title: Novel SNP identification in exon 3 of HSP90AA1 gene and their association with heat tolerance traits in Karan Fries (Bos taurus × Bos indicus) cows under tropical climatic condition.
abstract: Heat shock proteins (HSPs) act as molecular chaperones those are preferentially transcribed in respose to heat stress and the polymorphism in HSP genes associated with heat tolerance traits in cows. HSP90AA1 gene has been mapped on Bos taurus autosome 21 (BTA-21) and spans nearly 5368 bp comprising of 11 exons out of which the first exon does not translate. The present study was done on Karan Fries (5/8 HF × 3/8 Tharparkar) cows reared in tropical climate with the objectives of identifying single-nucleotide polymorphisms (SNPs) in targeted regions (exon 3) of HSP90AA1 gene and analyzing their association with heat tolerance traits in Karan Fries cows. Respiration rate (RR) and rectal temperature (RT) were recorded once daily for four consecutive days during probable extreme hours in different seasons or temperature humidity index (THI), viz., winter, spring, and summer. For detecting single-nucleotide polymorphisms, sequence data were analyzed using BioEdit software (version 7.2). Comparative sequence analysis of HSP90AA1 gene showed point mutation, viz., g.1209A>G (exon 3) as compared to Bos taurus (NCBI Ref Seq: AC_000178.1). Association analysis indicated that THI was influenced (P < 0.01) by RR, RT, and HTC. Similarly, SNPs at locus g.1209A>G were categorized into three genotypes, i.e., AA, AG, and GG, and the least squares means (LSMEANS) of RR, RT, and HTC for GG (homozygous) genotype were significantly lower (P < 0.01) than AA (homozygous) and AG (heterozygous) genotypes. These findings may partly suggest that cows with GG genotypes were favored for heat tolerance trait, which can be used as an aid to selection for thermo-tolerance Karan Fries cows for better adaptation in subtropical and tropical hot climate.
authors.affiliation: Dairy Cattle Breeding Division, Indian Council of Agricultural Research, National Dairy Research Institute, Karnal, Haryana, 132001, India. rakesh05vet@gmail.com.
authors.forename: Rakesh
authors.initials: R
authors.lastname: Kumar
authors.affiliation: Principal Scientist, Dairy Cattle Breeding Division, Indian Council of Agricultural Research, National Dairy Research Institute, Karnal, Haryana, 132001, India.
authors.forename: Ishwar Dayal
authors.initials: ID
authors.lastname: Gupta
authors.affiliation: Principal Scientist, Dairy Cattle Breeding Division, Indian Council of Agricultural Research, National Dairy Research Institute, Karnal, Haryana, 132001, India.
authors.forename: Archana
authors.initials: A
authors.lastname: Verma
authors.affiliation: Principal Scientist, Dairy Cattle Breeding Division, Indian Council of Agricultural Research, National Dairy Research Institute, Karnal, Haryana, 132001, India.
authors.forename: Sohan Vir
authors.initials: SV
authors.lastname: Singh
authors.affiliation: Dairy Cattle Breeding Division, Indian Council of Agricultural Research, National Dairy Research Institute, Karnal, Haryana, 132001, India.
authors.forename: Nishant
authors.initials: N
authors.lastname: Verma
authors.affiliation: Dairy Cattle Breeding Division, Indian Council of Agricultural Research, National Dairy Research Institute, Karnal, Haryana, 132001, India.
authors.forename: M R
authors.initials: MR
authors.lastname: Vineeth
authors.affiliation: Animal Genetics and Breeding Department, LUVAS, Hisar, Haryana, 125004, India.
authors.forename: Ankit
authors.initials: A
authors.lastname: Magotra
authors.affiliation: Dairy Cattle Breeding Division, Indian Council of Agricultural Research, National Dairy Research Institute, Karnal, Haryana, 132001, India.
authors.forename: Ramendra
authors.initials: R
authors.lastname: Das
mesh_terms: D000064:Acclimatization; D000818:Animals; D001831:Body Temperature / Q000235:genetics; D002417:Cattle / Q000235:genetics*; D003433:Crosses, Genetic; D005091:Exons; D005260:Female; D005838:Genotype; D018841:HSP90 Heat-Shock Proteins / Q000235:genetics*; D006360:Heat-Shock Proteins / Q000235:genetics; D006358:Hot Temperature; D006813:Humidity; D016018:Least-Squares Analysis; D010641:Phenotype; D016133:Polymerase Chain Reaction; D020641:Polymorphism, Single Nucleotide; D056152:Respiratory Rate; D012621:Seasons; D017422:Sequence Analysis, DNA; D014329:Tropical Climate
chemical_list: D018841:HSP90 Heat-Shock Proteins; D006360:Heat-Shock Proteins
keywords: HSP90AA1; Heat stress; Karan Fries; SNP