Transcriptome changes in seeds during coleorhiza hair formation in rice
Coleorhiza hairs are hairlike structures in seeds of the grass family (Poaceae). The molecular mechanisms underlying its formation are largely unknown, study on this topic will expand our understanding of the effects of water status on germination during rice (Oryza sativa L.) direct seeding. Seeds...
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| Format: | Article |
| Language: | English |
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KeAi Communications Co., Ltd.
2022-06-01
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| Series: | Crop Journal |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2214514121002105 |
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| author | Tao Song A.N.M. Rubaiyath Bin Rahman Debatosh Das Neng-Hui Ye Feng Yang Fu-Yuan Zhu Mo-Xian Chen Jian-Hua Zhang |
| author_facet | Tao Song A.N.M. Rubaiyath Bin Rahman Debatosh Das Neng-Hui Ye Feng Yang Fu-Yuan Zhu Mo-Xian Chen Jian-Hua Zhang |
| author_sort | Tao Song |
| collection | DOAJ |
| description | Coleorhiza hairs are hairlike structures in seeds of the grass family (Poaceae). The molecular mechanisms underlying its formation are largely unknown, study on this topic will expand our understanding of the effects of water status on germination during rice (Oryza sativa L.) direct seeding. Seeds of Nipponbare were treated under two water conditions: in one, half of the seed surface was immersed in water and the other half was embryo side in air (EIA), and in the other, the whole seed was covered by water (CBW). Coleorhiza hairs formed only in EIA samples. Transcriptomics was used to identify the gene regulation during coleorhiza hair formation in EIA (vs. CBW) embryos and endosperm. Embryos displayed more transcriptome modulation even though smaller in size than the endosperm. Differentially expressed genes (DEGs) were enriched in both primary and secondary metabolism and showed changes in abscisic acid, auxin, jasmonic acid, and salicylic acid signatures. Metabolites enrichment data were positively correlated with gene expression changes in the affected metabolic functional pathways. The presence of shorter coleorhiza hairs in an OsRHL1 (Os06g0184000, a coleorhiza hair formation regulation candidate gene) knockout mutant suggested that root hair-associated DEGs share molecular regulators that control the formation of coleorhiza hairs. |
| first_indexed | 2024-12-12T08:03:17Z |
| format | Article |
| id | doaj.art-8d141760703d44afb7b823218cd65457 |
| institution | Directory Open Access Journal |
| issn | 2214-5141 |
| language | English |
| last_indexed | 2024-12-12T08:03:17Z |
| publishDate | 2022-06-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Crop Journal |
| spelling | doaj.art-8d141760703d44afb7b823218cd654572022-12-22T00:32:03ZengKeAi Communications Co., Ltd.Crop Journal2214-51412022-06-01103692703Transcriptome changes in seeds during coleorhiza hair formation in riceTao Song0A.N.M. Rubaiyath Bin Rahman1Debatosh Das2Neng-Hui Ye3Feng Yang4Fu-Yuan Zhu5Mo-Xian Chen6Jian-Hua Zhang7Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, Jiangsu, China; Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen 518057, Guangdong, China; Southern Regional Collaborative Innovation Center for Grain and Oil Crops in China, College of Agriculture, Hunan Agricultural University, Changsha 410128, Hunan, ChinaDepartment of Biology, Hong Kong Baptist University, Kowloon 999077, Hong Kong, ChinaShenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen 518057, Guangdong, ChinaSouthern Regional Collaborative Innovation Center for Grain and Oil Crops in China, College of Agriculture, Hunan Agricultural University, Changsha 410128, Hunan, ChinaShenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen 518057, Guangdong, ChinaCo-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, Jiangsu, ChinaCo-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, Jiangsu, China; CAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, Guangdong, China; Corresponding authors.Department of Biology, Hong Kong Baptist University, Kowloon 999077, Hong Kong, China; School of Life Sciences and State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin 999077, Hong Kong, China; Corresponding authors.Coleorhiza hairs are hairlike structures in seeds of the grass family (Poaceae). The molecular mechanisms underlying its formation are largely unknown, study on this topic will expand our understanding of the effects of water status on germination during rice (Oryza sativa L.) direct seeding. Seeds of Nipponbare were treated under two water conditions: in one, half of the seed surface was immersed in water and the other half was embryo side in air (EIA), and in the other, the whole seed was covered by water (CBW). Coleorhiza hairs formed only in EIA samples. Transcriptomics was used to identify the gene regulation during coleorhiza hair formation in EIA (vs. CBW) embryos and endosperm. Embryos displayed more transcriptome modulation even though smaller in size than the endosperm. Differentially expressed genes (DEGs) were enriched in both primary and secondary metabolism and showed changes in abscisic acid, auxin, jasmonic acid, and salicylic acid signatures. Metabolites enrichment data were positively correlated with gene expression changes in the affected metabolic functional pathways. The presence of shorter coleorhiza hairs in an OsRHL1 (Os06g0184000, a coleorhiza hair formation regulation candidate gene) knockout mutant suggested that root hair-associated DEGs share molecular regulators that control the formation of coleorhiza hairs.http://www.sciencedirect.com/science/article/pii/S2214514121002105EmbryoEndospermTranscriptomicsMetabolomicsHormoneColeorhiza hair |
| spellingShingle | Tao Song A.N.M. Rubaiyath Bin Rahman Debatosh Das Neng-Hui Ye Feng Yang Fu-Yuan Zhu Mo-Xian Chen Jian-Hua Zhang Transcriptome changes in seeds during coleorhiza hair formation in rice Crop Journal Embryo Endosperm Transcriptomics Metabolomics Hormone Coleorhiza hair |
| title | Transcriptome changes in seeds during coleorhiza hair formation in rice |
| title_full | Transcriptome changes in seeds during coleorhiza hair formation in rice |
| title_fullStr | Transcriptome changes in seeds during coleorhiza hair formation in rice |
| title_full_unstemmed | Transcriptome changes in seeds during coleorhiza hair formation in rice |
| title_short | Transcriptome changes in seeds during coleorhiza hair formation in rice |
| title_sort | transcriptome changes in seeds during coleorhiza hair formation in rice |
| topic | Embryo Endosperm Transcriptomics Metabolomics Hormone Coleorhiza hair |
| url | http://www.sciencedirect.com/science/article/pii/S2214514121002105 |
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