Computational characterization of deleterious SNPs in Toll-like receptor gene that potentially cause mastitis in dairy cattle

Bhavaniramya, Sundaresan; Vanajothi, Ramar; Vishnupriya, Selvaraju; Al-Aboody, Mohammad Saleh; Vijayakumar, Rajendran; Baskaran, D.

doi:10.1016/j.bcab.2019.101151

Cited by 11 publications

(5 citation statements)

References 47 publications

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“…In addition, hydrogen bonds contribute significantly to protein stability 51 . Previous studies have reported that hydrophobic changes in CSN3 52 , TLR2 53 and APP 54 proteins can cause protein misfolding and decreased stability. Brennan et al 55 reported that Thr>Ile substitution in the fibrinogen protein can cause hypofibrinogenaemia by disrupting protein function.…”

Section: Discussionmentioning

confidence: 99%

Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey

Atalay

2023

Journal of Research in Veterinary Medicine

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Increasing environmental temperatures as a result of climate change adversely affect livestock welfare and health. Moreover, temperatures increase the distribution and survival of parasites and infectious agents. Livestock diseases that cause significant economic losses are a worldwide concern. Toll like receptor 4 (TLR4) is an ideal marker gene candidate, due to the key role it plays in initiating the immune response against pathogens. In this study, the toll-interleukin-1 receptor (TIR) domain polymorphisms were investigated in the Turkish Holstein cattle by DNA sequencing. The effects of polymorphisms on the protein structure and function were evaluated by computational tools (I-Mutant Suite, Project Hope and PyMOL). The rs8193069 C>T polymorphism was detected in the TIR domain. The SNP causes threonine to isoleucine substitution at position 674 of the TLR4 protein which is the second amino acid of the TIR domain. The I-Mutant Suite predicted that Thr674Ile substitution can result in decreased protein stability (DDG= -0.40 Kcal/mol). Project Hope results showed that mutant and wild-type amino acids have different properties and that this can disturb the TIR domain. The Thr674Ile polymorphism observed in the TIR domain of TLR4 protein in Turkish Holstein cattle might affect the function of the TLR4 by causing physicochemical changes.

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Section: Discussionmentioning

confidence: 99%

Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey

Atalay

2023

Journal of Research in Veterinary Medicine

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“…Due to the existence of peptidoglycan layer outside the cellular membrane in gram-positive bacteria, essential oils show maximum activity against them. The gram-negative bacteria bear a bilayer phospholipid membrane outside the inner membrane and are connected to the inner membrane with lipopolysaccharides [ 79 ]. There are several studies which have reported the bioactivity of essential oils against bacteria and fungi using distinct pathogen microorganisms [ [80] , [81] , [82] , [83] ].…”

Section: Essential Oils Chemical Composition and Uses In Different He...mentioning

confidence: 99%

An updated and comprehensive review of the antiviral potential of essential oils and their chemical constituents with special focus on their mechanism of action against various influenza and coronaviruses

Wani

Yadav

Khursheed

et al. 2021

Microbial Pathogenesis

162

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“…It correlates this multiple sequence alignment with different protein structure and calculates the position-specific independent count (PSIC) score ranging from 0 to 1. The range of PSIC scores categories the SNPs as benign (0-0.2), possible damaging (0.2-0.85), and probably damaging (0.85-1) ( 22) (Ramensky et al, 2002;Vanajothi et al, 2012;Bhavaniramya et al, 2019). (Available at: http:// genetics.bwh.harvard.edu/pph).…”

Section: Polymorphism Phenotyping (Polyphen-2)mentioning

confidence: 99%

Prediction of deleterious non-synonymous SNPs of human TLR2 gene associated with bacterial meningitis and hearing impairment by computational approach

Manikandan¹

2022

ijhs

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Background: Bacterial meningitis is the most serious infection of the central nervous system and often occurs in children under the age of 5 years and leads to hearing loss, learning disabilities. Several studies have reported the genetic variation in a gene that is involved in the innate immune system and affects the susceptibility, severity of bacterial infection during meningitis. Methodology: Hence the present study was performed to insights the single nucleotide polymorphisms in pathogen recognition genes especially those that play an essential role in the innate immune system. Toll-like receptor 2 (TLR2) was selected to analyze the association of TLR2 in bacterial meningitis. The coding and non-coding SNPs of the human TLR2 gene was retrieved from the NCBI database and were subjected to various computational prediction tools including SIFT, PolyPhen-2, Imutnat, to predict the high-risk deleterious SNPs and the effect of single amino acid substitutions and structural and functional impact of these mutations was predicted with project HOPE, SNP-GO tools. Results: The result revealed that among the 501 non-synonymous, 9 deleterious SNPs were sorted by SFIT, Polyphen-2 and I mutant serve with SFIT score, DDG score, and PISC score which are equal to 1.

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Computational characterization of deleterious SNPs in Toll-like receptor gene that potentially cause mastitis in dairy cattle

Cited by 11 publications

References 47 publications

Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey

Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey

An updated and comprehensive review of the antiviral potential of essential oils and their chemical constituents with special focus on their mechanism of action against various influenza and coronaviruses

Prediction of deleterious non-synonymous SNPs of human TLR2 gene associated with bacterial meningitis and hearing impairment by computational approach

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