TY - JOUR
T1 - Analysis of gene expression in early seed germination of rice
T2 - landscape and genetic regulation
AU - Li, Haoxuan
AU - Li, Xiaozheng
AU - Wang, Guanjie
AU - Zhang, Jianhua
AU - Wang, Guanqun
N1 - Funding Information:
This work was supported by the National Key Research and Development Project, No. 2018YFA0902500, Shenzhen Science and Technology Research Funding, No. JCYJ20180305124041430, and Hong Kong Research Grant Council (AoE/M-05/12, AoE/M-403/16, GRF14122415, 14160516, 14177617). The design of the study and field data collection were supported by Hong Kong Research Grant Council (AoE/M-05/12, AoE/M-403/16, GRF14122415, 14160516, 14177617). The transcriptome sequencing was supported by the National Key Research and Development Project, No. 2018YFA0902500, and Shenzhen Science and Technology Research Funding, No. JCYJ20180305124041430.
Publisher Copyright:
© 2022, The Author(s).
PY - 2022/2/17
Y1 - 2022/2/17
N2 - Background: Seed germination is a crucial process, which determines the initiation of seed plant life cycle. The early events during this important life cycle transition that called early seed germination is defined as initially water uptake plus radicle growing out of the covering seed layers. However, a specific genome-wide analysis of early seed germination in rice is still obscure. Results: In this study, the physiological characteristics of rice seed during seed germination are determined to define key points of early seed germination. Transcriptome analyses of early phase of seed germination provided deeper insight into the genetic regulation landscape. Many genes involved in starch-to-sucrose transition were differentially expressed, especially alpha-amylase 1b and beta-amylase 2, which were predominantly expressed. Differential exon usage (DEU) genes were identified, which were significantly enriched in the pathway of starch and sucrose metabolism, indicating that DEU events were critical for starch-to-sucrose transition at early seed germination. Transcription factors (TFs) were also dramatic expressed, including the abscisic acid (ABA) responsive gene, OsABI5, and gibberellic acid (GA) responsive genes, GAI. Moreover, GAI transactivated GA responsive gene, GAMYB in vivo, indicating a potential pathway involved in early seed germination process. In addition, CBL-interacting protein kinase (CIPK) genes, such as CIPK13, CIPK14 and CIPK17 were potentially interacted with other proteins, indicating its pivotal role at early seed germination. Conclusion: Taken together, gene regulation of early seed germination in rice was complex and protein-to-gene or protein-to-protein interactions were indispensable.
AB - Background: Seed germination is a crucial process, which determines the initiation of seed plant life cycle. The early events during this important life cycle transition that called early seed germination is defined as initially water uptake plus radicle growing out of the covering seed layers. However, a specific genome-wide analysis of early seed germination in rice is still obscure. Results: In this study, the physiological characteristics of rice seed during seed germination are determined to define key points of early seed germination. Transcriptome analyses of early phase of seed germination provided deeper insight into the genetic regulation landscape. Many genes involved in starch-to-sucrose transition were differentially expressed, especially alpha-amylase 1b and beta-amylase 2, which were predominantly expressed. Differential exon usage (DEU) genes were identified, which were significantly enriched in the pathway of starch and sucrose metabolism, indicating that DEU events were critical for starch-to-sucrose transition at early seed germination. Transcription factors (TFs) were also dramatic expressed, including the abscisic acid (ABA) responsive gene, OsABI5, and gibberellic acid (GA) responsive genes, GAI. Moreover, GAI transactivated GA responsive gene, GAMYB in vivo, indicating a potential pathway involved in early seed germination process. In addition, CBL-interacting protein kinase (CIPK) genes, such as CIPK13, CIPK14 and CIPK17 were potentially interacted with other proteins, indicating its pivotal role at early seed germination. Conclusion: Taken together, gene regulation of early seed germination in rice was complex and protein-to-gene or protein-to-protein interactions were indispensable.
KW - Early seed germination
KW - Oryza sativa
KW - Physiological characteristic
KW - Transcription factors
KW - Transcriptome
UR - http://www.scopus.com/inward/record.url?scp=85124778148&partnerID=8YFLogxK
U2 - 10.1186/s12870-022-03458-3
DO - 10.1186/s12870-022-03458-3
M3 - Journal article
C2 - 35176996
AN - SCOPUS:85124778148
SN - 1471-2229
VL - 22
JO - BMC Plant Biology
JF - BMC Plant Biology
IS - 1
M1 - 70
ER -