[1]祝友朋,韩长志.里氏木霉与黏绿木霉中非核糖体肽合成酶的生物信息学分析[J].江苏农业学报,2020,(05):1119-1125.[doi:doi:10.3969/j.issn.1000-4440.2020.05.007]
　ZHU You-peng,HAN Chang-zhi.Bioinformatics analysis on non-ribosomal peptide synthetase in Trichoderma reesei and Trichoderma virens[J].,2020,(05):1119-1125.[doi:doi:10.3969/j.issn.1000-4440.2020.05.007]
点击复制

里氏木霉与黏绿木霉中非核糖体肽合成酶的生物信息学分析()
分享到：

江苏农业学报[ISSN:1006-6977/CN:61-1281/TN]

卷:
期数:
2020年05期
页码:
1119-1125
栏目:
遗传育种·生理生化
出版日期:
2020-10-31

文章信息/Info

Title:
Bioinformatics analysis on non-ribosomal peptide synthetase in Trichoderma reesei and Trichoderma virens
作者:
祝友朋; 韩长志
(西南林业大学生物多样性保护学院/云南省森林灾害预警与控制重点实验室，云南昆明650224)
Author(s):
ZHU You-peng; HAN Chang-zhi
(College of Biodiversity Conservation, Southwest Forestry University/Key Laboratory of Forest Disaster Warning and Control of Yunnan Province, Kunming 650224, China)
关键词:
里氏木霉; 黏绿木霉; 非核糖体肽合成酶（NRPS）; 理化性质; 生物信息学分析
Keywords:
Trichoderma reesei; Trichoderma virens; non-ribosomal peptide synthetase(NRPS); physical and chemical properties; bioinformatics analysis
分类号:
S435.1
DOI:
doi:10.3969/j.issn.1000-4440.2020.05.007
文献标志码:
A
摘要:
为了更好地解析里氏木霉和黏绿木霉在次生代谢产物关键基因方面的差异，以非核糖体肽合成酶（NRPS）为例，通过antiSMASH预测网站对上述2种木霉开展次生代谢产物基因找寻。结果表明，里氏木霉中含有87个NRPS蛋白，而黏绿木霉中含有214个NRPS蛋白，后者明显高于前者；同时，利用ProtComp v9.0、PHD等生物信息学预测网站对上述木霉中NRPS蛋白进行亚细胞定位、理化性质以及二级结构等特征分析，明确2种木霉中NRPS蛋白具有以下共同特征：理论等电点多集中在5.01至7.00之间，不稳定性系数多集中在30.01至50.00之间，高达75%以上的蛋白质属于亲水性蛋白质，而二级结构组成特征则以α螺旋为主，转运肽情况尚未明确，保守结构域较多，亚细胞定位多集中在线粒体等。
Abstract:
In order to better analyze the differences of the key genes of secondary metabolites between Trichoderma reesei and Trichoderma virens, the secondary metabolite genes of T. reesei and T. virens were searched through prediction website of antiSMASH, taking non-ribosomal peptide synthetase (NRPS) as example. The results showed that there were 87 NRPS proteins in T. reesei and 214 NRPS proteins in T. virens, the number of NPRS proteins in T. virens was significantly higher than that in T. reesei. Meanwhile, ProtComp v9.0, PHD and other websites for bioinformatics prediction were used to analyze the characteristics of NRPS proteins in T. reesei and T. virens, including subcellular localization, physicochemical properties and secondary structure, etc. The following common characteristics of NRPS proteins in T. reesei and T. virens are clear: the theoretical isoelectric points are mostly concentrated between 5.01 and 7.00, the instability indices are mostly concentrated between 30.01 and 50.00, more than 75% proteins are hydrophilic, while the compositional characteristics of secondary structures are dominated by α-helix. Besides, the information of transit peptides is not clear, there are many conserved domains and the subcellular localizations are mostly concentrated in mitochondria and so on.

参考文献/References:

[1]汪天虹,吴静,邹玉霞. 瑞氏木霉分子生物学研究进展[J]. 菌物系统,2000, 19(1): 147-152.
[2]韩长志,许僖. 黏绿木霉Gv29-8的碳水化合物活性酶类蛋白预测及遗传关系分析[J]. 华中农业大学学报, 2017, 36(5):39-44.
[3]FOREMAN P K，BROWN D，DANKMEYER L, et al. Transcriptional regulation of biomass-degrading enzymes in the filamentous fungus Trichoderma reesei[J]. J Biol Chem,2003, 278 (34):31988-31997.
[4]韩长志,祝友朋,许僖. 全基因组预测里氏木霉QM6a的碳水化合物活性酶类蛋白[J]. 西南农业学报, 2018, 31(4):705-710.
[5]HOWELL C R. Relevance of mycoparasitism in the biological control of Rhizoctonia solani by Gliocladium virens[J]. Phytopathology,1987, 77 (7):992-994.
[6]BAEK J M, HOWELL C R, KENERLEY C M.The role of an extracellular chitinase from Trichoderma virens Gv29-8 in the biocontrol of Rhizoctonia solani[J]. Current Genetics, 1999, 35 (1):41-50.
[7]孟庆山. 里氏木霉纤维素酶基因转录调控因子鉴定及纤维素酶高产菌株构建[D]. 大连: 大连理工大学, 2019.
[8]郝珍珍. 里氏木霉中CRISPR-Cas9基因组编辑及木糖调控基因表达方法的建立[D]. 北京: 中国农业科学院, 2019.
[9]陈雨蒙. 锰离子和N，N-二甲基甲酰胺诱导里氏木霉高产纤维素酶的机制研究[D]. 上海: 华东理工大学, 2019.
[10]郑宗明,顾晓波,俞海青,等. 非核糖体肽合成酶主要结构域的研究进展[J]. 中国抗生素杂志,2005(2):120-124.
[11]马晨琛,李正鹏,戴青青,等. 苹果树腐烂病菌非核糖体多肽合成酶基因VmNRPS12的功能[J]. 微生物学报,2016, 56(8):1273-1281.
[12]JOHNSON R D, JOHNSON L, ITOH Y, et al. Cloning and characterization of a cyclic peptide synthetase gene from Alternaria alternata apple pathotype whose product is involved in AM-toxin synthesis and pathogenicity[J]. Molecular Plant-microbe Interactions,2000, 13 (7):742-753.
[13]PANACCIONE D G, SCOTT-CRAIG J S, POCARD J A, et al. A cyclic peptide synthetase gene required for pathogenicity of the fungus Cochliobolus carbonum on maize[J]. Proceedings of the National Academy of Sciences of the United States of America,1992, 89 (14):6590-6594.
[14]LEE B N, KROKEN S, CHOU D Y, et al. Functional analysis of all nonribosomal peptide synthetases in Cochliobolus heterostrophus reveals a factor, NPS6, involved in virulence and resistance to oxidative stress[J]. Eukaryotic Cell,2005, 4 (3):545-555.
[15]OIDE S, MOEDER W, KRASNOFF S, et al. NPS6, encoding a nonribosomal peptide synthetase involved in siderophore-mediated iron metabolism, is a conserved virulence determinant of plant pathogenic ascomycetes[J]. The Plant cell,2006, 18 (10):2836-2853.
[16]CHEN L H, LIN C H, CHUNG K R. A nonribosomal peptide synthetase mediates siderophore production and virulence in the citrus fungal pathogen Alternaria alternata[J]. Molecular Plant Pathology,2013, 14 (5):497-505.
[17]孙红云. 苹果树腐烂病菌NRPS基因VmG10的功能研究[D]. 杨凌: 西北农林科技大学, 2019.
[18]原晓龙,赵能,陈剑,等. 硬枝树花中非核糖体多肽合成酶NRPS基因的克隆与鉴定[J]. 基因组学与应用生物学,2016, 35 (10):2834-2841.
[19]KHALDI N，SEIFUDDIN F T，TURNER G, et al. SMURF: Genomic mapping of fungal secondary metabolite clusters[J]. Fungal Genet Biol, 2010, 47 (9):736-741.
[20]BLIN K, WOLF T, CHEVRETTE M G, et al. antiSMASH 4.0-improvements in chemistry prediction and gene cluster boundary identification[J]. Nucleic Acids Res,2017, 45 (W1):36-41.
[21]GASTEIGER E,GATTIKER A, HOOGLAND C, et al. ExPASy: The proteomics server for in-depth protein knowledge and analysis[J]. Nucleic Acids Research,2003, 31 (13):3784-3788.
[22]LAWRENCE A K, STEFANS M, CHRISTOPHER M Y, et al. The Phyre2 web portal for protein modeling, prediction and analysis[J]. Nat Protocols,2015, 10 (6): 845-858.
[23]OLOF E, SREN B, GUNNAR V H, et al. Locating proteins in the cell using TargetP, SignalP and related tools[J]. Nature Protocols,2007, 2 (4):953-971.
[24]IVICA L, TOBIAS D, PEER B. SMART 7: recent updates to the protein domain annotation resource[J]. Nucleic Acids Research,2012, 40 (D1):302-305.
[25]韩长志,王娟. 基于全基因组序列预测里氏木霉QM6a的分泌蛋白[J]. 华中农业大学学报,2017, 36 (2):28-32.
[26]韩长志. 基于全基因组测序的粘绿木霉Gv29-8中分泌蛋白预测[J]. 河南师范大学学报(自然科学版), 2016, 44 (6):145-148.

备注/Memo

备注/Memo:
收稿日期：2020-03-20基金项目：云南省研发经费投入补助项目（2016YB462&2017YB236)；国家自然科学基金项目（31960314）作者简介：祝友朋（1996-），男，云南曲靖人，硕士研究生，研究方向为真菌分子生物学。（Tel）18208874207；（E-mail）3420204485@qq.com通讯作者：韩长志，（Tel）15877923075；（E-mail）hanchangzhi2010@163.com
更新日期/Last Update: 2020-11-16