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Cited by 119Plant Molecular Biology ResearchChromosomal and Genetic VariationsPlant Gene Expression Analysis

Comparative functional genomics analysis of cytochrome P450 gene superfamily in wheat and maize

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Li, Yixuan, Wei, Kaifa·2020·BMC Plant Biology
DOI 10.1186/s12870-020-2288-7PMC PMC7052972

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Abstract

Background: The cytochrome P450s (CYP450s) as the largest enzyme family of plant metabolism participate in various physiological processes, whereas no study has demonstrated interest in comprehensive comparison of the genes in wheat and maize. Genome-wide survey, characterization and comparison of wheat and maize CYP450 gene superfamily are useful for genetic manipulation of the Gramineae crops. Results: In total, 1285 and 263 full-length CYP450 s were identified in wheat and maize, respectively. According to standard nomenclature, wheat CYP450 s ( TaCYP450 s) were categorized into 45 families, while maize CYP450 s ( ZmCYP450 s) into 43 families. A comprehensive analysis of wheat and maize CYP450s, involved in functional domains, conserved motifs, phylogeny, gene structures, chromosome locations and duplicated events was performed. The result showed that each family/subfamily in both species exhibited characteristic features, suggesting their phylogenetic relationship and the potential divergence in their functions. Functional divergence analysis at the amino acid level of representative clans CYP51, CYP74 and CYP97 in wheat, maize and rice identified some critical amino acid sites that are responsible for functional divergence of a gene family. Expression profiles of Ta -, ZmCYP450 s were investigated using RNA-seq data, which contribute to infer the potential functions of the genes during development and stress responses. We found in both species CYP450 s had preferential expression in specific tissues, and many tissue-specific genes were identified. Under water-deficit condition, 82 and 39 significantly differentially expressed CYP450 s were respectively detected in wheat and maize. These genes may have some roles in protecting plants against drought damage. Thereinto, fourteen CYP450s were selected to validate their expression level through qRT-PCR. To further elucidating molecular mechanisms of CYP450 action, gene co-expression network was constructed. In total, 477 TaCYP450 s were distributed in 22 co-expression modules, and some co-expressed genes that likely take part in the same biochemical pathway were identified. For instance, the expression of TaCYP74A98_4D was highly correlated with TaLOX9 , TaLOX36 , TaLOX39 , TaLOX44 and TaOPR8 , and all of them may be involved in jasmonate (JA) biosynthesis. TaCYP73A201_3A showed coexpression with TaPAL1.25 , TaCCoAOMT1.2 , TaCOMT.1 , TaCCR1.6 and TaLAC5 , which probably act in the wheat stem and/or root lignin synthesis pathway. Conclusion: Our study first established systematic information about evolutionary relationship, expression pattern and function characterization of CYP450 s in wheat and maize.

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Authors
Li, Y., & Wei, K.
Affiliations
Minnan Normal University (CN)
Corresponding author
Wei, Kaifa
ORCID
Venue
BMC Plant Biology
Publisher
Springer Science and Business Media LLC
Published
2020-03-02
Volume
20
Issue
1
Pages
93-93
ISSN
1471-2229 (ISSN-L)
DOI
10.1186/s12870-020-2288-7
PMC
PMC7052972
OpenAlex
W3011561559
Cited by
119
References
4
Citations by year
2026: 14 · 2025: 17 · 2024: 18 · 2023: 20 · 2022: 17 · 2021: 26 · 2020: 7
FWCI
14.69
Type
journal article
Language
en
Open access
Licence
Locations
  • BMC Plant Biology (publishedVersion, cc-by)
  • Research Square (acceptedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
Topics
  • Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Molecular Biology Research
  • Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Plant Gene Expression Analysis
Keywords
cytochrome P450, wheat, maize, comparative genomics, gene family evolution, functional divergence, CYP51, gene duplication, gene expression profiling, drought stress, jasmonic acid biosynthesis, gene co-expression network
MeSH terms
Zea mays, Cytochrome P-450 Enzyme System, Multigene Family, Triticum, Genes, Plant, Genome, Plant, Genomics

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Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

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