杨树磷酸肌醇特异性磷脂酶C基因家族鉴定与分析

张杰伟; 丁莉萍; 陈亚娟; 王宏芝; 魏建华

doi:10.19303/j.issn.1008-0384.2016.11.008

杨树磷酸肌醇特异性磷脂酶C基因家族鉴定与分析

doi: 10.19303/j.issn.1008-0384.2016.11.008

张杰伟^{1, 2,},
丁莉萍^{1, 2,},
陈亚娟^{1, 2},
王宏芝^{1, 2, ,},
魏建华^{1, 2, ,}

1.
北京市农林科学院北京农业生物技术研究中心, 北京 100097
2.
农业基因资源与生物技术北京市重点实验室, 北京 100097

基金项目:

国家高技术研究发展计划（863）项目 2013AA102702

国家自然科学基金 31270593

北京市自然科学基金 6163028

北京市农林科学院青年科研基金 QNJJ201416

详细信息

作者简介:
张杰伟(1982-),男,博士,副研究员,研究方向:林木分子生物学(E-mail:jwzhang919@163.com)

丁莉萍(1979-),女,助理研究员,研究方向:林木分子生物学(E-mail:dingluo2011@126.com)

通讯作者:
王宏芝(1970-),副研究员,研究方向:林木分子生物学(E-mail:wanghongzhi@baafs.net.cn)

魏建华(1971-),研究员,研究方向:林木分子生物学(E-mail:weijianhua@baafs.net.cn)

中图分类号: Q945.78;S601
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- 文章访问数: 1457
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- 被引次数: 0
出版历程
- 收稿日期: 2016-07-07
- 修回日期: 2016-10-24
- 刊出日期: 2016-11-01

Genome-wide Analysis and Identification of Phosphoinositide-specific Phospholipase C Gene Family in Poplar (Populus trichocarpa)

ZHANG Jie-wei^{1, 2
,},
DING Li-ping^{1, 2
,},
CHEN Ya-juan^{1, 2},
WANG Hong-zhi^{1, 2
, ,},
WEI Jian-hua^{1, 2
, ,}

1.
Beijing Agro-Biotechnology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing 100097, China
2.
Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Beijing 100097, China

摘要

摘要: 为了对已测序杨树Populus trichocarpa Torr. & Gray中磷酸肌醇特异性磷脂酶C（phosphoinositide-specific phospholipase C，PI-PLC）家族基因进行系统分析，利用杨树基因组数据库，通过生物信息学手段，鉴定杨树PI-PLC 家族基因的基因结构、染色体定位和编码蛋白，通过蛋白序列比对进行进化和分类分析。结果表明，杨树中含有7个PI-PLC家族基因，含有8~10个外显子，分布于杨树的4条染色体上。MEME和Pfam保守结构域分析显示，杨树PI-PLC蛋白均含有4个保守的EF、X、Y和C2结构域。蛋白质进化树分析结果表明PI-PLC可分为2个亚家族。
- 磷酸肌醇特异性磷脂酶C /
- 杨树 /
- 进化分析 /
- 基因家族
Abstract: Phosphoinositide-specific phospholipase C (PI-PLC) is a conserved key enzyme in phosphoinositide signaling for animals and plants. It plays an important role in growth and development, as well as various abiotic and biotic stresses in the organisms. Based upon the existing database and bioinformatics methodologies, PI-PLC family gene structures and their positions on chromosome and duplication for poplar (Populus trichocarpa Torr. & Gray) (Pt) were obtained. PI-PLC proteins were classified according to their phylogenetic relationship. The results showed that 7 PtPLC genes existed in the poplar genome on 4 chromosomes. Their multiple alignments and motif displays indicated that all of the PtPLC proteins contained 4 conserved domains (i.e., EF, X, Y, and C2). Phylogenetic analysis on the PtPLC family classified them into two groups. The information would be the basis for a study on the functions of PtPI-PLC gene family.
- PI-PLC /
- Populus trichocarpa /
- phylogeny analysis /
- gene family

HTML全文

图 1 杨树PI-PLC家族基因结构分析

Figure 1. Gene structure of the poplar PI-PLC gene family

下载: 全尺寸图片幻灯片

图 2 拟南芥和杨树的PI-PLC蛋白进化树

Figure 2. Phylogenetic tree for arabidopsis and PtPI-PLC proteins

下载: 全尺寸图片幻灯片

图 3 拟南芥和杨树的PI-PLC家族基因编码蛋白保守结构域分布

Figure 3. Distribution of conserved motifs in AtPLC and PtPLC proteins

下载: 全尺寸图片幻灯片

表 1 杨树PI-PLC家族基因的基本特征

Table 1. Characteristics of PI-PLC genes of poplar

基因名称	定位名称	转录名称	染色体定位染色体	开放阅读框位置	蛋白 /bp	外显子个数 /aa
PtPLC1	Potri.001G252100	1G252100.1	Chr01:26180768..26185026 forward	1761	586	9
PtPLC2	Potri.001G252300	1G252300.1	Chr01:26191421..26195808 forward	1842	613	10
PtPLC3	Potri.008G068300	8G068300.1	Chr08:4159193..4163941 forward	1845	614	9
PtPLC4	Potri.008G068400	8G068400.1	Chr08:4165486..4170103 forward	1773	590	9
PtPLC5	Potri.009G046600	9G046600.1	Chr09:5204380..5208632 forward	1749	582	8
PtPLC6	Potri.010G188800	10G188800.1	Chr10:18467139..18471555 reverse	1764	587	9
PtPLC7	Potri.010G188900	10G188900.1	Chr10:18476727..18481689 reverse	1845	614	9

下载: 导出CSV

表 2 杨树基因组中PI-PLC 蛋白氨基酸相似性分析

Table 2. Amino acid seque nce similarity analysis of the OtPLC proteins

PI-PLC 家族	PtPLC2	PtPLC3	PtPLC4	PtPLC5	PtPLC6	PtPLC7
PtPLC1	57.37	65.75	64.64	52.12	65.68	65.92
PtPLC2		57.50	62.17	67.55	62.11	57.17
PtPLC3			63.75	52.20	62.52	92.67
PtPLC4				54.97	88.93	63.92
PtPLC5					54.91	51.67
PtPLC6						63.39

下载: 导出CSV

表 3 杨树PtPLC1、4、6和7不同转录本的基本特征

Table 3. Characteristics of PtPLC1,4,6,and 7 genes

基因名称	定位名称	转录名称	别名	染色体定位染色体	开放阅读框位置	蛋白 /bp	外显子个数/aa
PtPLC1	Potri.001G252100	Potri.001G252100.1	POPTR_0001s25910/.v2.2/.1.v2.2	Chr01:26180768..26185026 +	1761	586	9
PtPLC1	Potri.001G252100	Potri.001G252100.2	POPTR_0001s25910/.v2.2	Chr01:26180768..26185025 +	1107	368	5
PtPLC1	Potri.001G252100	Potri.001G252100.3	POPTR_0001s25910/.v2.2	Chr01:26180768..26185025 +	1467	488	7
PtPLC1	Potri.001G252100	Potri.001G252100.4	POPTR_0001s25910/.v2.2	Chr01:26180768..26183407 +	1227	408	6
PtPLC4	Potri.008G068400	Potri.008G068400.1	POPTR_0008s06840/.v2.2/.1.v2.2	Chr08:4165486..4170103 +	1773	590	9
PtPLC4	Potri.008G068400	Potri.008G068400.2	POPTR_0008s06840/.v2.2	Chr08:4165517..4168012 +	1167	388	5
PtPLC6	Potri.010G188800	Potri.010G188800.1	POPTR_0010s19610/.v2.2/.1.v2.2	Chr10:18467139..18471555-	1764	587	9
PtPLC6	Potri.010G188800	Potri.010G188800.2	POPTR_0010s19610/.v2.2	Chr10:18467139..18471555-	1557	518	9
PtPLC6	Potri.010G188800	Potri.010G188800.3	POPTR_0010s19610/.v2.2	Chr10:18467139..18471555-	1518	505	8
PtPLC6	Potri.010G188800	Potri.010G188800.4	POPTR_0010s19610/.v2.2	Chr10:18467139..18471555-	1407	468	8
PtPLC6	Potri.010G188800	Potri.010G188800.5	POPTR_0010s19610/.v2.2	Chr10:18467139..18471555-	1122	373	6
PtPLC6	Potri.010G188800	Potri.010G188800.6	POPTR_0010s19610/.v2.2	Chr10:18467139..18470622-	1443	480	8
PtPLC7	Potri.010G188900	Potri.010G188900.1	POPTR_0010s19620/.v2.2	Chr10:18476727..18481689-	1845	614	9
PtPLC7	Potri.010G188900	Potri.010G188900.2	POPTR_0010s19620/.v2.2/.1.v2.2	Chr10:18476727..18481689-	1788	595	9
PtPLC7	Potri.010G188900	Potri.010G188900.3	POPTR_0010s19620/.v2.2	Chr10:18479368..18481446-	339	112	2

下载: 导出CSV

参考文献(23)

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杨树磷酸肌醇特异性磷脂酶C基因家族鉴定与分析

doi: 10.19303/j.issn.1008-0384.2016.11.008

作者简介:
张杰伟(1982-),男,博士,副研究员,研究方向:林木分子生物学(E-mail:jwzhang919@163.com)

丁莉萍(1979-),女,助理研究员,研究方向:林木分子生物学(E-mail:dingluo2011@126.com)

通讯作者:
王宏芝(1970-),副研究员,研究方向:林木分子生物学(E-mail:wanghongzhi@baafs.net.cn)

魏建华(1971-),研究员,研究方向:林木分子生物学(E-mail:weijianhua@baafs.net.cn)

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Genome-wide Analysis and Identification of Phosphoinositide-specific Phospholipase C Gene Family in Poplar (Populus trichocarpa)

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目录

留言板

杨树磷酸肌醇特异性磷脂酶C基因家族鉴定与分析

doi: 10.19303/j.issn.1008-0384.2016.11.008

作者简介: 张杰伟(1982-),男,博士,副研究员,研究方向:林木分子生物学(E-mail:jwzhang919@163.com) 丁莉萍(1979-),女,助理研究员,研究方向:林木分子生物学(E-mail:dingluo2011@126.com)

通讯作者: 王宏芝(1970-),副研究员,研究方向:林木分子生物学(E-mail:wanghongzhi@baafs.net.cn) 魏建华(1971-),研究员,研究方向:林木分子生物学(E-mail:weijianhua@baafs.net.cn)

计量

出版历程

Genome-wide Analysis and Identification of Phosphoinositide-specific Phospholipase C Gene Family in Poplar (Populus trichocarpa)

计量

出版历程

目录

作者简介:
张杰伟(1982-),男,博士,副研究员,研究方向:林木分子生物学(E-mail:jwzhang919@163.com)

丁莉萍(1979-),女,助理研究员,研究方向:林木分子生物学(E-mail:dingluo2011@126.com)

通讯作者:
王宏芝(1970-),副研究员,研究方向:林木分子生物学(E-mail:wanghongzhi@baafs.net.cn)

魏建华(1971-),研究员,研究方向:林木分子生物学(E-mail:weijianhua@baafs.net.cn)