Research Article
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Year 2023, Volume: 42 Issue: 1, 37 - 43, 01.07.2023
https://doi.org/10.30782/jrvm.1197130

Abstract

References

  • 1. Pinto J, Bonacic C, Hamilton-West C, Romero J, Lubroth J. Climate change and animal diseases in South America. Rev Sci Tech. 2008;27(2):599-613.
  • 2. Lacetera N. Impact of climate change on animal health and welfare. Anim Front. 2019;9(1):26-31.
  • 3. Yatoo M, Kumar P, Dimri U, Sharma M. Effects of climate change on animal health and diseases. Int. J. Livest. Res.. 2012;2(3):15-24.
  • 4. Ruegg PL. Investigation of mastitis problems on farms. Vet. Clin. North Am. Food Anim. Pract. 2003;19(1):47-73.
  • 5. Bagath M, Krishnan G, Devaraj C, et al. The impact of heat stress on the immune system in dairy cattle: A review. Res. Vet. Sci.. 2019;126:94-102.
  • 6. Bharati J, Dangi S, Chouhan V, et al. Expression dynamics of HSP70 during chronic heat stress in Tharparkar cattle. Int. J. Biometeorol.. 2017;61(6):1017-1027.
  • 7. Vaure C, Liu Y. A comparative review of toll-like receptor 4 expression and functionality in different animal species. Front. immunol.. 2014;5:316.
  • 8. Kannaki T, Shanmugam M, Verma P. Toll-like receptors and their role in animal reproduction. Anim. Reprod. Sci.. 2011;125(1-4):1-12.
  • 9. Tang D, Kang R, Coyne CB, Zeh HJ, Lotze MT. PAMP s and DAMP s: signal 0s that spur autophagy and immunity. Immunol. Rev. 2012;249(1):158-175.
  • 10. McGuire K, Jones M, Werling D, Williams J, Glass E, Jann O. Radiation hybrid mapping of all 10 characterized bovine Toll‐like receptors. Anim. Genet.. 2006;37(1):47-50.
  • 11. Wang M, Song H, Zhu X, et al. Toll-like receptor 4 gene polymorphisms influence milk production traits in Chinese Holstein cows. Res. J. Dairy Sci. 2018;85(4):407-411.
  • 12. Kumar S, Kumar S, Singh RV, et al. Genetic association of polymorphisms in bovine TLR2 and TLR4 genes with Mycobacterium avium subspecies paratuberculosis infection in Indian cattle population. Vet. Res. Commun. 2019;43(2):105-114.
  • 13. Bharati J, Dangi S, Mishra S, et al. Expression analysis of toll like receptors and interleukins in Tharparkar cattle during acclimation to heat stress exposure. J. Therm. Biol.. 2017;65:48-56.
  • 14. Fang H, Wu Y, Huang X, et al. Toll-like receptor 4 (TLR4) is essential for Hsp70-like protein 1 (HSP70L1) to activate dendritic cells and induce Th1 response. JBC 2011;286(35):30393-30400.
  • 15. Mucha R, Bhide M, Chakurkar E, Novak M, Mikula Sr I. Toll-like receptors TLR1, TLR2 and TLR4 gene mutations and natural resistance to Mycobacterium avium subsp. paratuberculosis infection in cattle. Vet. Immunol. Immunopathol.. 2009;128(4):381-388.
  • 16. Chen H, Liu C, Xiang M, et al. Contribution of the mutation rs8193069 in TLR4 to mastitis resistance and performance in Holstein cows in southern China. Vet. Med. Sci. 2022;8(1):357-366.
  • 17. El‐Domany WB, Radwan HA, Ateya AI, Ramadan HH, Marghani BH, Nasr SM. Genetic Polymorphisms in LTF/EcoRI and TLR4/AluI loci as candidates for milk and reproductive performance assessment in Holstein cattle. Reprod. Domest. Anim. 2019;54(4):678-686.
  • 18. Sambrook J, Russell DW, Sambrook J. The condensed protocols: from molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press Cold Spring Harbor, NY; 2006.
  • 19. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Paper presented at: Nucleic acids symposium series1999.
  • 20. Yeh F, Yang R, Boyle T. POPGENE version 1.32: Microsoft Windows–based freeware for population genetic analysis, quick user guide. Center for International Forestry Research, University of Alberta, Edmonton, Alberta, Canada. 1999:1-29.
  • 21. Jumper J, Evans R, Pritzel A, et al. Highly accurate protein structure prediction with AlphaFold. Nature. 2021;596(7873):583-589.
  • 22. Capriotti E, Fariselli P, Calabrese R, Casadio R. Predicting protein stability changes from sequences using support vector machines. Bioinformatics. 2005;21(suppl_2):ii54-ii58.
  • 23. Venselaar H, Te Beek TA, Kuipers RK, Hekkelman ML, Vriend G. Protein structure analysis of mutations causing inheritable diseases. An e-Science approach with life scientist friendly interfaces. BMC Bioinformatics. 2010;11(1):1-10.
  • 24. Molteni M, Gemma S, Rossetti C. The role of toll-like receptor 4 in infectious and noninfectious inflammation. Mediators Inflamm. 2016;2016.
  • 25. Clabbers MT, Holmes S, Muusse TW, et al. MyD88 TIR domain higher-order assembly interactions revealed by microcrystal electron diffraction and serial femtosecond crystallography. Nat. Commun. 2021;12(1):1-14.
  • 26. Yang Y, Hu Y, Zhou Y, et al. Lys694Arg polymorphism leads to blunted responses to LPS by interfering TLR4 with recruitment of MyD88. Innate Immun.. 2021;27(6):483-492.
  • 27. Bhaladhare A, Sharma D, Kumar A, et al. Single nucleotide polymorphisms in toll-like receptor genes and case-control association studies with bovine tuberculosis. Vet. World 2016;9(5):458.
  • 28. Wang XP, Luoreng ZM, Gao SX, et al. Haplotype analysis of TLR4 gene and its effects on milk somatic cell score in Chinese commercial cattle. Mol. Biol. Rep. 2014;41(4):2345-2351.
  • 29. Sharma B, Leyva I, Schenkel F, Karrow N. Association of toll-like receptor 4 polymorphisms with somatic cell score and lactation persistency in Holstein bulls. J. Dairy Sci. 2006;89(9):3626-3635.
  • 30. Kulibaba R, Liashenko Y, Ivashchenko O. Polymorphism of TLR1, TLR4, and SLC11A1 genes in populations of different cattle breeds of Ukrainian selection. Agric. Sci. Pract. 2021;8(3):25-34.
  • 31. Mišeikienė R, Švedaitė A, Bižienė R, Pečiulaitienė N, Ugenskienė R. The influence of TLR4 gene polymorphisms on milk quality and composition of Lithuanian Holstein cows. Mljekarstvo: časopis za unaprjeđenje proizvodnje i prerade mlijeka. 2020;70(2):112-119.
  • 32. Elzaki S, Korkuc P, Arends D, Reissmann M, Rahmatalla SA, Brockmann GA. Validation of somatic cell score-associated SNPs from Holstein cattle in Sudanese Butana and Butana× Holstein crossbred cattle. Trop. Anim. Health Prod.. 2022;54(1):1-6.
  • 33. Liu Y, Xu C, Gao T, Sun Y. Polymorphisms of the ATP1A1 gene associated with mastitis in dairy cattle. Genet Mol Res. 2012;11(1):651-660.
  • 34. Chen R, Wang Z, Yang Z, Zhu X, Ji D, Mao Y. Association of IL8-105G/A with mastitis somatic cell score in Chinese Holstein dairy cows. Anim. Biotechnol. 2015;26(2):143-147.
  • 35. Ağaoğlu ÖK, Akyüz B, Zeytünlü E, Ağaoğlu AR. Investigation of G+ 265C and G-1539A single nucleotide polymorphisms of toll-like receptor 4 gene (TLR4) in some cattle breeds raised in Turkey. Slov. Vet. Zb. 2020;57(1).
  • 36. Bilgen N, Cinar Kul B, Offord V, Werling D, Ertugrul O. Determination of genetic variations of Toll-like receptor (TLR) 2, 4, and 6 with next-generation sequencing in native cattle breeds of Anatolia and Holstein Friesian. Diversity. 2016;8(4):23.
  • 37. Arslan K. Polymorphisms of TLR1, TLR4 and SLC11A1 genes in some cattle breeds reared in Turkey. J. Agric. Sci. 2018;24(4):547-553.
  • 38. Cinar MU, Hizlisoy H, Akyüz B, Arslan K, Aksel EG, Gümüşsoy KS. Polymorphisms in toll-like receptor (TLR) 1, 4, 9 and SLC11A1 genes and their association with paratuberculosis susceptibility in Holstein and indigenous crossbred cattle in Turkey. J. Genet.. 2018;97(5):1147-1154.
  • 39. Badgujar NV, Tarapara BV, Shah FD. Computational analysis of high-risk SNPs in human CHK2 gene responsible for hereditary breast cancer: A functional and structural impact. Plos One. 2019;14(8):e0220711.

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

Year 2023, Volume: 42 Issue: 1, 37 - 43, 01.07.2023
https://doi.org/10.30782/jrvm.1197130

Abstract

Increasing environmental temperatures due to 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 its critical 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 Holsteins raised in Turkey. 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
could decrease 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 Holsteins
raised in Turkey might affect the function of the TLR4 by causing physicochemical changes.

References

  • 1. Pinto J, Bonacic C, Hamilton-West C, Romero J, Lubroth J. Climate change and animal diseases in South America. Rev Sci Tech. 2008;27(2):599-613.
  • 2. Lacetera N. Impact of climate change on animal health and welfare. Anim Front. 2019;9(1):26-31.
  • 3. Yatoo M, Kumar P, Dimri U, Sharma M. Effects of climate change on animal health and diseases. Int. J. Livest. Res.. 2012;2(3):15-24.
  • 4. Ruegg PL. Investigation of mastitis problems on farms. Vet. Clin. North Am. Food Anim. Pract. 2003;19(1):47-73.
  • 5. Bagath M, Krishnan G, Devaraj C, et al. The impact of heat stress on the immune system in dairy cattle: A review. Res. Vet. Sci.. 2019;126:94-102.
  • 6. Bharati J, Dangi S, Chouhan V, et al. Expression dynamics of HSP70 during chronic heat stress in Tharparkar cattle. Int. J. Biometeorol.. 2017;61(6):1017-1027.
  • 7. Vaure C, Liu Y. A comparative review of toll-like receptor 4 expression and functionality in different animal species. Front. immunol.. 2014;5:316.
  • 8. Kannaki T, Shanmugam M, Verma P. Toll-like receptors and their role in animal reproduction. Anim. Reprod. Sci.. 2011;125(1-4):1-12.
  • 9. Tang D, Kang R, Coyne CB, Zeh HJ, Lotze MT. PAMP s and DAMP s: signal 0s that spur autophagy and immunity. Immunol. Rev. 2012;249(1):158-175.
  • 10. McGuire K, Jones M, Werling D, Williams J, Glass E, Jann O. Radiation hybrid mapping of all 10 characterized bovine Toll‐like receptors. Anim. Genet.. 2006;37(1):47-50.
  • 11. Wang M, Song H, Zhu X, et al. Toll-like receptor 4 gene polymorphisms influence milk production traits in Chinese Holstein cows. Res. J. Dairy Sci. 2018;85(4):407-411.
  • 12. Kumar S, Kumar S, Singh RV, et al. Genetic association of polymorphisms in bovine TLR2 and TLR4 genes with Mycobacterium avium subspecies paratuberculosis infection in Indian cattle population. Vet. Res. Commun. 2019;43(2):105-114.
  • 13. Bharati J, Dangi S, Mishra S, et al. Expression analysis of toll like receptors and interleukins in Tharparkar cattle during acclimation to heat stress exposure. J. Therm. Biol.. 2017;65:48-56.
  • 14. Fang H, Wu Y, Huang X, et al. Toll-like receptor 4 (TLR4) is essential for Hsp70-like protein 1 (HSP70L1) to activate dendritic cells and induce Th1 response. JBC 2011;286(35):30393-30400.
  • 15. Mucha R, Bhide M, Chakurkar E, Novak M, Mikula Sr I. Toll-like receptors TLR1, TLR2 and TLR4 gene mutations and natural resistance to Mycobacterium avium subsp. paratuberculosis infection in cattle. Vet. Immunol. Immunopathol.. 2009;128(4):381-388.
  • 16. Chen H, Liu C, Xiang M, et al. Contribution of the mutation rs8193069 in TLR4 to mastitis resistance and performance in Holstein cows in southern China. Vet. Med. Sci. 2022;8(1):357-366.
  • 17. El‐Domany WB, Radwan HA, Ateya AI, Ramadan HH, Marghani BH, Nasr SM. Genetic Polymorphisms in LTF/EcoRI and TLR4/AluI loci as candidates for milk and reproductive performance assessment in Holstein cattle. Reprod. Domest. Anim. 2019;54(4):678-686.
  • 18. Sambrook J, Russell DW, Sambrook J. The condensed protocols: from molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press Cold Spring Harbor, NY; 2006.
  • 19. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Paper presented at: Nucleic acids symposium series1999.
  • 20. Yeh F, Yang R, Boyle T. POPGENE version 1.32: Microsoft Windows–based freeware for population genetic analysis, quick user guide. Center for International Forestry Research, University of Alberta, Edmonton, Alberta, Canada. 1999:1-29.
  • 21. Jumper J, Evans R, Pritzel A, et al. Highly accurate protein structure prediction with AlphaFold. Nature. 2021;596(7873):583-589.
  • 22. Capriotti E, Fariselli P, Calabrese R, Casadio R. Predicting protein stability changes from sequences using support vector machines. Bioinformatics. 2005;21(suppl_2):ii54-ii58.
  • 23. Venselaar H, Te Beek TA, Kuipers RK, Hekkelman ML, Vriend G. Protein structure analysis of mutations causing inheritable diseases. An e-Science approach with life scientist friendly interfaces. BMC Bioinformatics. 2010;11(1):1-10.
  • 24. Molteni M, Gemma S, Rossetti C. The role of toll-like receptor 4 in infectious and noninfectious inflammation. Mediators Inflamm. 2016;2016.
  • 25. Clabbers MT, Holmes S, Muusse TW, et al. MyD88 TIR domain higher-order assembly interactions revealed by microcrystal electron diffraction and serial femtosecond crystallography. Nat. Commun. 2021;12(1):1-14.
  • 26. Yang Y, Hu Y, Zhou Y, et al. Lys694Arg polymorphism leads to blunted responses to LPS by interfering TLR4 with recruitment of MyD88. Innate Immun.. 2021;27(6):483-492.
  • 27. Bhaladhare A, Sharma D, Kumar A, et al. Single nucleotide polymorphisms in toll-like receptor genes and case-control association studies with bovine tuberculosis. Vet. World 2016;9(5):458.
  • 28. Wang XP, Luoreng ZM, Gao SX, et al. Haplotype analysis of TLR4 gene and its effects on milk somatic cell score in Chinese commercial cattle. Mol. Biol. Rep. 2014;41(4):2345-2351.
  • 29. Sharma B, Leyva I, Schenkel F, Karrow N. Association of toll-like receptor 4 polymorphisms with somatic cell score and lactation persistency in Holstein bulls. J. Dairy Sci. 2006;89(9):3626-3635.
  • 30. Kulibaba R, Liashenko Y, Ivashchenko O. Polymorphism of TLR1, TLR4, and SLC11A1 genes in populations of different cattle breeds of Ukrainian selection. Agric. Sci. Pract. 2021;8(3):25-34.
  • 31. Mišeikienė R, Švedaitė A, Bižienė R, Pečiulaitienė N, Ugenskienė R. The influence of TLR4 gene polymorphisms on milk quality and composition of Lithuanian Holstein cows. Mljekarstvo: časopis za unaprjeđenje proizvodnje i prerade mlijeka. 2020;70(2):112-119.
  • 32. Elzaki S, Korkuc P, Arends D, Reissmann M, Rahmatalla SA, Brockmann GA. Validation of somatic cell score-associated SNPs from Holstein cattle in Sudanese Butana and Butana× Holstein crossbred cattle. Trop. Anim. Health Prod.. 2022;54(1):1-6.
  • 33. Liu Y, Xu C, Gao T, Sun Y. Polymorphisms of the ATP1A1 gene associated with mastitis in dairy cattle. Genet Mol Res. 2012;11(1):651-660.
  • 34. Chen R, Wang Z, Yang Z, Zhu X, Ji D, Mao Y. Association of IL8-105G/A with mastitis somatic cell score in Chinese Holstein dairy cows. Anim. Biotechnol. 2015;26(2):143-147.
  • 35. Ağaoğlu ÖK, Akyüz B, Zeytünlü E, Ağaoğlu AR. Investigation of G+ 265C and G-1539A single nucleotide polymorphisms of toll-like receptor 4 gene (TLR4) in some cattle breeds raised in Turkey. Slov. Vet. Zb. 2020;57(1).
  • 36. Bilgen N, Cinar Kul B, Offord V, Werling D, Ertugrul O. Determination of genetic variations of Toll-like receptor (TLR) 2, 4, and 6 with next-generation sequencing in native cattle breeds of Anatolia and Holstein Friesian. Diversity. 2016;8(4):23.
  • 37. Arslan K. Polymorphisms of TLR1, TLR4 and SLC11A1 genes in some cattle breeds reared in Turkey. J. Agric. Sci. 2018;24(4):547-553.
  • 38. Cinar MU, Hizlisoy H, Akyüz B, Arslan K, Aksel EG, Gümüşsoy KS. Polymorphisms in toll-like receptor (TLR) 1, 4, 9 and SLC11A1 genes and their association with paratuberculosis susceptibility in Holstein and indigenous crossbred cattle in Turkey. J. Genet.. 2018;97(5):1147-1154.
  • 39. Badgujar NV, Tarapara BV, Shah FD. Computational analysis of high-risk SNPs in human CHK2 gene responsible for hereditary breast cancer: A functional and structural impact. Plos One. 2019;14(8):e0220711.
There are 39 citations in total.

Details

Primary Language English
Subjects Veterinary Surgery
Journal Section Research Articles
Authors

Sertaç Atalay 0000-0003-4942-7729

Publication Date July 1, 2023
Acceptance Date March 1, 2023
Published in Issue Year 2023 Volume: 42 Issue: 1

Cite

APA Atalay, S. (2023). Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey. Journal of Research in Veterinary Medicine, 42(1), 37-43. https://doi.org/10.30782/jrvm.1197130
AMA Atalay S. Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey. J Res Vet Med. July 2023;42(1):37-43. doi:10.30782/jrvm.1197130
Chicago Atalay, Sertaç. “Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey”. Journal of Research in Veterinary Medicine 42, no. 1 (July 2023): 37-43. https://doi.org/10.30782/jrvm.1197130.
EndNote Atalay S (July 1, 2023) Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey. Journal of Research in Veterinary Medicine 42 1 37–43.
IEEE S. Atalay, “Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey”, J Res Vet Med, vol. 42, no. 1, pp. 37–43, 2023, doi: 10.30782/jrvm.1197130.
ISNAD Atalay, Sertaç. “Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey”. Journal of Research in Veterinary Medicine 42/1 (July 2023), 37-43. https://doi.org/10.30782/jrvm.1197130.
JAMA Atalay S. Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey. J Res Vet Med. 2023;42:37–43.
MLA Atalay, Sertaç. “Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey”. Journal of Research in Veterinary Medicine, vol. 42, no. 1, 2023, pp. 37-43, doi:10.30782/jrvm.1197130.
Vancouver Atalay S. Characterization and Computational Investigation of Polymorphisms in the TIR Domain of the TLR4 Protein in Holsteins Raised in Turkey. J Res Vet Med. 2023;42(1):37-43.