Bioinformatics Analysis of ITGB1 Gene in Chicken

doi:10.7668/hbnxb.20193360

Abstract

Abstract:

In order to further explore the function and potential use of chicken ITGB1 gene,bioinformatics analysis method was used to analyze the structure of chicken ITGB1 gene and its encoding protein physicochemical properties,protein loci,protein structure and protein cell localization.At the same time,the ITGB1 gene CDS sequences of 11 species including chicken,goose,duck,turkey,human,pig,rabbit,mouse,rat,sheep and chimpanzee were downloaded from GenBank as materials,and the ITGB1 protein sequences of these 11 species were analyzed for homology and phylogeny.The results showed that the length of the coding region of the gene was 2 412 bp,encoding 803 amino acids.The molecular weight of the gene was 88 618.48,and the theoretical isoelectric point was 5.14.It was a hydrophilic stable protein with signal peptide.The secondary structure of the protein contains 162 α-helices,459 random curls,182 stretching strips and a transmembrane structure.Chicken ITGB1 gene was highly homologous with goose,turkey and duck ITGB1 protein by homology comparison.The study of ITGB1 gene and its expressed protein by bioinformatics method was helpful to understand the related role of ITGB1 gene in chicken,and provides a reference for further development and utilization of ITGB1 gene in poultry production,prevention and control of poultry diseases and molecular breeding.

Key words: Chicken, ITGB1 genes, Bioinformatics analysis, Homology

JIA Yuqing, XIA Jingjing, XUE Bailing, SHUI Fei, CAO Chengcheng, DING Yuanfei, ZHANG Taikang, GENG Zhaoyu, JIN Sihua. Bioinformatics Analysis of ITGB1 Gene in Chicken[J]. Acta Agriculturae Boreali-Sinica, 2022, 37(S1): 339-347. doi: 10.7668/hbnxb.20193360.

/ / Recommend / Download Citations

URL: http://www.hbnxb.net/EN/10.7668/hbnxb.20193360

http://www.hbnxb.net/EN/Y2022/V37/IS1/339

Figures/Tables 19

References 20

[1]	Brizzi M F, Tarone G, Defilippi P. Extracellular matrix,integrins,and growth factors as tailors of the stem cell niche[J]. Current Opinion in Cell Biology, 2012, 24(5): 645-651. doi:10.1016/j.ceb.2012.07.001. doi: 10.1016/j.ceb.2012.07.001 URL
[2]	Blandin A F, Renner G, Lehmann M, Lelong-Rebel I, Martin S, Dontenwill M. β1 integrins as therapeutic targets to disrupt hallmarks of cancer[J]. Frontiers in Pharmacology, 2015, 6: 279. doi:10.3389/fphar.2015.00279. doi: 10.3389/fphar.2015.00279
[3]	Aksorn N, Chanvorachote P. Integrin as a molecular target for anti-cancer approaches in lung cancer[J]. Anticancer Research, 2019, 39(2): 541-548. doi:10.21873/anticanres.13146. doi: 10.21873/anticanres.13146 pmid: 30711928
[4]	Moreno-Layseca P, Streuli C H. Signalling pathways linking integrins with cell cycle progression[J]. Matrix Biology, 2014, 34: 144-153. doi:10.1016/j.matbio.2013.10.011. doi: 10.1016/j.matbio.2013.10.011 pmid: 24184828
[5]	Jeanes A I, Wang P B, Moreno-Layseca P, Paul N, Cheung J, Tsang R, Akhtar N, Foster F M, Brennan K, Streuli C H. Specific β-containing integrins exert differential control on proliferation and two-dimensional collective cell migration in mammary epithelial cells[J]. The Journal of Biological Chemistry, 2012, 287(29): 24103-24112. doi:10.1074/jbc.M112.360834. doi: 10.1074/jbc.M112.360834 URL
[6]	Xu J K, Chen H J, Li X D, Huang Z L, Xu H, Yang H L, Hu J. Optimal intensity shock wave promotes the adhesion and migration of rat osteoblasts via integrin β1-mediated expression of phosphorylated focal adhesion kinase[J]. The Journal of Biological Chemistry, 2012, 287(31): 26200-26212. doi:10.1074/jbc.M112.349811. doi: 10.1074/jbc.M112.349811 URL
[7]	Wang J J, Li J M, Xu W, Xia Q, Gu Y Z, Song W X, Zhang X Y, Yang Y, Wang W, Li H, Zou K. Androgen promotes differentiation of PLZF+spermatogonia pool via indirect regulatory pattern[J]. Cell Communication and Signaling: CCS, 2019, 17(1): 57. doi:10.1186/s12964-019-0369-8. doi: 10.1186/s12964-019-0369-8 URL
[8]	顾旺, 张宜辉, 张军, 耿拓宇, 龚道清. ITGB1基因表达与鹅肥肝形成的关系[J]. 安徽农业大学学报, 2021, 48(5): 771-776. doi:10.13610/j.cnki.1672-352x.20211105.015. doi: 10.13610/j.cnki.1672-352x.20211105.015
	Gu W, Zhang Y H, Zhang J, Geng T Y, Gong D Q. The relationship between ITGB1 gene expression and the formation of goose fatty liver[J]. Journal of Anhui Agricultural University, 2021, 48(5): 771-776.
[9]	de Pinheiro C G M, Pedrosa M, Teixeira N C, Ano Bom A P, van Oers M M, Oliveira G G. Optimization of canine interleukin-12 production using a baculovirus insect cell expression system[J]. BMC Research Notes, 2016, 9: 36. doi:10.1186/s13104-016-1843-7. doi: 10.1186/s13104-016-1843-7 pmid: 26795376
[10]	Duan G D, Ding L M, Wei D S, Zhou H C, Chu J, Zhang S L, Qian J C. Screening endogenous signal peptides and protein folding factors to promote the secretory expression of heterologous proteins in Pichia pastoris[J]. Journal of Biotechnology, 2019, 306: 193-202. doi:10.1016/j.jbiotec.2019.06.297. doi: 10.1016/j.jbiotec.2019.06.297 URL
[11]	魏艳, 苗君叶, 刘缨. 环境因素与Tau蛋白的异常磷酸化[J]. 生物化学与生物物理进展, 2012, 39(8):778-784. doi:10.3724/sp.j.1206.2012.00365. doi: 10.3724/sp.j.1206.2012.00365
	Wei Y, Miao J Y, Liu Y. Endogenous and exogenous factors in hyperphosphorylation of tau in Alzheimer's disease[J]. Progress in Biochemistry and Biophysics, 2012, 39(8): 778-784. doi: 10.3724/SP.J.1206.2012.00365 URL
[12]	冯利杰, 张瑾, 丁倩, 朱娜, 王鹏, 沈玉君, 沈玉先. 自噬参与神经细胞中过表达tau和异常磷酸化tau蛋白的降解[J]. 中国药理学通报, 2015, 31(3): 356-362. doi:10.3969/j.issn.1001-1978.2015.03.013. doi: 10.3969/j.issn.1001-1978.2015.03.013
	Feng L J, Zhang J, Ding Q, Zhu N, Wang P, Shen Y J, Shen Y X. Autophagy involved in overexpressed tau and okadaic acid-induced hyperphosphorylated tau degradation[J]. Chinese Pharmacological Bulletin, 2015, 31(3): 356-362.
[13]	Niu C F, Luo H Y, Shi P J, Huang H Q, Wang Y R, Yang P L, Yao B. N-glycosylation improves the pepsin resistance of histidine acid phosphatase phytases by enhancing their stability at acidic pHs and reducing pepsin's accessibility to its cleavage sites[J]. Applied and Environmental Microbiology, 2015, 82(4): 1004-1014. doi:10.1128/AEM.02881-15. doi: 10.1128/AEM.02881-15 URL
[14]	Fu B, Baker M R, Li Q X. Effect of N-linked glycosylation of recombinant windmill palm tree peroxidase on its activity and stability[J]. Journal of Agricultural and Food Chemistry, 2018, 66(17): 4414-4421. doi:10.1021/acs.jafc.8b00234. doi: 10.1021/acs.jafc.8b00234 pmid: 29648454
[15]	Chang X Y, Xu B, Bai Y G, Luo H Y, Ma R, Shi P J, Yao B. Role of N-linked glycosylation in the enzymatic properties of a thermophilic GH 10 xylanase from Aspergillus fumigatus expressed in Pichia pastoris[J]. PLoS One, 2017, 12(2): e0171111. doi:10.1371/journal.pone.0171111. doi: 10.1371/journal.pone.0171111
[16]	董慧芹, 刘金宝, 张国华. 对虾白斑病毒多抗原决定簇重组蛋白的抗原性分析[J]. 科学技术与工程, 2019, 19(10): 26-31. doi:10.3969/j.issn.1671-1815.2019.10.1005. doi: 10.3969/j.issn.1671-1815.2019.10.1005
	Dong H Q, Liu J B, Zhang G H. Antigenicity analysis of multiple-epitope recombinant protein of Shrimp white spot syndrome virus[J]. Science Technology and Engineering, 2019, 19(10): 26-31.
[17]	Burkin D J, Wallace G Q, Nicol K J, Kaufman D J, Kaufman S J. Enhanced expression of the α7β1 integrin reduces muscular dystrophy and restores viability in dystrophic mice[J]. The Journal of Cell Biology, 2001, 152(6): 1207-1218. doi:10.1083/jcb.152.6.1207. doi: 10.1083/jcb.152.6.1207 URL
[18]	Park S J, Kang H J, Na S, Lee S H, Baik M. Differential expression of extracellular matrix and integrin genes in the longissimus thoracis between bulls and steers and their association with intramuscular fat contents[J]. Meat Science, 2018, 136: 35-43. doi:10.1016/j.meatsci.2017.10.008. doi: S0309-1740(17)30912-9 pmid: 29065314
[19]	郭良勇, 闫学军, 王爱国, 傅金銮. 猪ITGB1基因多态性与产仔数的关联性分析[J]. 中国畜牧杂志, 2012, 48(21): 22-25,60. doi:10.3969/j.issn.0258-7033.2012.21.006. doi: 10.3969/j.issn.0258-7033.2012.21.006
	Guo L Y, Yan X J, Wang A G, Fu J L. Analysis of the relationship between the polymorphism of ITGB1 gene and litter size in pigs[J]. Chinese Journal of Animal Science, 2012, 48(21): 22-25,60.
[20]	Maginnis M S, Mainou B A, Derdowski A, Johnson E M, Zent R, Dermody T S. NPXY motifs in the beta1 integrin cytoplasmic tail are required for functional reovirus entry[J]. Journal of Virology, 2008, 82(7): 3181-3191. doi:10.1128/JVI.01612-07. doi: 10.1128/JVI.01612-07 pmid: 18216114

氨基酸 Amino acid	数量 Quantity	占比/% Proportion	氨基酸 Amino acid	数量 Quantity	占比/% Proportion
丙氨酸Ala	39	4.90	亮氨酸Leu	55	6.80
精氨酸Arg	28	3.50	赖氨酸Lys	56	7.00
天冬酰胺Asn	52	6.50	蛋氨酸Met	16	2.00
天冬氨酸Asp	42	5.20	苯丙氨酸Phe	28	3.50
半胱氨酸Cys	58	7.20	脯氨酸Pro	35	4.40
谷氨酰胺Gln	30	3.70	丝氨酸Ser	55	6.80
谷氨酸Glu	66	8.20	苏氨酸Thr	46	5.70
甘氨酸Gly	65	8.10	色氨酸Trp	7	0.90
组氨酸His	12	1.50	酪氨酸Tyr	21	2.60
异亮氨酸Ile	47	5.90	缬氨酸Val	44	5.50

氨基酸 Amino acid	数量 Quantity	占比/% Proportion	氨基酸 Amino acid	数量 Quantity	占比/% Proportion
丙氨酸Ala	39	4.90	亮氨酸Leu	55	6.80
精氨酸Arg	28	3.50	赖氨酸Lys	56	7.00
天冬酰胺Asn	52	6.50	蛋氨酸Met	16	2.00
天冬氨酸Asp	42	5.20	苯丙氨酸Phe	28	3.50
半胱氨酸Cys	58	7.20	脯氨酸Pro	35	4.40
谷氨酰胺Gln	30	3.70	丝氨酸Ser	55	6.80
谷氨酸Glu	66	8.20	苏氨酸Thr	46	5.70
甘氨酸Gly	65	8.10	色氨酸Trp	7	0.90
组氨酸His	12	1.50	酪氨酸Tyr	21	2.60
异亮氨酸Ile	47	5.90	缬氨酸Val	44	5.50

氨基酸 Amino acid	亲疏水性得分 Hydrophilicity and hydrophobicity score	氨基酸 Amino acid	亲疏水性得分 Hydrophilicity and hydrophobicity score
丙氨酸Ala	1.800	亮氨酸Leu	3.800
精氨酸Arg	-4.500	赖氨酸Lys	-3.900
天冬酰胺Asn	-3.500	蛋氨酸Met	1.900
天冬氨酸Asp	-3.500	苯丙氨酸Phe	2.800
半胱氨酸Cys	2.500	脯氨酸Pro	-1.600
谷氨酰胺Gln	-3.500	丝氨酸Ser	-0.800
谷氨酸Glu	-3.500	苏氨酸Thr	-0.700
甘氨酸Gly	-0.400	色氨酸Trp	-0.900
组氨酸His	-3.200	酪氨酸Tyr	-1.300
异亮氨酸Ile	4.500	缬氨酸Val	4.200

氨基酸 Amino acid	亲疏水性得分 Hydrophilicity and hydrophobicity score	氨基酸 Amino acid	亲疏水性得分 Hydrophilicity and hydrophobicity score
丙氨酸Ala	1.800	亮氨酸Leu	3.800
精氨酸Arg	-4.500	赖氨酸Lys	-3.900
天冬酰胺Asn	-3.500	蛋氨酸Met	1.900
天冬氨酸Asp	-3.500	苯丙氨酸Phe	2.800
半胱氨酸Cys	2.500	脯氨酸Pro	-1.600
谷氨酰胺Gln	-3.500	丝氨酸Ser	-0.800
谷氨酸Glu	-3.500	苏氨酸Thr	-0.700
甘氨酸Gly	-0.400	色氨酸Trp	-0.900
组氨酸His	-3.200	酪氨酸Tyr	-1.300
异亮氨酸Ile	4.500	缬氨酸Val	4.200

结构域名称 Structural domain name	位置 Location	E值 E-value
丛状蛋白、信号素和整合素PSI	30-80	3.97
整合素β亚基INB	38-469	1.28
血管性血友病因子VWA	146-376	0.92
整合素β尾部Integrin-B-tail	645-733	1.20
跨膜螺旋区域Transmembrane region	734-756	-
整合素跨膜蛋白Integrin-b-cyt	757-803	3.42

Please choose a citation manager

Content to export