Cargando…

Genome-wide identification and expression analysis of two-component system genes in sweet potato (Ipomoea batatas L.)

Two-component system (TCS), which comprises histidine kinases (HKs), histidine phosphotransfer proteins (HPs), and response regulators (RRs), plays essential roles in regulating plant growth, development, and response to various environmental stimuli. TCS genes have been comprehensively identified i...

Descripción completa

Detalles Bibliográficos
Autores principales: Huo, Ruxue, Zhao, Yanshu, Liu, Tianxu, Xu, Meng, Wang, Xiaohua, Xu, Ping, Dai, Shengjie, Cui, Xiaoyu, Han, Yonghua, Liu, Zhenning, Li, Zongyun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9878860/
https://www.ncbi.nlm.nih.gov/pubmed/36714734
http://dx.doi.org/10.3389/fpls.2022.1091620
_version_ 1784878579044057088
author Huo, Ruxue
Zhao, Yanshu
Liu, Tianxu
Xu, Meng
Wang, Xiaohua
Xu, Ping
Dai, Shengjie
Cui, Xiaoyu
Han, Yonghua
Liu, Zhenning
Li, Zongyun
author_facet Huo, Ruxue
Zhao, Yanshu
Liu, Tianxu
Xu, Meng
Wang, Xiaohua
Xu, Ping
Dai, Shengjie
Cui, Xiaoyu
Han, Yonghua
Liu, Zhenning
Li, Zongyun
author_sort Huo, Ruxue
collection PubMed
description Two-component system (TCS), which comprises histidine kinases (HKs), histidine phosphotransfer proteins (HPs), and response regulators (RRs), plays essential roles in regulating plant growth, development, and response to various environmental stimuli. TCS genes have been comprehensively identified in various plants, while studies on the genome-wide identification and analysis of TCS in sweet potato were still not reported. Therefore, in this study, a total of 90 TCS members consisting of 20 HK(L)s, 11 HPs, and 59 RRs were identified in the genome of Ipomoea batatas. Furthermore, their gene structures, conserved domains, and phylogenetic relationships were analyzed in detail. Additionally, the gene expression profiles in various organs were analyzed, and response patterns to adverse environmental stresses were investigated. The results showed that these 90 TCS genes were mapped on 15 chromosomes with a notably uneven distribution, and the expansion of TCS genes in sweet potato was attributed to both segmental and tandem duplications. The majority of the TCS genes showed distinct organ-specific expression profiles, especially in three types of roots (stem roots, fibrous roots, tuberous roots). Moreover, most of the TCS genes were either induced or suppressed upon treatment with abiotic stresses (drought, salinity, cold, heat) and exogenous phytohormone abscisic acid (ABA). In addition, the yeast-two hybrid system was used to reveal the HK-HP-RR protein-protein interactions. IbHP1, IbHP2, IbHP4, and IbHP5 could interact with three HKs (IbHK1a, IbHK1b, and IbHK5), and also interact with majority of the type-B RRs (IbRR20–IbRR28), while no interaction affinity was detected for IbHP3. Our systematic analyses could provide insights into the characterization of the TCS genes, and further the development of functional studies in sweet potato.
format Online
Article
Text
id pubmed-9878860
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-98788602023-01-27 Genome-wide identification and expression analysis of two-component system genes in sweet potato (Ipomoea batatas L.) Huo, Ruxue Zhao, Yanshu Liu, Tianxu Xu, Meng Wang, Xiaohua Xu, Ping Dai, Shengjie Cui, Xiaoyu Han, Yonghua Liu, Zhenning Li, Zongyun Front Plant Sci Plant Science Two-component system (TCS), which comprises histidine kinases (HKs), histidine phosphotransfer proteins (HPs), and response regulators (RRs), plays essential roles in regulating plant growth, development, and response to various environmental stimuli. TCS genes have been comprehensively identified in various plants, while studies on the genome-wide identification and analysis of TCS in sweet potato were still not reported. Therefore, in this study, a total of 90 TCS members consisting of 20 HK(L)s, 11 HPs, and 59 RRs were identified in the genome of Ipomoea batatas. Furthermore, their gene structures, conserved domains, and phylogenetic relationships were analyzed in detail. Additionally, the gene expression profiles in various organs were analyzed, and response patterns to adverse environmental stresses were investigated. The results showed that these 90 TCS genes were mapped on 15 chromosomes with a notably uneven distribution, and the expansion of TCS genes in sweet potato was attributed to both segmental and tandem duplications. The majority of the TCS genes showed distinct organ-specific expression profiles, especially in three types of roots (stem roots, fibrous roots, tuberous roots). Moreover, most of the TCS genes were either induced or suppressed upon treatment with abiotic stresses (drought, salinity, cold, heat) and exogenous phytohormone abscisic acid (ABA). In addition, the yeast-two hybrid system was used to reveal the HK-HP-RR protein-protein interactions. IbHP1, IbHP2, IbHP4, and IbHP5 could interact with three HKs (IbHK1a, IbHK1b, and IbHK5), and also interact with majority of the type-B RRs (IbRR20–IbRR28), while no interaction affinity was detected for IbHP3. Our systematic analyses could provide insights into the characterization of the TCS genes, and further the development of functional studies in sweet potato. Frontiers Media S.A. 2023-01-12 /pmc/articles/PMC9878860/ /pubmed/36714734 http://dx.doi.org/10.3389/fpls.2022.1091620 Text en Copyright © 2023 Huo, Zhao, Liu, Xu, Wang, Xu, Dai, Cui, Han, Liu and Li 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
Huo, Ruxue
Zhao, Yanshu
Liu, Tianxu
Xu, Meng
Wang, Xiaohua
Xu, Ping
Dai, Shengjie
Cui, Xiaoyu
Han, Yonghua
Liu, Zhenning
Li, Zongyun
Genome-wide identification and expression analysis of two-component system genes in sweet potato (Ipomoea batatas L.)
title Genome-wide identification and expression analysis of two-component system genes in sweet potato (Ipomoea batatas L.)
title_full Genome-wide identification and expression analysis of two-component system genes in sweet potato (Ipomoea batatas L.)
title_fullStr Genome-wide identification and expression analysis of two-component system genes in sweet potato (Ipomoea batatas L.)
title_full_unstemmed Genome-wide identification and expression analysis of two-component system genes in sweet potato (Ipomoea batatas L.)
title_short Genome-wide identification and expression analysis of two-component system genes in sweet potato (Ipomoea batatas L.)
title_sort genome-wide identification and expression analysis of two-component system genes in sweet potato (ipomoea batatas l.)
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9878860/
https://www.ncbi.nlm.nih.gov/pubmed/36714734
http://dx.doi.org/10.3389/fpls.2022.1091620
work_keys_str_mv AT huoruxue genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT zhaoyanshu genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT liutianxu genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT xumeng genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT wangxiaohua genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT xuping genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT daishengjie genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT cuixiaoyu genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT hanyonghua genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT liuzhenning genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl
AT lizongyun genomewideidentificationandexpressionanalysisoftwocomponentsystemgenesinsweetpotatoipomoeabatatasl