ., Wu, XM., Liu, Z. et al. Selection and validation of suitable reference genes for miRNA expression normalization by quantitative RT-PCR in citrus somatic embryogenic and adult tissues. Plant Cell Rep 31, 2151–2163 (2012). https://doi.org/10.1007/s00299-012-1325-x
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DOI: https://doi.org/10.1007/s00299-012-1325-x