The BBX gene family in Moso bamboo ( <i>Phyllostachys edulis</i>): identification, characterization and expression profiles

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Abstract

Background

The BBX (B-box) family are zinc finger protein (ZFP) transcription factors that play an essential role in plant growth, development and response to abiotic stresses. Although BBX genes have been characterized in many model organisms, genome-wide identification of the BBX family genes have not yet been reported in Moso bamboo ( Phyllostachys edulis), and the biological functions of this family remain unknown.

Result

In the present study, we identified 27 BBX genes in the genome of Moso bamboo, and analysis of their conserved motifs and multiple sequence alignments revealed that they all shared highly similar structures. Additionally, phylogenetic and homology analyses indicated that PeBBX genes were divided into three clusters, with whole-genome duplication (WGD) events having facilitated the expansion of this gene family. Light-responsive and stress-related cis-elements were identified by analyzing cis-elements in the promoters of all PeBBX genes. Short time-series expression miner (STEM) analysis revealed that the PeBBX genes had spatiotemporal-specific expression patterns and were likely involved in the growth and development of bamboo shoots. We further explored the downstream target genes of PeBBXs, and GO/KEGG enrichment analysis predicted multiple functions of BBX target genes, including those encoding enzymes involved in plant photosynthesis, pyruvate metabolism and glycolysis/gluconeogenesis.

Conclusions

In conclusion, we analyzed the PeBBX genes at multiple different levels, which will contribute to further studies of the BBX family and provide valuable information for the functional validation of this family.

Supplementary Information

The online version contains supplementary material available at 10.1186/s12864-021-07821-w.

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Most cited references 90

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Author and article information

Contributors

Zhijun Zhang: zjzhang@zafu.edu.cn

Journal

Journal ID (nlm-ta): BMC Genomics

Journal ID (iso-abbrev): BMC Genomics

Title: BMC Genomics

Publisher: BioMed Central (London )

ISSN (Electronic): 1471-2164

Publication date (Electronic): 13 July 2021

Publication date PMC-release: 13 July 2021

Publication date Collection: 2021

Volume: 22

Electronic Location Identifier: 533

Affiliations

[1 ]GRID grid.443483.c, ISNI 0000 0000 9152 7385, State Key Laboratory of Subtropical Forest Cultivation, , Zhejiang A&F University, ; Lin’an, Zhejiang 311300 Hangzhou, China

[2 ]GRID grid.443483.c, ISNI 0000 0000 9152 7385, School of Forestry and Biotechnology, , Zhejiang A&F University, ; Lin’an, Zhejiang 311300 Hangzhou, China

Article

Publisher ID: 7821

DOI: 10.1186/s12864-021-07821-w

PMC ID: 8276415

PubMed ID: 34256690

SO-VID: b7db2aab-0988-46f1-9ea7-bf68c59c0a54

License:

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/. The Creative Commons Public Domain Dedication waiver ( http://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.

History

Date received : 5 March 2021

Date accepted : 17 June 2021

Funding

Funded by: FundRef http://dx.doi.org/10.13039/501100001809, National Natural Science Foundation of China;

Award ID: 31770721

Custom metadata

ScienceOpen disciplines: Genetics

Keywords: moso bamboo,gene family,expression analysis,characterization

Data availability:

ScienceOpen disciplines: Genetics

Keywords: moso bamboo, gene family, expression analysis, characterization

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The BBX gene family in Moso bamboo ( Phyllostachys edulis): identification, characterization and expression profiles

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Abstract

Background

Result

Conclusions

Supplementary Information

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G3: Genes|Genomes|Genetics

Most cited references 90

Cytoscape: a software environment for integrated models of biomolecular interaction networks.

Basic local alignment search tool.

TBtools - an integrative toolkit developed for interactive analyses of big biological data

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Contributors

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Affiliations

Article

History

Funding

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Similar content 339

Cited by 11

Most referenced authors 1,947