Computational identification and systematic classification of cytochrome P450 genes in Pogostemon cablin provide insights into flavonoids biosynthesis

Li, Junjun; Deng, Cao; Liu, Mengjia; He, Yang

doi:10.1007/s11738-023-03531-w

Cited by 3 publications

(3 citation statements)

References 35 publications

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“…For example, there were 145 CYP genes in patchouli (Li et al, 2023), F I G U R E 5 Expression profiles of A-type (A) and non-A-type (B) SlCYP genes in different stages and tissues of tomato. The heat map was constructed based on the TPM values of SlCYPs.…”

Section: Discussionmentioning

confidence: 99%

“…It was found that the number of CYP family genes varied among different plants. For example, there were 145 CYP genes in patchouli (Li et al, 2023), 174 in mulberry (Ma et al, 2014), 301 in citrus (Liu et al, 2023), and 258 in Chinese cabbage (Zhang et al, 2021). Previous reports revealed that ~20% identity was observed among these large number of plant CYP families by BLAST alignments while a common three‐dimensional architecture was shared in the whole CYP proteins, suggesting that plant CYP proteins showed a diverse amino acid sequence (Hansen et al, 2021).…”

Section: Discussionmentioning

confidence: 99%

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Genome‐wide characterization of cytochrome P450 genes reveals the potential roles in fruit ripening and response to cold stress in tomato

Tang,

Zhang,

Lin

et al. 2024

Physiologia Plantarum

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Plant cytochrome P450 (CYP) superfamily, the largest enzyme metabolism family, has been identified in many species and plays a vital role in plant development and stress response via secondary metabolite biosynthesis. A comprehensive identification and functional investigation of CYPs in tomato plants would contribute to deeper understanding of their biological significance. In this study, 268 tomato CYP genes were identified and found to be unevenly located on 12 chromosomes. Based on the phylogenetic analysis, these 268 SlCYPs were classed into two distinct clades (A‐type and non‐A‐type) and nine clans, including 48 families. Moreover, 67 tandem and 22 WGD (whole genome duplication)/segmental duplication events were detected, of which 12 SlCYP genes experienced both WGD/segmental and tandem duplication events, indicating that tandem duplication plays a major role in the expansion of the SlCYP family. Besides, 48 pairs containing 41 SlCYP and 44 AtCYP genes were orthologous, while 216 orthologous pairs were obtained between tomato and potato. The expression level of all SlCYP genes in tomato tissues at different development stages was analyzed, and most expressed SlCYPs showed a tissue‐specific pattern. Meanwhile, 143 differentially expressed SlCYPs were identified under cold stress. Furthermore, the RT‐qPCR results indicated that SlCYPs may be involved in fruit ripening and cold tolerance in tomato seedlings. These findings provide valuable insights into the evolutionary relationships and functional characteristics of SlCYPs, which can be utilized for further investigation of fruit metabolic pathways and cold tolerance in tomato.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Genome‐wide characterization of cytochrome P450 genes reveals the potential roles in fruit ripening and response to cold stress in tomato

Tang,

Zhang,

Lin

et al. 2024

Physiologia Plantarum

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“…Insect tolerance [55] CYP79 Cyanogenic glucosides biosynthesis [56] Catharanthus roseus CYP72A1 Alkaloid biosynthesis Disease resistance [57] Ocimum basilicum CYP82D Biosynthesis of different secondary metabolites [58] Vitis vinifera CYP75 Flavonoid biosynthesis [59] Gossypium arboreum CYP706B1 Alteration of the isoprenoid pathway [60] Symphytum tuberosum CYP86A33 Biosynthesis of suberin [36] Pogostemon cablin CYP71, CYP77, CYP81, CYP82 Biosynthesis of sesquiterpenes [61] Citrus sp. UV-B-induced CYP gene Biosynthesis of 3 -hydroxylated flavonoids [62] Cajanus cajan CYP75B165 Biosynthesis of flavonoids [63] Glycine max CYP82D26 Isoflavonoid pathway biosynthesis [64] Legumes CYP93C Synthesis of legume specific isoflavonoid [65] Land plants CYP93B, CYP93E, CYP93G Saponin biosynthesis [66] Higher plants CYP74A Synthesis of allene oxide Biotic stress resistance [67]…”

Section: Biosynthesis Of the Cyanogenic Glucosidementioning

confidence: 99%

Cytochrome P450 Gene Families: Role in Plant Secondary Metabolites Production and Plant Defense

Chakraborty

Biswas

Dey

et al. 2023

JoX

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Cytochrome P450s (CYPs) are the most prominent family of enzymes involved in NADPH- and O2-dependent hydroxylation processes throughout all spheres of life. CYPs are crucial for the detoxification of xenobiotics in plants, insects, and other organisms. In addition to performing this function, CYPs serve as flexible catalysts and are essential for producing secondary metabolites, antioxidants, and phytohormones in higher plants. Numerous biotic and abiotic stresses frequently affect the growth and development of plants. They cause a dramatic decrease in crop yield and a deterioration in crop quality. Plants protect themselves against these stresses through different mechanisms, which are accomplished by the active participation of CYPs in several biosynthetic and detoxifying pathways. There are immense potentialities for using CYPs as a candidate for developing agricultural crop species resistant to biotic and abiotic stressors. This review provides an overview of the plant CYP families and their functions to plant secondary metabolite production and defense against different biotic and abiotic stresses.

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Comprehensive Review on Plant Cytochrome P450 Evolution: Copy Number, Diversity, and Motif Analysis From Chlorophyta to Dicotyledoneae

Fang,

Tai,

et al. 2024

Genome Biology and Evolution

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Cytochrome P450 enzymes (CYPs) are widely distributed among various plant groups and constitute approximately 1% of the total number of protein-coding genes. Extensive studies suggest that CYPs are involved in nearly all molecular processes that occur in plants. Over the past two decades, the identification of CYP genes has expanded rapidly, with more than 40,000 CYP genes and 819 CYP families being discovered. Copy number variation is a significant evolutionary characteristic of gene families, yet a systematic characterization of the copy evolution patterns in plant CYP gene families has been lacking, resulting in confusion and challenges in understanding CYP functions. To address these concerns, this review provides comprehensive statistics and analyses of the copy number and diversity of almost all plant CYP gene families, focusing on CYP evolution from Chlorophyta to Dicotyledoneae. Additionally, we examined the subfamily characteristics of certain CYP families with restricted copy changes and identify several CYP subfamilies that play pivotal roles in this event. Furthermore, we analyzed the structural conservation of CYPs across different taxa and compiled a comprehensive database to support plant CYP studies. Our analysis revealed differences in the six core conserved motifs of plant CYP proteins among various clans and plant taxa, while demonstrating similar conservation patterns for the ERR (Glutamic Acid-Arginine-Arginine) triad motifs. These findings will significantly facilitate the understanding of plant CYP gene evolution and metabolic diversity and serve as a valuable reference for researchers studying CYP enzymes.

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Computational identification and systematic classification of cytochrome P450 genes in Pogostemon cablin provide insights into flavonoids biosynthesis

Cited by 3 publications

References 35 publications

Genome‐wide characterization of cytochrome P450 genes reveals the potential roles in fruit ripening and response to cold stress in tomato

Genome‐wide characterization of cytochrome P450 genes reveals the potential roles in fruit ripening and response to cold stress in tomato

Cytochrome P450 Gene Families: Role in Plant Secondary Metabolites Production and Plant Defense

Comprehensive Review on Plant Cytochrome P450 Evolution: Copy Number, Diversity, and Motif Analysis From Chlorophyta to Dicotyledoneae

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