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蓝莓中 WOX 基因的全基因组预测和功能分析。

Genome-wide prediction and functional analysis of WOX genes in blueberry.

机构信息

The Engineering Research Institute of Agriculture and Forestry, Ludong University, Yantai, 264025, Shandong, China.

Bestplant (Shandong) Stem Cell Engineering Co., Ltd, 300 Changjiang Road, Yantai, 264001, Shandong, China.

出版信息

BMC Genomics. 2024 May 2;25(1):434. doi: 10.1186/s12864-024-10356-5.

DOI:10.1186/s12864-024-10356-5
PMID:38693497
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11064388/
Abstract

BACKGROUND

WOX genes are a class of plant-specific transcription factors. The WUSCHEL-related homeobox (WOX) family is a member of the homeobox transcription factor superfamily. Previous studies have shown that WOX members play important roles in plant growth and development. However, studies of the WOX gene family in blueberry plants have not been reported.

RESULTS

In order to understand the biological function of the WOX gene family in blueberries, bioinformatics were used methods to identify WOX gene family members in the blueberry genome, and analyzed the basic physical and chemical properties, gene structure, gene motifs, promoter cis-acting elements, chromosome location, evolutionary relationships, expression pattern of these family members and predicted their functions. Finally, 12 genes containing the WOX domain were identified and found to be distributed on eight chromosomes. Phylogenetic tree analysis showed that the blueberry WOX gene family had three major branches: ancient branch, middle branch, and WUS branch. Blueberry WOX gene family protein sequences differ in amino acid number, molecular weight, isoelectric point and hydrophobicity. Predictive analysis of promoter cis-acting elements showed that the promoters of the VdWOX genes contained abundant light response, hormone, and stress response elements. The VdWOX genes were induced to express in both stems and leaves in response to salt and drought stress.

CONCLUSIONS

Our results provided comprehensive characteristics of the WOX gene family and important clues for further exploration of its role in the growth, development and resistance to various stress in blueberry plants.

摘要

背景

WOX 基因是一类植物特异性转录因子。WUSCHEL 相关同源盒（WOX）家族是同源盒转录因子超家族的成员。先前的研究表明，WOX 成员在植物生长和发育中发挥重要作用。然而，关于蓝莓植物 WOX 基因家族的研究尚未见报道。

结果

为了了解 WOX 基因家族在蓝莓中的生物学功能，采用生物信息学方法鉴定了蓝莓基因组中的 WOX 基因家族成员，并对这些家族成员的基本理化性质、基因结构、基因基序、启动子顺式作用元件、染色体定位、进化关系、表达模式进行了分析，并预测了它们的功能。最终鉴定出 12 个含有 WOX 结构域的基因，这些基因分布在 8 条染色体上。系统进化树分析表明，蓝莓 WOX 基因家族具有三个主要分支：古老分支、中间分支和 WUS 分支。蓝莓 WOX 基因家族蛋白序列在氨基酸数量、分子量、等电点和疏水性方面存在差异。启动子顺式作用元件预测分析表明，VdWOX 基因的启动子含有丰富的光响应、激素和应激响应元件。VdWOX 基因在茎和叶中均受盐和干旱胁迫诱导表达。

结论

本研究结果为进一步探讨 WOX 基因在蓝莓生长、发育和对各种胁迫的抗性中的作用提供了全面的特征和重要线索。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/fa42bb36db9f/12864_2024_10356_Fig10_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/7b1edf184af6/12864_2024_10356_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/aab4d2413953/12864_2024_10356_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/e64413f96170/12864_2024_10356_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/8bb897438d0e/12864_2024_10356_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/22cc8653b090/12864_2024_10356_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/2333f78f1f1d/12864_2024_10356_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/dacebd7b2732/12864_2024_10356_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/d73d35d31591/12864_2024_10356_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/3a5d3438e1e0/12864_2024_10356_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/fa42bb36db9f/12864_2024_10356_Fig10_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/7b1edf184af6/12864_2024_10356_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/aab4d2413953/12864_2024_10356_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/e64413f96170/12864_2024_10356_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/8bb897438d0e/12864_2024_10356_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/22cc8653b090/12864_2024_10356_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/2333f78f1f1d/12864_2024_10356_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/dacebd7b2732/12864_2024_10356_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/d73d35d31591/12864_2024_10356_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/3a5d3438e1e0/12864_2024_10356_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/7bb9/11064388/fa42bb36db9f/12864_2024_10356_Fig10_HTML.jpg

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