Cargando…

Genome-Wide Identification of Apple Atypical bHLH Subfamily PRE Members and Functional Characterization of MdPRE4.3 in Response to Abiotic Stress

Paclobutrazol Resistance (PRE) genes encode atypical basic helix–loop–helix (bHLH) transcription factor family. Typical bHLH proteins contain a bifunctional structure with a basic region involved in DNA binding and an adjacent helix–loop–helix domain involved in protein–protein interaction. PRE memb...

Descripción completa

Detalles Bibliográficos
Autores principales: Li, Tong, Shi, Yan, Zhu, Baihui, Zhang, Tianen, Feng, Ziquan, Wang, Xiaofei, Li, Xiuming, You, Chunxiang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8987198/
https://www.ncbi.nlm.nih.gov/pubmed/35401662
http://dx.doi.org/10.3389/fgene.2022.846559
_version_ 1784682687495143424
author Li, Tong
Shi, Yan
Zhu, Baihui
Zhang, Tianen
Feng, Ziquan
Wang, Xiaofei
Li, Xiuming
You, Chunxiang
author_facet Li, Tong
Shi, Yan
Zhu, Baihui
Zhang, Tianen
Feng, Ziquan
Wang, Xiaofei
Li, Xiuming
You, Chunxiang
author_sort Li, Tong
collection PubMed
description Paclobutrazol Resistance (PRE) genes encode atypical basic helix–loop–helix (bHLH) transcription factor family. Typical bHLH proteins contain a bifunctional structure with a basic region involved in DNA binding and an adjacent helix–loop–helix domain involved in protein–protein interaction. PRE members lack the basic region but retain the HLH domain, which interacts with other typical bHLH proteins to suppress or enhance their DNA-binding activity. PRE proteins are involved in phytohormone responses, light signal transduction, and fruit pigment accumulation. However, apple (Malus domestica) PRE protein functions have not been studied. In this study, nine MdPRE genes were identified from the apple GDDH13 v1.1 reference genome and were mapped to seven chromosomes. The cis-acting element analysis revealed that MdPRE promoters possessed various elements related to hormones, light, and stress responses. Expression pattern analysis showed that MdPRE genes have different tissue expression profiles. Hormonal and abiotic stress treatments can induce the expression of several MdPRE genes. Moreover, we provide molecular and genetic evidence showing that MdPRE4.3 increases the apple’s sensitivity to NaCl, abscisic acid (ABA), and indoleacetic acid (IAA) and improves tolerance to brassinosteroids (BR); however, it does not affect the apple’s response to gibberellin (GA). Finally, the protein interaction network among the MdPRES proteins was predicted, which could help us elucidate the molecular and biological functions of atypical bHLH transcription factors in the apple.
format Online
Article
Text
id pubmed-8987198
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-89871982022-04-08 Genome-Wide Identification of Apple Atypical bHLH Subfamily PRE Members and Functional Characterization of MdPRE4.3 in Response to Abiotic Stress Li, Tong Shi, Yan Zhu, Baihui Zhang, Tianen Feng, Ziquan Wang, Xiaofei Li, Xiuming You, Chunxiang Front Genet Genetics Paclobutrazol Resistance (PRE) genes encode atypical basic helix–loop–helix (bHLH) transcription factor family. Typical bHLH proteins contain a bifunctional structure with a basic region involved in DNA binding and an adjacent helix–loop–helix domain involved in protein–protein interaction. PRE members lack the basic region but retain the HLH domain, which interacts with other typical bHLH proteins to suppress or enhance their DNA-binding activity. PRE proteins are involved in phytohormone responses, light signal transduction, and fruit pigment accumulation. However, apple (Malus domestica) PRE protein functions have not been studied. In this study, nine MdPRE genes were identified from the apple GDDH13 v1.1 reference genome and were mapped to seven chromosomes. The cis-acting element analysis revealed that MdPRE promoters possessed various elements related to hormones, light, and stress responses. Expression pattern analysis showed that MdPRE genes have different tissue expression profiles. Hormonal and abiotic stress treatments can induce the expression of several MdPRE genes. Moreover, we provide molecular and genetic evidence showing that MdPRE4.3 increases the apple’s sensitivity to NaCl, abscisic acid (ABA), and indoleacetic acid (IAA) and improves tolerance to brassinosteroids (BR); however, it does not affect the apple’s response to gibberellin (GA). Finally, the protein interaction network among the MdPRES proteins was predicted, which could help us elucidate the molecular and biological functions of atypical bHLH transcription factors in the apple. Frontiers Media S.A. 2022-03-24 /pmc/articles/PMC8987198/ /pubmed/35401662 http://dx.doi.org/10.3389/fgene.2022.846559 Text en Copyright © 2022 Li, Shi, Zhu, Zhang, Feng, Wang, Li and You. 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 Genetics
Li, Tong
Shi, Yan
Zhu, Baihui
Zhang, Tianen
Feng, Ziquan
Wang, Xiaofei
Li, Xiuming
You, Chunxiang
Genome-Wide Identification of Apple Atypical bHLH Subfamily PRE Members and Functional Characterization of MdPRE4.3 in Response to Abiotic Stress
title Genome-Wide Identification of Apple Atypical bHLH Subfamily PRE Members and Functional Characterization of MdPRE4.3 in Response to Abiotic Stress
title_full Genome-Wide Identification of Apple Atypical bHLH Subfamily PRE Members and Functional Characterization of MdPRE4.3 in Response to Abiotic Stress
title_fullStr Genome-Wide Identification of Apple Atypical bHLH Subfamily PRE Members and Functional Characterization of MdPRE4.3 in Response to Abiotic Stress
title_full_unstemmed Genome-Wide Identification of Apple Atypical bHLH Subfamily PRE Members and Functional Characterization of MdPRE4.3 in Response to Abiotic Stress
title_short Genome-Wide Identification of Apple Atypical bHLH Subfamily PRE Members and Functional Characterization of MdPRE4.3 in Response to Abiotic Stress
title_sort genome-wide identification of apple atypical bhlh subfamily pre members and functional characterization of mdpre4.3 in response to abiotic stress
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8987198/
https://www.ncbi.nlm.nih.gov/pubmed/35401662
http://dx.doi.org/10.3389/fgene.2022.846559
work_keys_str_mv AT litong genomewideidentificationofappleatypicalbhlhsubfamilypremembersandfunctionalcharacterizationofmdpre43inresponsetoabioticstress
AT shiyan genomewideidentificationofappleatypicalbhlhsubfamilypremembersandfunctionalcharacterizationofmdpre43inresponsetoabioticstress
AT zhubaihui genomewideidentificationofappleatypicalbhlhsubfamilypremembersandfunctionalcharacterizationofmdpre43inresponsetoabioticstress
AT zhangtianen genomewideidentificationofappleatypicalbhlhsubfamilypremembersandfunctionalcharacterizationofmdpre43inresponsetoabioticstress
AT fengziquan genomewideidentificationofappleatypicalbhlhsubfamilypremembersandfunctionalcharacterizationofmdpre43inresponsetoabioticstress
AT wangxiaofei genomewideidentificationofappleatypicalbhlhsubfamilypremembersandfunctionalcharacterizationofmdpre43inresponsetoabioticstress
AT lixiuming genomewideidentificationofappleatypicalbhlhsubfamilypremembersandfunctionalcharacterizationofmdpre43inresponsetoabioticstress
AT youchunxiang genomewideidentificationofappleatypicalbhlhsubfamilypremembersandfunctionalcharacterizationofmdpre43inresponsetoabioticstress