马丙酮酸脱氢酶激酶4基因序列生物信息学分析

doi:10.12160/j.issn.1672-5190.2019.11.001

畜牧与饲料科学 ›› 2019, Vol. 40 ›› Issue (11): 1-6.doi: 10.12160/j.issn.1672-5190.2019.11.001

• 基础研究 • 下一篇

马丙酮酸脱氢酶激酶4基因序列生物信息学分析

陈建兴¹, 马芷妍¹, 刘永斌², 刘娟¹, 董彦飞¹, 孙玉江^3,4

1.赤峰学院化学与生命科学学院,内蒙古赤峰 024000;
2.内蒙古自治区农牧业科学院,内蒙古呼和浩特 010031;
3.青岛农业大学动物科技学院,山东青岛 266109;
4.东营职业学院,山东东营 257091

收稿日期:2019-08-14 出版日期:2019-11-30 发布日期:2019-12-19
通讯作者: 孙玉江（1963—）,男,教授,博士,主要研究方向为马属动物遗传育种与繁殖。
作者简介:陈建兴（1980—）,男,副教授,博士,主要从事马属动物分子遗传学方面的研究工作。
基金资助:
内蒙古自治区科学技术厅博士基金项目（2015; BS0310）; 山东省农业良种工程项目重大课题（2013lz016,2017LZGC020,2017LZN022）; 山东省现代农业产业技术体系驴创新团队建设专项基金（SDAIT-27）; 国家外国专家局教科文卫重点引智项目（20173702055,20183500044）

Bioinformatical Analysis of Horse Pyruvate Dehydrogenase Kinase 4（PDK4）GeneSequence

CHEN Jian-xing¹, MA Zhi-yan¹, LIU Yong-bin², LIU Juan¹, DONG Yan-fei¹, SUN Yu-jiang^3,4

1.College of Chemistry and Life Science,Chifeng University,Chifeng 024000,China;
2.Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences,Hohhot 010031,China;
3.College of Animal Science and Technology,Qingdao Agricultural University,Qingdao 266109,China;
4.Vocational College of Dongying,Dongying 257091,China

Received:2019-08-14 Online:2019-11-30 Published:2019-12-19

摘要/Abstract

摘要： 通过采用生物信息学软件对马丙酮酸脱氢酶激酶4 （pyruvate dehydrogenase kinase 4,PDK4）基因序列进行生物信息学的初步研究分析,从而发现该酶基因序列编码特征及其二级结构规律。结果表明：马PDK4的CDS区AUU、AUG和GAU密码子出现的次数最多（14次）,分别占总413个密码子的34‰。未参与编码的密码子UGC的RSCU值最小（为0）,ACA密码子的RSCU为最大值2.22,CAU、CAC、CGA、AAA、AAG 5个密码子的RSCU值为1（即未发现密码子使用偏好）。马PDK4的CDS区共翻译出412个氨基酸,这些氨基酸以亮氨酸的比例最高,色氨酸的比例最低。PDK4的蛋白质二级结构以无规则卷曲为主,β折叠和α螺旋为辅,构成其复杂的空间结构。马PDK4多肽链中亲水性氨基酸分布多于疏水性氨基酸,PDK4蛋白质整体疏水性较差。预测马PDK4多肽链的等电点为6.64。

关键词: 肌酸激酶, 生物信息学分析, 二级结构, 同义氨基酸密码子相对使用度

Abstract: In order to reveal the coding characteristics and the secondary structure of pyruvate dehydrogenase kinase 4 （PDK4） gene in horse, the gene sequence of horse PDK4 was analyzed by using bioinformatical software. The results showed that in the CDS region of horse PDK4, the most frequently observed codons were AUU, AUG and GAU （14 times）, accounting for 34‰ of all the codons （413）. The minimum RSCU value （0） was found in UGC codon which was not involved in the coding region, the maximum RSCU value （2.22） was observed in the ACA codon, and the RSCU value of the five codons of CAU, CAC, CGA, AAA and AAG was 1, indicating no codon usage bias was found in these codons. A total of 412 amino acids were translated in the CDS region of horse PDK4, with the highest proportion of leucine and the lowest proportion of tryptophan. The complicated secondary structure of the horse PDK4 protein was dominated by coils, and β-strands as well as α-helices were complementary. The distribution of hydrophilic amino acids in horse PDK4 protein was more frequently observed than that of the hydrophobic amino acids, and the overall hydrophobicity of PDK4 was poor. The predicted isoelectric point of PDK4 was 6.64.

Key words: creatine kinase, bioinformatical analysis, secondary structure, RSCU

中图分类号:

陈建兴, 马芷妍, 刘永斌, 刘娟, 董彦飞, 孙玉江. 马丙酮酸脱氢酶激酶4基因序列生物信息学分析[J]. 畜牧与饲料科学, 2019, 40(11): 1-6.

CHEN Jian-xing, MA Zhi-yan, LIU Yong-bin, LIU Juan, DONG Yan-fei, SUN Yu-jiang. Bioinformatical Analysis of Horse Pyruvate Dehydrogenase Kinase 4（PDK4）GeneSequence[J]. Animal Husbandry and Feed Science, 2019, 40(11): 1-6.

参考文献 13

[1]	陈建兴. 中国蒙古马的遗传多样性与系统发育及起源研究[D].呼和浩特:内蒙古农业大学,2012.
[2]	HINCHCLIFF K W, KANEPS A J, GEOR R J.Equine Exercise Physiology: The Science of Exercise in the Athletic Horse[M].Edinburgh: Saunders/Elsevier,2008. SCHRÖDER W, KLOSTERMANN A, DISTL O.Candidate genes for physical performance in the horse[J].Vet J,2011,190(1):39-48.
[3]	ZHU Y,MA W Q,HAN X Q,et al.Advanced glycation end products accelerate calcification in VSMCs through HIF-1α/PDK4 activation and suppress glucose metabolism[J].Sci Rep,2018,8(1):13730.
[4]	SUGDEN M C, HOLNESS M J.Mechanisms underlying regulation of the expression and activities of the mammalian pyruvate dehydrogenase kinases[J].Arch Physiol Biochem,2006,112(3):139-149.
[5]	曹行,何美升,于茜,等.伊犁马PDK4基因多态性与耐力性能的相关性研究[J].新疆农业大学学报, 2016,39(4):302-306.
[6]	瞿秋红,夏琴,崔悦悦,等.巴马香猪和杜长大猪的PDK4基因的克隆及组织表达分析[J/OL].基因组学与应用生物学:1-10[2019-07-25].http://kns.cnki.net/kcms/detail/45.1369.Q.20190611.1522.005.html.
[7]	郭维. 耐力训练对高脂膳食大鼠骨骼肌GLUT4、PDK4和AMPKα2基因表达的影响[D].上海:华东师范大学,2009.
[8]	菅记涌. PDK4基因在骨骼肌发育中功能的初步探讨[D].北京:中国协和医科大学,2008.
[9]	漆正堂,郭维,张媛,等.不同训练方式对静息骨骼肌糖酵解能力及线粒体PDK4、CPT-1基因转录的影响[J].体育科学,2009,29(3):38-42.
[10]	赵妤娟,许生友,姜润深,等.热应激下鸡肝脏SFRP1和PDK4基因表达水平研究[J].中国家禽,2012,34(15):12-15.
[11]	奚子英,何小梅,陈刚,等.鸡PDK4基因的克隆及组织差异表达研究[J].中国家禽,2015,37(15):6-10.
[12]	陈建兴,孙玉江,潘庆杰,等.驴生长激素基因序列初步分析[J].湖北农业科学,2015,54(7):1751-1754.
[13]	陈建兴,李静,姜兆兴,等.马PPAR-γ基因序列生物信息学初步分析[J].内蒙古农业大学学报(自然科学版),2018,39(2):1-7.

马丙酮酸脱氢酶激酶4基因序列生物信息学分析

Bioinformatical Analysis of Horse Pyruvate Dehydrogenase Kinase 4（PDK4）GeneSequence

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