大麻<i>PEBP</i>基因家族鉴定及生物信息学分析

陈晗; 徐洪国; 王志刚; 徐伟慧; 葛宵启; 祁宏英

doi:10.19303/j.issn.1008-0384.2022.008.007

大麻PEBP基因家族鉴定及生物信息学分析

doi: 10.19303/j.issn.1008-0384.2022.008.007

陈晗^1,,
徐洪国^{1, 2},
王志刚^{1, 2},
徐伟慧^{1, 2},
葛宵启¹,
祁宏英^{1, 2, ,}

1.
齐齐哈尔大学生命科学与农林学院，黑龙江　齐齐哈尔　161006
2.
寒区麻及制品教育部工程研究中心，黑龙江　齐齐哈尔　161006

基金项目: 黑龙江省省属本科高校基本科研业务费工业大麻专项（135409704）

详细信息

作者简介:
陈晗（1998−），女，硕士研究生，研究方向：园艺植物遗传育种（E-mail： c17645247798@163.com）

通讯作者:
祁宏英（1976−），女，硕士，副教授，研究方向：园艺植物遗传育种（E-mail：qihongying1976@163.com）

中图分类号: S 668.4
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- 文章访问数: 483
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- 被引次数: 0
出版历程
- 收稿日期: 2022-03-02
- 录用日期: 2022-03-02
- 修回日期: 2022-06-02
- 网络出版日期: 2022-08-08
- 刊出日期: 2022-08-28

Identification and Bioinformatics of PEBP Family in Hemp

CHEN Han^1
,,
XU Hongguo^{1, 2},
WANG Zhigang^{1, 2},
XU Weihui^{1, 2},
GE Xiaoqi¹,
QI Hongying^{1, 2
, ,}

1.
College of Life Sciences, Agriculture and Forestry, Qiqihar University, Qiqihar, Heilongjiang　161006, China
2.
Engineering Research Center of Hemp and Hemp Products in Cold Regions, Ministry of Education, Qiqihar, Heilongjiang　161006, China

摘要

摘要: 目的对大麻中磷脂酰乙醇胺结合蛋白（phosphatidyl ethanolamine binding protein, PEBP）进行鉴定和生物信息学分析，为PEBP基因家族调控大麻的生长发育及开花奠定基础。方法以拟南芥PEBP家族基因作为参考序列，利用NCBI、MEME、TBtools等生物信息学工具对已有的大麻基因组数据进行筛选并鉴定大麻PEBP基因。结果从大麻基因组中共筛选出12个PEBP基因，分为FT-LIKE、TFL-LIKE、MET-LIKE三个亚家族，均为亲水性蛋白，分布于细胞质与细胞核中；motif1-motif5为大麻PEBP基因的特征基序，定位在7条染色体上。大麻PEBP基因含有2个外显子及2个以上内含子，其启动子主要含有光反应顺式调节元件、各类激素顺式调控元件，编码蛋白主要由无规则卷曲构成。结论共鉴定出12个CsPEBP基因家族成员，通过motif分析、多物种构建进化树，确定大麻PEBP基因具有高度保守性，并预测和分析其潜在的分子功能。
- 工业大麻 /
- PEBP基因 /
- 功能鉴定 /
- 生物信息学分析
Abstract: Objective The phosphatidyl ethanolamine binding protein (PEBP) in Cannabis sativa L. (hemp) was identified and bioinformatics of the gene family analyzed. Method Using the PEBP family of arabidopsis as reference, the existing genome data on C. sativa were collected by NCBI, MEME, and TBtools. Result Twelve PEBPs were identified from the database. They were divided into 3 subfamilies as FT-like, TFL-like, and MET-like. These hydrophilic proteins were distributed in cytoplasm and nucleus with the characteristic motif1-motif5 of cannabis PEBP that located on 7 chromosomes. The genes contained 2 exons and more than 2 introns with a promoter containing mainly light-responsive cis-regulatory elements and various hormone cis-regulatory elements. The encoded protein composed basically of random coils. Result Twelve genes in the PEBP family of C. sativa were identified with their potential molecular functions analyzed.
- Cannabis sativa L. (hemp) /
- PEBP family /
- functional identification /
- bioinformatics analysis

HTML全文

图 1 大麻CsPEBPs基因motif预测

Figure 1. Prediction motifs of C. sativa CsPEBPs

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图 2 大麻CsPEBPs基因结构

Figure 2. Structure of C. sativa CsPEBPs

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图 3 大麻CsPEBPs基因在染色体上的定位

Figure 3. Mapping of C. sativa CsPEBPs on chromosome

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图 4 大麻与拟南芥、水稻PEBP基因家族系统进化树

A：粉色为拟南芥PEBP基因家族，蓝色为大麻PEBP基因家族，黄色为水稻PEBP基因家族；B：★为FT-LKE亚家族，▲TFL1-LKE亚家族，●MFT-LIKE亚家族。

Figure 4. Phylogenetic trees of PEBP family of hemp, rice, and arabidopsis

A: pink indicates PEBP family of arabidopsis; blue, that of hemp; yellow, that of rice. B: ★ indicates FT-like subfamily; ▲, TFL-like subfamily; and ●, MFT-like subfamily.

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图 5 大麻CsPEBPs基因启动子区顺式作用元件

注：A：脱落酸反应顺式作用元件；B：赤霉素反应元件；C：光反应顺式调节元件；D：玉米醇溶蛋白代谢调节顺式调节元件；E：茉莉酸响应元件；F：分生组织表达调控顺式作用元件；G：厌干旱诱导顺式作用元件氧诱导顺式作用元件；H：干旱诱导顺式作用元件；I：水杨酸响应元件；J：防御和应激反应响应元件;K:低温响应元件；L：昼夜节律调控顺式作用元件。

Figure 5. Cis-acting elements in the promoter region of C. sativa CsPEBPs genes

A: cis-acting element involved in abscisic acid responsiveness; B: gibberellin-responsive element; C: cis-acting regulatory element involved in light responsiveness; D: cis-acting regulatory element involved in zein metabolism regulation; E: cis-acting regulatory element involved in MeJA-responsiveness; F: cis-acting regulatory element related to meristem expression; G: cis-acting regulatory element essential for anaerobic induction; H: MYB binding site involved in drought-inducibility; I: cis-acting element involved in salicylic acid responsiveness; J: cis-acting element involved in defense and stress responsiveness; K: cis-acting element involved in low-temperature responsiveness; L: cis-acting regulatory element involved in circadian control.

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图 6 大麻CsPEBPs蛋白的二级结构在线预测结果

Figure 6. Online prediction of secondary structure of CsPEBP protein

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图 7 大麻CsPEBPs蛋白的三级结构空间构象

Figure 7. A spatial conformation of tertiary structure of CsPEBP protein

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表 1 大麻CsPEBPs基因的理化性质分析

Table 1. Physicochemical properties of C. sativa CsPEBPs

基因名称 Gene name	氨基酸数量 Amino acid quantity	等电点 IP	分子质量 Molecular mass	不稳定指数 Instability index	脂溶指数 Lipid soluble index	总平均疏水指数 Total average hydrophobic index	亚细胞定位 Subcellular localization
CsPEBP1	176	7.78	19873.40	34.82	77.39	−0.430	细胞核 Nucleus
CsPEBP2	180	7.76	20187.73	38.50	72.94	−0.418	细胞核 Nucleus
CsPEBP3	175	9.12	19635.39	45.54	72.29	−0.373	细胞质 Cytoplasm
CsPEBP4	190	8.62	21595.23	36.27	74.79	−0.545	细胞核 Nucleus
CsPEBP5	175	6.97	19315.10	56.79	79.71	−0.298	细胞核、细胞质 Nucleus、cytoplasm
CsPEBP6	172	8.95	19283.14	42.94	80.93	−0.197	细胞质 Cytoplasm
CsPEBP7	176	7.73	19642.25	40.09	79.09	−0.296	细胞核 Nucleus
CsPEBP8	174	8.93	19019.01	31.52	88.91	−0.056	细胞核、细胞质 Nucleus、cytoplasm
CsPEBP9	174	8.93	19019.01	31.52	88.91	−0.056	细胞核、细胞质 Nucleus、cytoplasm
CsPEBP10	178	9.20	19988.82	41.46	83.15	−0.292	细胞质 Cytoplasm
CsPEBP11	184	6.09	20758.75	30.72	80.98	−0.243	细胞质 Cytoplasm
CsPEBP12	175	9.41	20015.05	45.92	76.17	−0.287	细胞质 Cytoplasm

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表 2 大麻CsPEBPs蛋白质的二级结构预测

Table 2. Predicted secondary structure of CsPEBP protein (%)

基因名称 Gene name	α-螺旋 Alpha helix	β-折叠 Beta turn	延伸链 Extended strand	无规则卷曲 Random coil
CsPEBP1	14.20	4.55	25.00	56.25
CsPEBP2	13.89	5.00	27.22	53.89
CsPEBP3	16.57	4.00	22.86	56.57
CsPEBP4	13.68	4.21	25.79	56.32
CsPEBP5	17.14	3.43	23.43	56.00
CsPEBP6	16.86	4.65	23.84	54.65
CsPEBP7	13.07	5.68	25.00	56.25
CsPEBP8	16.67	3.45	22.41	57.47
CsPEBP9	16.67	3.45	22.41	57.47
CsPEBP10	16.29	7.30	24.16	52.25
CsPEBP11	19.02	3.80	22.83	54.35
CsPEBP12	14.86	3.43	24.57	57.14

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