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Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice

BACKGROUND: Coleorhiza hairs, are sheath-like outgrowth organs in the seeds of Poaceae family that look like root hair but develop from the coleorhiza epidermal cells during seed imbibition. The major role of coleorhiza hair in seed germination involves facilitating water uptake and nutrient supply...

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Autores principales: Song, Tao, Das, Debatosh, Ye, Neng-Hui, Wang, Guan-Qun, Zhu, Fu-Yuan, Chen, Mo-Xian, Yang, Feng, Zhang, Jian-Hua
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8567703/
https://www.ncbi.nlm.nih.gov/pubmed/34736393
http://dx.doi.org/10.1186/s12870-021-03276-z
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author Song, Tao
Das, Debatosh
Ye, Neng-Hui
Wang, Guan-Qun
Zhu, Fu-Yuan
Chen, Mo-Xian
Yang, Feng
Zhang, Jian-Hua
author_facet Song, Tao
Das, Debatosh
Ye, Neng-Hui
Wang, Guan-Qun
Zhu, Fu-Yuan
Chen, Mo-Xian
Yang, Feng
Zhang, Jian-Hua
author_sort Song, Tao
collection PubMed
description BACKGROUND: Coleorhiza hairs, are sheath-like outgrowth organs in the seeds of Poaceae family that look like root hair but develop from the coleorhiza epidermal cells during seed imbibition. The major role of coleorhiza hair in seed germination involves facilitating water uptake and nutrient supply for seed germination. However, molecular basis of coleorhiza hair development and underlying genes and metabolic pathways during seed germination are largely unknown and need to be established. RESULTS: In this study, a comparative transcriptome analysis of coleorhiza hairs from japonica and indica rice suggested that DEGs in embryo samples from seeds with embryo in air (EIA) as compared to embryo from seeds completely covered by water (CBW) were enriched in water deprivation, abscisic acid (ABA) and auxin metabolism, carbohydrate catabolism and phosphorus metabolism in coleorhiza hairs in both cultivars. Up-regulation of key metabolic genes in ABA, auxin and dehydrin and aquaporin genes may help maintain the basic development of coleorhiza hair in japonica and indica in EIA samples during both early and late stages. Additionally, DEGs involved in glutathione metabolism and carbon metabolism are upregulated while DEGs involved in amino acid and nucleotide sugar metabolism are downregulated in EIA suggesting induction of oxidative stress-alleviating genes and less priority to primary metabolism. CONCLUSIONS: Taken together, results in this study could provide novel aspects about the molecular signaling that could be involved in coleorhiza hair development in different types of rice cultivars during seed germination and may give some hints for breeders to improve seed germination efficiency under moderate drought conditions. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-021-03276-z.
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spelling pubmed-85677032021-11-04 Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice Song, Tao Das, Debatosh Ye, Neng-Hui Wang, Guan-Qun Zhu, Fu-Yuan Chen, Mo-Xian Yang, Feng Zhang, Jian-Hua BMC Plant Biol Research BACKGROUND: Coleorhiza hairs, are sheath-like outgrowth organs in the seeds of Poaceae family that look like root hair but develop from the coleorhiza epidermal cells during seed imbibition. The major role of coleorhiza hair in seed germination involves facilitating water uptake and nutrient supply for seed germination. However, molecular basis of coleorhiza hair development and underlying genes and metabolic pathways during seed germination are largely unknown and need to be established. RESULTS: In this study, a comparative transcriptome analysis of coleorhiza hairs from japonica and indica rice suggested that DEGs in embryo samples from seeds with embryo in air (EIA) as compared to embryo from seeds completely covered by water (CBW) were enriched in water deprivation, abscisic acid (ABA) and auxin metabolism, carbohydrate catabolism and phosphorus metabolism in coleorhiza hairs in both cultivars. Up-regulation of key metabolic genes in ABA, auxin and dehydrin and aquaporin genes may help maintain the basic development of coleorhiza hair in japonica and indica in EIA samples during both early and late stages. Additionally, DEGs involved in glutathione metabolism and carbon metabolism are upregulated while DEGs involved in amino acid and nucleotide sugar metabolism are downregulated in EIA suggesting induction of oxidative stress-alleviating genes and less priority to primary metabolism. CONCLUSIONS: Taken together, results in this study could provide novel aspects about the molecular signaling that could be involved in coleorhiza hair development in different types of rice cultivars during seed germination and may give some hints for breeders to improve seed germination efficiency under moderate drought conditions. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-021-03276-z. BioMed Central 2021-11-04 /pmc/articles/PMC8567703/ /pubmed/34736393 http://dx.doi.org/10.1186/s12870-021-03276-z Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Song, Tao
Das, Debatosh
Ye, Neng-Hui
Wang, Guan-Qun
Zhu, Fu-Yuan
Chen, Mo-Xian
Yang, Feng
Zhang, Jian-Hua
Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice
title Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice
title_full Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice
title_fullStr Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice
title_full_unstemmed Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice
title_short Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice
title_sort comparative transcriptome analysis of coleorhiza development in japonica and indica rice
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8567703/
https://www.ncbi.nlm.nih.gov/pubmed/34736393
http://dx.doi.org/10.1186/s12870-021-03276-z
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