Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice

Abstract 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...

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Autores principales:	Tao Song, Debatosh Das, Neng-Hui Ye, Guan-Qun Wang, Fu-Yuan Zhu, Mo-Xian Chen, Feng Yang, Jian-Hua Zhang
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Transcriptomics Abscisic acid Auxin Coleorhiza hair Japonica Indica Botany QK1-989
Acceso en línea:	https://doaj.org/article/05f0e0dd700947f6a4ddad8da028ac21
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id	oai:doaj.org-article:05f0e0dd700947f6a4ddad8da028ac21
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spelling	oai:doaj.org-article:05f0e0dd700947f6a4ddad8da028ac212021-11-07T12:09:38ZComparative transcriptome analysis of coleorhiza development in japonica and Indica rice10.1186/s12870-021-03276-z1471-2229https://doaj.org/article/05f0e0dd700947f6a4ddad8da028ac212021-11-01T00:00:00Zhttps://doi.org/10.1186/s12870-021-03276-zhttps://doaj.org/toc/1471-2229Abstract 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.Tao SongDebatosh DasNeng-Hui YeGuan-Qun WangFu-Yuan ZhuMo-Xian ChenFeng YangJian-Hua ZhangBMCarticleTranscriptomicsAbscisic acidAuxinColeorhiza hairJaponicaIndicaBotanyQK1-989ENBMC Plant Biology, Vol 21, Iss 1, Pp 1-17 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Transcriptomics Abscisic acid Auxin Coleorhiza hair Japonica Indica Botany QK1-989
spellingShingle	Transcriptomics Abscisic acid Auxin Coleorhiza hair Japonica Indica Botany QK1-989 Tao Song Debatosh Das Neng-Hui Ye Guan-Qun Wang Fu-Yuan Zhu Mo-Xian Chen Feng Yang Jian-Hua Zhang Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice
description	Abstract 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.
format	article
author	Tao Song Debatosh Das Neng-Hui Ye Guan-Qun Wang Fu-Yuan Zhu Mo-Xian Chen Feng Yang Jian-Hua Zhang
author_facet	Tao Song Debatosh Das Neng-Hui Ye Guan-Qun Wang Fu-Yuan Zhu Mo-Xian Chen Feng Yang Jian-Hua Zhang
author_sort	Tao Song
title	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_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_sort	comparative transcriptome analysis of coleorhiza development in japonica and indica rice
publisher	BMC
publishDate	2021
url	https://doaj.org/article/05f0e0dd700947f6a4ddad8da028ac21
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Comparative transcriptome analysis of coleorhiza development in japonica and Indica rice

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