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Identification of long noncoding RNAs involved in plumule-vernalization of Chinese cabbage

Vernalization is a phenomenon in which plants must undergo a period of continuous low temperatures to change from the vegetative growth stage to the reproductive growth stage. Chinese cabbage is a heading vegetable, and flowering time is an essential developmental trait. Premature vernalization lead...

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Autores principales: Dai, Yun, Li, Guoliang, Gao, Xinyu, Wang, Shaoxing, Li, Ze, Song, Chao, Zhang, Shifan, Li, Fei, Fang, Zhiyuan, Sun, Rifei, Zhang, Hui, Zhang, Shujiang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10043383/
https://www.ncbi.nlm.nih.gov/pubmed/36998688
http://dx.doi.org/10.3389/fpls.2023.1147494
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author Dai, Yun
Li, Guoliang
Gao, Xinyu
Wang, Shaoxing
Li, Ze
Song, Chao
Zhang, Shifan
Li, Fei
Fang, Zhiyuan
Sun, Rifei
Zhang, Hui
Zhang, Shujiang
author_facet Dai, Yun
Li, Guoliang
Gao, Xinyu
Wang, Shaoxing
Li, Ze
Song, Chao
Zhang, Shifan
Li, Fei
Fang, Zhiyuan
Sun, Rifei
Zhang, Hui
Zhang, Shujiang
author_sort Dai, Yun
collection PubMed
description Vernalization is a phenomenon in which plants must undergo a period of continuous low temperatures to change from the vegetative growth stage to the reproductive growth stage. Chinese cabbage is a heading vegetable, and flowering time is an essential developmental trait. Premature vernalization leads to premature bolting, which causes a loss of product value and yield. While research into vernalization has provided a wealth of information, a complete understanding of the molecular mechanism for controlling vernalization requirements has not yet been elucidated. In this study, using high-throughput RNA sequencing, we analyzed the plumule-vernalization response of mRNA and long noncoding RNA in the bolting-resistant Chinese cabbage double haploid (DH) line ‘Ju Hongxin’ (JHX). A total of 3382 lncRNAs were identified, of which 1553 differentially expressed (DE) lncRNAs were characterized as plumule-vernalization responses. The ceRNA network revealed that 280 ceRNA pairs participated in the plumule-vernalization reaction of Chinese cabbage. Through identifying DE lncRNAs in Chinese cabbage and analyzing anti-, cis-, and trans-functional analysis, some candidate lncRNAs related to vernalization promoting flowering of Chinese cabbage and their regulated mRNA genes were found. Moreover, the expression of several critical lncRNAs and their targets was verified using qRT-PCR. Furthermore, we identified the candidate plumule-vernalization-related long noncoding RNAs that regulate BrFLCs in Chinese cabbage, which was interesting and different from previous studies and was a new discovery. Our findings expand the knowledge of lncRNAs in the vernalization of Chinese cabbage, and the identified lncRNAs provide rich resources for future comparative and functional studies.
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spelling pubmed-100433832023-03-29 Identification of long noncoding RNAs involved in plumule-vernalization of Chinese cabbage Dai, Yun Li, Guoliang Gao, Xinyu Wang, Shaoxing Li, Ze Song, Chao Zhang, Shifan Li, Fei Fang, Zhiyuan Sun, Rifei Zhang, Hui Zhang, Shujiang Front Plant Sci Plant Science Vernalization is a phenomenon in which plants must undergo a period of continuous low temperatures to change from the vegetative growth stage to the reproductive growth stage. Chinese cabbage is a heading vegetable, and flowering time is an essential developmental trait. Premature vernalization leads to premature bolting, which causes a loss of product value and yield. While research into vernalization has provided a wealth of information, a complete understanding of the molecular mechanism for controlling vernalization requirements has not yet been elucidated. In this study, using high-throughput RNA sequencing, we analyzed the plumule-vernalization response of mRNA and long noncoding RNA in the bolting-resistant Chinese cabbage double haploid (DH) line ‘Ju Hongxin’ (JHX). A total of 3382 lncRNAs were identified, of which 1553 differentially expressed (DE) lncRNAs were characterized as plumule-vernalization responses. The ceRNA network revealed that 280 ceRNA pairs participated in the plumule-vernalization reaction of Chinese cabbage. Through identifying DE lncRNAs in Chinese cabbage and analyzing anti-, cis-, and trans-functional analysis, some candidate lncRNAs related to vernalization promoting flowering of Chinese cabbage and their regulated mRNA genes were found. Moreover, the expression of several critical lncRNAs and their targets was verified using qRT-PCR. Furthermore, we identified the candidate plumule-vernalization-related long noncoding RNAs that regulate BrFLCs in Chinese cabbage, which was interesting and different from previous studies and was a new discovery. Our findings expand the knowledge of lncRNAs in the vernalization of Chinese cabbage, and the identified lncRNAs provide rich resources for future comparative and functional studies. Frontiers Media S.A. 2023-03-14 /pmc/articles/PMC10043383/ /pubmed/36998688 http://dx.doi.org/10.3389/fpls.2023.1147494 Text en Copyright © 2023 Dai, Li, Gao, Wang, Li, Song, Zhang, Li, Fang, Sun, Zhang and Zhang https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Dai, Yun
Li, Guoliang
Gao, Xinyu
Wang, Shaoxing
Li, Ze
Song, Chao
Zhang, Shifan
Li, Fei
Fang, Zhiyuan
Sun, Rifei
Zhang, Hui
Zhang, Shujiang
Identification of long noncoding RNAs involved in plumule-vernalization of Chinese cabbage
title Identification of long noncoding RNAs involved in plumule-vernalization of Chinese cabbage
title_full Identification of long noncoding RNAs involved in plumule-vernalization of Chinese cabbage
title_fullStr Identification of long noncoding RNAs involved in plumule-vernalization of Chinese cabbage
title_full_unstemmed Identification of long noncoding RNAs involved in plumule-vernalization of Chinese cabbage
title_short Identification of long noncoding RNAs involved in plumule-vernalization of Chinese cabbage
title_sort identification of long noncoding rnas involved in plumule-vernalization of chinese cabbage
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10043383/
https://www.ncbi.nlm.nih.gov/pubmed/36998688
http://dx.doi.org/10.3389/fpls.2023.1147494
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