Combination of Biodata Mining and Computational Modelling in Identification and Characterization of ORF1ab Polyprotein of SARS-CoV-2 Isolated from Oronasopharynx of an Iranian Patient.

IF 3.7 3区生物学 Q1 BIOCHEMICAL RESEARCH METHODS Biological Procedures Online Pub Date : 2020-04-21 eCollection Date: 2020-01-01 DOI:10.1186/s12575-020-00121-9

Reza Zolfaghari Emameh, Hassan Nosrati, Ramezan Ali Taheri

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引用次数: 20

Abstract

Background: Coronavirus disease 2019 (COVID-19) is an emerging zoonotic viral infection, which was started in Wuhan, China, in December 2019 and transmitted to other countries worldwide as a pandemic outbreak. Iran is one of the top ranked countries in the tables of COVID-19-infected and -mortality cases that make the Iranian patients as the potential targets for diversity of studies including epidemiology, biomedical, biodata, and viral proteins computational modelling studies.

Results: In this study, we applied bioinformatic biodata mining methods to detect CDS and protein sequences of ORF1ab polyprotein of SARS-CoV-2 isolated from oronasopharynx of an Iranian patient. Then through the computational modelling and antigenicity prediction approaches, the identified polyprotein sequence was analyzed. The results revealed that the identified ORF1ab polyprotein belongs to a part of nonstructural protein 1 (nsp1) with the high antigenicity residues in a glycine-proline or hydrophobic amino acid rich domain.

Conclusions: The results revealed that nsp1 as a virulence factor and crucial agent in spreading of the COVID-19 among the society can be a potential target for the future epidemiology, drug, and vaccine studies.

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结合生物数据挖掘和计算模型鉴定和表征伊朗患者口鼻咽分离的SARS-CoV-2 ORF1ab多蛋白

背景:2019冠状病毒病(COVID-19)是一种新兴的人畜共患病毒感染，于2019年12月在中国武汉开始，并作为大流行疫情传播到世界其他国家。伊朗是covid -19感染和死亡病例表中排名最高的国家之一，这使得伊朗患者成为流行病学、生物医学、生物数据和病毒蛋白计算模型研究等多种研究的潜在目标。结果:本研究应用生物信息学生物数据挖掘方法检测了从伊朗患者口鼻咽分离的SARS-CoV-2的CDS和ORF1ab多蛋白序列。然后通过计算建模和抗原性预测方法，对鉴定的多蛋白序列进行分析。结果表明，所鉴定的ORF1ab多蛋白属于非结构蛋白1 (nsp1)的一部分，其高抗原性残基位于甘氨酸-脯氨酸或疏水氨基酸富结构域。结论:nsp1作为新型冠状病毒在社会中传播的毒力因子和关键因子，可作为未来流行病学、药物和疫苗研究的潜在靶点。

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来源期刊

Biological Procedures Online 生物-生化研究方法

CiteScore

10.50

自引率

0.00%

发文量

审稿时长

>12 weeks

期刊介绍： iological Procedures Online publishes articles that improve access to techniques and methods in the medical and biological sciences. We are also interested in short but important research discoveries, such as new animal disease models. Topics of interest include, but are not limited to: Reports of new research techniques and applications of existing techniques Technical analyses of research techniques and published reports Validity analyses of research methods and approaches to judging the validity of research reports Application of common research methods Reviews of existing techniques Novel/important product information Biological Procedures Online places emphasis on multidisciplinary approaches that integrate methodologies from medicine, biology, chemistry, imaging, engineering, bioinformatics, computer science, and systems analysis.