Prediction and analysis for secretory proteins from Thelazia callipaeda at Genome Scale
ZHENG Ming-hui1, YE Chang-lin2, ZHANG Lu-fei1, JIANG Nan1, HE Li-fang3, LIU Hui1
1. School of Basic Medicine, Zunyi Medical University, Zunyi 563003, China; 2. Xinpu District Public Security Sub-Bureau, Zunyi Municipal Public Security Bureau, Zunyi 563003, China; 3. Qiannan Medical College For Nationalities, Duyun 558000, China
Abstract:We conducted prediction and analysis for secretory proteins from Thelazia callipaeda at Genome Scale based on the previous full genome annotation. The software SignalP, TMHMM, big-PI Predictor, MEME, Protcomp and SecretomeP were combined to process the prediction of the secretome of Thelazia callipaeda. The analyses of secretory proteins by GO function enrichment, KEGG pathway, and statistics of domains were performed. Results showed that totally 259 secretory proteins were found in Thelazia callipaeda genome and the amino acid lengths of secretory proteins were mainly concentrated between 100 to 700 aa exclusively. GO function analysis of secretory proteins indicated that they were enriched in the secreting pathways and in the interactions with host. The results of KEGG metabolism secretory proteins suggested that some of them contributed to drug metabolism and glutathione metabolism. And domain analysis suggested that most of them were glycoside hydrolase, contributing to sugar metabolism. Around 126 secretory proteins had antigenicity of B-cell epitope. In summary, we found that secretory proteins in Thelazia callipaeda were most small proteins, which were involved in sugar metabolism and antioxidative activity, facilitating Thelazia callipaeda to invade the hosts and play a key role in the parasitic course.
郑明辉, 叶昌林, 张露菲, 江楠, 贺莉芳, 刘晖. 结膜吸吮线虫基因组中分泌蛋白的规模预测及分析[J]. 中国人兽共患病学报, 2018, 34(1): 12-17.
ZHENG Ming-hui, YE Chang-lin, ZHANG Lu-fei, JIANG Nan, HE Li-fang, LIU Hui. Prediction and analysis for secretory proteins from Thelazia callipaeda at Genome Scale. Chinese Journal of Zoonoses, 2018, 34(1): 12-17.
[1] Weischer B. Nematode parasites of vertebrates. Their development and transmission[J]. J Phytopathol, 2000, 148(11/12): 637-642. doi:10.1053/tvjl.2001.0620 [2] Choi J, Park J, Kim D, et al. Fungal secretome database: integrated platform for annotation of fungal secretomes[J]. BMC Genomics, 2010, 11(1):105. doi:10.1186/1471-2164-11-105 [3] Liu F, Cui SJ, Hu W, et al. Excretory/secretory proteome of the adult developmental stage of human blood fluke, Schistosoma japonicum [J]. Mol Cell Proteomics, 2009, 8(6): 1236-1251. doi:10.1074/mcp.M800538-MCP200 [4] Angeli V, Faveeuw C, Roye O, et al. Role of the parasite-derived prostaglandin D2 in the inhibition of epidermal Langerhans cell migration during schistosomiasis infection[J]. J Exper Med, 2001, 193(10): 1135. doi:10.1084/jem.193.10.1135 [5] Fosunyarko J, Tan JC, Gill R, et al. Denovo analysis of the transcriptome of Pratylenchus zeae to identify transcripts for proteins required for structural integrity, sensation, locomotion and parasitism[J]. Mol Plant Pathol, 2015, 17(4): 532. doi:10.1111/mpp.12301 [6] Yatsuda AP, Krijgsveld J, Cornelissen AW, et al. Comprehensive analysis of the secreted proteins of the parasite Haemonchus contortus reveals extensive sequence variation and differential immune recognition[J]. J Biological Chem, 2003, 278(19): 16941. doi:10.1074/jbc.M212453200 [7] Petersen TN, Brunak S, Von HG, et al. SignalP 4.0: discriminating signal peptides from transmembrane regions[J]. Nature Methods, 2011, 8(10):785-6. doi:10.1038/nmeth.1701 [8] Krogh A, Larsson B, Heijne GV, et al. Predicting transmembrane protein topology with a hidden markov model: application to complete genomes[J]. J Mol Biol , 2001, 305(3): 567-580. doi:10.1006/jmbi.2000.4315 [9] Eisenhaber B, Schneider G, Wildpaner M, et al. A sensitive predictor for potential GPI lipid modification sites in fungal protein sequences and its application to genome-wide studies for Aspergillus nidulans , Candida albicans , Neurospora crassa , Saccharomyces cerevisiae and Schizosaccharomyces pombe [J]. J Mol Biol, 2004, 337(2): 243-253. doi:10.1016/j.jmb.2004.01.025 [10] Cao JD, Liu J, Li SY. Prediction for secretome from Magnaporthe oryzae at genome scale and its enrichment analysis[J]. Biotechnol Bull, 2016, 32(8): 129-138. 曹继东, 刘俊, 李遂焰. 基因组水平预测稻瘟菌分泌蛋白组及富集分析[J]. 生物技术通报, 2016, 32(8):129-138. [11] Bendtsen JD, Jensen LJ, Blom N, et al. Feature-based prediction of non-classical and leaderless protein secretion[J]. Protein Engineer Design Selection Peds, 2004, 17(4): 349-356. doi:10.1093/protein/gzh037 [12] Burland TG. DNASTAR's Lasergene sequence analysis software[J]. Methods Mol Biol, 2000, 132: 71. doi:10.1385/1-59259- [13] J-WJ, H-NJ, Lee MR, et al. Identification of a serodiagnostic antigen, legumain, by immunoproteomic analysis of excretory-secretory products of Clonorchis sinensis adult worms[J]. Proteomics, 2009, 9(11): 3066-3078. doi:10.1002/pmic.200700613 [14] Hua WQ, Yu CX, Wang J, et al. Analysis of the proteomics and immunoreactivities of excretory-secretory antigens of Schistosoma japonicum adult worms[J]. J Pathog Biol, 2009, 4(7): 526-528, 531. doi:10.13350/j.cjpb.2009.07.014 (in Chinese) 华万全, 余传信, 王玠,等. 血吸虫成虫排泄分泌抗原的组成及免疫反应性分析[J]. 中国病原生物学杂志, 2009(7):526-528. [15] Moreau E, Hervé S, Yu ZW, et al. Modulation of sheep lymphocyte responses by Fasciola hepatica excretory-secretory products[J]. Vet Parasitol, 2002, 108(3): 207-215. doi:10.1016/S0304-4017(02)00196-6 [16] Patel R, Shamji M, Flohr C, et al. Necator americanus (hookworm) excretory-secretory product modulates in vitro recall responses to grass pollen in allergic subjects[J]. Clinical Exper Allergy, 2011:1834-. [17] Davies SJ, Mckerrow JH. Developmental plasticity in schistosomes and other helminths[J]. Intl J Parasitol, 2003, 33(11): 1277-84. doi:10.1016/S0020-7519(03)00161-9 [18] Marcilla A, Garg G, Bernal D, et al. The transcriptome analysis of Strongyloides stercoralis L3i larvae reveals targets for intervention in a neglected disease[J]. PLoS Negl Trop Dis, 2012, 6(2): e1513. doi:10.1371/journal.pntd.0001513 [19] Garg G, Ranganathan S. In silico secretome analysis approach for next generation sequencing transcriptomic data[J]. BMC Genomics, 2011, 12 (Suppl 3): S14. doi:10.1186/1471-2164-12-S3-S14