SARS CoV-2’nin Karşılaştırmalı Genomik ve Proteomik Analizi – İlaç Hedefleme ve Potansiyel Mutasyon Olasılıkları

Year 2020, Volume: 13 Issue: 3, 1187 - 1197, 31.12.2020

Ekrem Akbulut

https://doi.org/10.18185/erzifbed.758406

Abstract

Yüksek oranda patojenik SARS-CoV-2’nin neden olduğu COVID-19 dünya genelinde 470 binden fazla insanın ölümüne neden oldu. RNA virüslerinin yüksek mutasyon potansiyelleri tedavi için en doğru yapının tanımlanmasını gerektirir. Bu çalışmada COVID19’un aynı alt sınıfta yer alan SARS ve MERS ile karşılaştırmalı genomik, proteomik analizleri ve rezidülerin mutasyon potansiyelleri biyoinformatik araçlar ile analiz edildi. COVID19’un nükleotid düzeyinde SARS ile 80.08% ve MERS ile 58.79% benzer olduğu bulundu. GC% oranları COVID19, SARS ve MERS sırası ile 38%, 40.8% ve 41.2%’dir. 5’UTR GC içeriği COVID19 (44.6%), MERS (43.5%) ve SARS (44.7%)’dir. Aminoasit düzeyinde COVID19, SARS ile 83.3%, MERS ile 42.5% benzerlik gösterdi. Temel yapısal proteinler kıyaslandığında COVID19/SARS’ın E, M, N ve S-proteinleri sırasıyla 94.7, 90.1, 90.6 and 76,1% oranında aynıdır. COVID19 için 14 yüksek mutasyon riski olan rezidü ve genomda tekrar sayıları belirlendi. Sonuç olarak; COVID19 ve SARS’ın yüksek yapısal benzerlikleri proteinlerin fonksiyonel benzerliklerine işaret edebilir. Bu çalışmanın verileri, düşük mutasyon riski ile ORF6 ve ORF7b gibi fonksiyonel olmayan korunmuş proteinlerin fonksiyonel özellikleri ile tedavi için uygun hedefler olabileceğini işaret etmektedir.

Keywords

SARS CoV-2, COVID-19, genom, proteom, mutasyon

Comparative Genomic and Proteomic Analysis of SARS CoV-2 - with Potential Mutation Probabilities and Drug Targeting

Abstract

COVID-19 caused by the highly pathogenic SARS-CoV-2 has caused the death of over 470 thousand people worldwide. High mutation potentials of RNA viruses require the determination of the most accurate structure to be targeted for treatment. In this study, comparative genomic and proteomic analyses of SARS-CoV-2 were performed using SARS-CoV and MERS-CoV, and the mutation potential of the residues was analyzed using bioinformatics tools. SARS-CoV-2 was found to be 80.08% and 58.79% similar to SARS-CoV and MERS-CoV, respectively, at the nucleotide level. G+C content were 38%, 40.8% and 41.2% for SARS-CoV-2, SARS-CoV and MERS-CoV, respectively. 5ʹUTR G+C content was 44.6%, 43.5% and 44.7% for SARS-CoV-2, MERS-CoV and SARS-CoV, respectively. At the amino acid level, SARS-CoV-2 and SARS-CoV showed 83.3% similarity, whereas SARS-CoV-2 and MERS-CoV showed 42.5% similarity. The E, M, N and S proteins of SARS-CoV-2 and SARS-CoV were found to be 94%, 90.1%, 90.6% and 76.1% identical, respectively. For SARS-CoV-2, 14 residues with a high risk of mutation and their repeat numbers in the genome were identified. Data from this study reveal that non-functional conserved proteins such as ORF6 and ORF7b with low risk of mutation may be appropriate targets for the treatment because of their functional properties.

Keywords

SARS CoV-2, COVID-19, genome, proteome, mutation

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