植物线粒体和质体双定位蛋白质的带电特性分析

林授锴; 傅晓菲; 黄健; 陶欢; 徐超群; 刘伟; 张丽娜; 艾育芳; 何华勤

doi:10.19303/j.issn.1008-0384.2016.07.001

植物线粒体和质体双定位蛋白质的带电特性分析

doi: 10.19303/j.issn.1008-0384.2016.07.001

林授锴^{1, 2,},
傅晓菲¹,
黄健¹,
陶欢¹,
徐超群¹,
刘伟¹,
张丽娜¹,
艾育芳¹,
何华勤^1, ,

1.
福建农林大学生命科学学院, 福建福州 350002
2.
莆田学院环境与生物工程学院/福建省新型污染物生态毒理效应与控制重点实验室, 福建莆田 351100

基金项目:

国家自然科学基金 31270454、81502091

福建省自然科学基金 2016J01101

闽台作物特色种质创制与绿色栽培协同创新中心项目 2015-75

详细信息

作者简介:
林授锴(1984-),男,博士生,助理研究员,研究方向:植物分子生物学与生物信息学(E-mail:shoukai.lin@foxmail.com)

通讯作者:
何华勤(1968-),男,博士,教授,博士生导师,研究方向:植物分子生态学与生物信息学(E-mail:hehq3@fafu.edu.cn)

中图分类号: Q51
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出版历程
- 收稿日期: 2016-05-28
- 修回日期: 2016-06-18
- 刊出日期: 2016-07-01

Net Electric Charges of Dual Targeted Proteins in Mitochondria and Plastid of Plants

1.
College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
2.
College of Environmental and Biological Engineering/Fujian Provincial Key Laboratory of Ecology-toxicological Effects & Control for Emerging Contaminants, Putian University, Putian, Fujian 351100, China

摘要

摘要: 蛋白质亚细胞定位分析是揭示蛋白质功能的关键步骤。1个蛋白质分子能被定位到2个亚细胞位置，这一现象被称为蛋白质的“双定位”。本研究首先从Uniprot、MitoP2、MGI、TAIR、DBMLoc等蛋白质数据库及已发表文献中收集双定位于线粒体与质体的植物蛋白质数据，共获得703个双定位蛋白质，组成测试数据集。再从Uniprot数据库中选取唯一定位于线粒体的829个和唯一定位于质体的6 376个植物蛋白质，组成参照数据集，分析双定位于线粒体与质体的植物蛋白质的带电特征。结果表明，与单定位于线粒体或质体的植物蛋白质相比，双定位线粒体与质体的植物蛋白质具有更低的净电荷量；此外，双定位蛋白质电荷分布较为集中对称，线粒体蛋白质次之，质体蛋白质最为分散。本文研究结果将为揭示植物蛋白质双定位的分子机制奠定理论基础。
- 植物 /
- 双定位蛋白质 /
- 线粒体 /
- 质体 /
- 带电特性
Abstract: Protein targeting is an important tool to determine the functionality of a protein. Adual targeted protein isa protein that located in two subcellular locations. It was estimated that more than 400 proteins were putatively targeted to mitochondria as well as plastid based on the ambiguous N-terminal pre-sequences in land plant genomes. In this study, the dual targeted proteins were searched against the protein databases of Uniprot, Mito P2, MGI, TAIR, and DBMLoc as well as the existing publications. A total of 703 proteins localized in both mitochondria and plastid in plants were collected. Whilst, 829 exclusive mitochondrial and 6 376 exclusive plastid proteins were downloaded from Uniprotfor comparison. The net electric charges of the dual targeted proteins were analyzed based on these 3 data sets. The results indicated the net charge of the plant dual targeted proteins was significantly lower than that of the proteins exclusively existed in mitochondrial or plastid. The charge differentiation provideda critical clue for the study of the molecular mechanism of dual targeted proteins in plants.
- dual targeted protein /
- plant /
- mitochondria /
- plastid /
- net electric charge

HTML全文

图 1 植物双定位与单定位蛋白质净电荷分布的正态QQ

注：A为双定位蛋白质；B为线粒体蛋白质；C为质体蛋白质。

Figure 1. Q-Q plot of net charges of dual and single targeted proteins inplants

下载: 全尺寸图片幻灯片

图 2 3种蛋白质数据集净电荷的箱线

Figure 2. Boxplot for net charges of 3 protein data sets

下载: 全尺寸图片幻灯片

表 1 双定位于质体和线粒体、单定位于质体或线粒体的植物蛋白质及其转运肽数量

Table 1. Quantities of dual targeted,mitochondrion,and plastid proteins in plants

数据集	蛋白质数量/个	转运肽数量/个
双定位蛋白质	703	17
单定位于线粒体蛋白质	829	376
单定位于质体蛋白质	6376	686

下载: 导出CSV

表 2 不同物种中鉴定的植物双定位蛋白质

Table 2. Numbers of identified dual targeted proteins in mitochondrion and plastid in differentplant species

物种	蛋白质数量/个	比例/%
拟南芥Arabidopsis thaliana	669	95.16
水稻Oryza sativa	11	1.56
玉米Zea mays	4	0.57
烟草Nicotiana tabacum	3	0.43
橡胶树Hevea brasiliensis	3	0.43
美花烟草Nicotiana sylvestris	2	0.28
小立碗藓Physcomitrella patens	2	0.28
本氏烟Nicotiana benthamiana	2	0.28
陆地棉Gossypium hirsutum	2	0.28
草莓Fragaria ananassa	1	0.14

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表 3 3个蛋白质数据集净电荷的基本统计数值

Table 3. Basic statistics of electric charges of 3 protein datasets

	N	Median	Mean	Sd
dual targeted proteins	703	4	4.32055	11.80667
mitochondria proteins	829	10.5	11.93426	12.45905
plastid proteins	6376	13	14.59857	18.07391
注：*N代表数据集包含的总数，Median代表数据集的中位数，Mean代表数据集的平均值，Sd代表数据集的标准差。

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表 4 连续修正的左边Mann-Whitney秩和检验

Table 4. Left sided Mann-Whitney rank sum test with continuity correction

	线粒体蛋白质	质体蛋白质
双定位蛋白质	W=184273.5,p-value,＜2.2e-16	W=1336275,p-value＜2.2e-16
线粒体蛋白质	-	W = 2405490,p-value=9.898e-06
质体蛋白质	-	-
注：W是Wilcoxon-MannWhitne统计量。

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