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
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...
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| Veröffentlicht in: | Tropical animal health and production 2016-04, Vol.48 (4), p.735-740 |
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| creator | Kumar, Rakesh Gupta, Ishwar Dayal Verma, Archana Singh, Sohan Vir Verma, Nishant Vineeth, M. R. Magotra, Ankit Das, Ramendra |
| description | 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
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
|
| doi_str_mv | 10.1007/s11250-016-1016-7 |
| format | Article |
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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.</description><identifier>ISSN: 0049-4747</identifier><identifier>EISSN: 1573-7438</identifier><identifier>DOI: 10.1007/s11250-016-1016-7</identifier><identifier>PMID: 26898694</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Acclimatization ; Animals ; Biomedical and Life Sciences ; Body Temperature - genetics ; Bos indicus ; Bos taurus ; Cattle ; Cattle - genetics ; Climatic conditions ; Crosses, Genetic ; Exons ; Female ; Genotype ; Genotypes ; Heat tolerance ; Heat-Shock Proteins - genetics ; Hot Temperature ; HSP90 Heat-Shock Proteins - genetics ; Humidity ; Least-Squares Analysis ; Life Sciences ; Phenotype ; Polymerase Chain Reaction ; Polymorphism, Single Nucleotide ; Regular Articles ; Respiratory Rate ; Seasons ; Sequence Analysis, DNA ; Tropical Climate ; Veterinary Medicine/Veterinary Science ; Zoology</subject><ispartof>Tropical animal health and production, 2016-04, Vol.48 (4), p.735-740</ispartof><rights>Springer Science+Business Media Dordrecht 2016</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c405t-29bc845b4a83a04a58fde7a9db9049d7448407e6d44f90da463381aedf97c8513</citedby><cites>FETCH-LOGICAL-c405t-29bc845b4a83a04a58fde7a9db9049d7448407e6d44f90da463381aedf97c8513</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11250-016-1016-7$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11250-016-1016-7$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,777,781,27905,27906,41469,42538,51300</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/26898694$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kumar, Rakesh</creatorcontrib><creatorcontrib>Gupta, Ishwar Dayal</creatorcontrib><creatorcontrib>Verma, Archana</creatorcontrib><creatorcontrib>Singh, Sohan Vir</creatorcontrib><creatorcontrib>Verma, Nishant</creatorcontrib><creatorcontrib>Vineeth, M. R.</creatorcontrib><creatorcontrib>Magotra, Ankit</creatorcontrib><creatorcontrib>Das, Ramendra</creatorcontrib><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</title><title>Tropical animal health and production</title><addtitle>Trop Anim Health Prod</addtitle><addtitle>Trop Anim Health Prod</addtitle><description>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.</description><subject>Acclimatization</subject><subject>Animals</subject><subject>Biomedical and Life Sciences</subject><subject>Body Temperature - genetics</subject><subject>Bos indicus</subject><subject>Bos taurus</subject><subject>Cattle</subject><subject>Cattle - genetics</subject><subject>Climatic conditions</subject><subject>Crosses, Genetic</subject><subject>Exons</subject><subject>Female</subject><subject>Genotype</subject><subject>Genotypes</subject><subject>Heat tolerance</subject><subject>Heat-Shock Proteins - genetics</subject><subject>Hot Temperature</subject><subject>HSP90 Heat-Shock Proteins - genetics</subject><subject>Humidity</subject><subject>Least-Squares Analysis</subject><subject>Life Sciences</subject><subject>Phenotype</subject><subject>Polymerase Chain Reaction</subject><subject>Polymorphism, Single Nucleotide</subject><subject>Regular Articles</subject><subject>Respiratory Rate</subject><subject>Seasons</subject><subject>Sequence Analysis, DNA</subject><subject>Tropical Climate</subject><subject>Veterinary Medicine/Veterinary Science</subject><subject>Zoology</subject><issn>0049-4747</issn><issn>1573-7438</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2016</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNqFkcFuFSEUhonR2Gv1AdyYk7ipi1GYYQZY3jbWGpvapLqecOFML81cuAJj9Ul8E1_AF5PJVGNMjBtO4Hz_f4CfkKeMvmSUileJsbqlFWVdxeZF3CMr1oqmEryR98mKUq4qLrg4II9SuqG0qGT3kBzUnVSyU3xFvl-EzzjC1cUlOIs-u8EZnV3w4Dzgl1IbCAOcXV0qul4zuEaPoL2FvEUXQacUjFsEty5vYYs6Qw4jRu0NQo7a5TR7vdPlBE6jwwRHxyFB1lOcEvz4BvPOeevMlF6ACbcJJm8xFnHYl9uMYEa3KzNMaRZsHvaYPBj0mPDJXT0kH09ffzg5q87fv3l7sj6vDKdtrmq1MZK3G65loynXrRwsCq3sRpWvsYJzyanAznI-KGo175pGMo12UMLIljWH5Gjx3cfwacKU-51LBsdRewxT6pmQtK1ZW4T_R0VHpaq5LOjzv9CbMEVfHjJTbcNYCapQbKFMDClFHPp9LP8Qv_aM9nP-_ZJ_X6Lv5_x7UTTP7pynzQ7tb8WvwAtQL0AqLX-N8Y_R_3T9CfoLuz4</recordid><startdate>20160401</startdate><enddate>20160401</enddate><creator>Kumar, Rakesh</creator><creator>Gupta, Ishwar Dayal</creator><creator>Verma, Archana</creator><creator>Singh, Sohan Vir</creator><creator>Verma, Nishant</creator><creator>Vineeth, M. R.</creator><creator>Magotra, Ankit</creator><creator>Das, Ramendra</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QL</scope><scope>7T7</scope><scope>7U7</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>7X8</scope><scope>7TM</scope></search><sort><creationdate>20160401</creationdate><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</title><author>Kumar, Rakesh ; Gupta, Ishwar Dayal ; Verma, Archana ; Singh, Sohan Vir ; Verma, Nishant ; Vineeth, M. 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R.</creatorcontrib><creatorcontrib>Magotra, Ankit</creatorcontrib><creatorcontrib>Das, Ramendra</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Toxicology Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>MEDLINE - Academic</collection><collection>Nucleic Acids Abstracts</collection><jtitle>Tropical animal health and production</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Kumar, Rakesh</au><au>Gupta, Ishwar Dayal</au><au>Verma, Archana</au><au>Singh, Sohan Vir</au><au>Verma, Nishant</au><au>Vineeth, M. R.</au><au>Magotra, Ankit</au><au>Das, Ramendra</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>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</atitle><jtitle>Tropical animal health and production</jtitle><stitle>Trop Anim Health Prod</stitle><addtitle>Trop Anim Health Prod</addtitle><date>2016-04-01</date><risdate>2016</risdate><volume>48</volume><issue>4</issue><spage>735</spage><epage>740</epage><pages>735-740</pages><issn>0049-4747</issn><eissn>1573-7438</eissn><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.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><pmid>26898694</pmid><doi>10.1007/s11250-016-1016-7</doi><tpages>6</tpages></addata></record> |
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| ispartof | Tropical animal health and production, 2016-04, Vol.48 (4), p.735-740 |
| issn | 0049-4747 1573-7438 |
| language | eng |
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| source | MEDLINE; Springer Nature - Complete Springer Journals |
| subjects | Acclimatization Animals Biomedical and Life Sciences Body Temperature - genetics Bos indicus Bos taurus Cattle Cattle - genetics Climatic conditions Crosses, Genetic Exons Female Genotype Genotypes Heat tolerance Heat-Shock Proteins - genetics Hot Temperature HSP90 Heat-Shock Proteins - genetics Humidity Least-Squares Analysis Life Sciences Phenotype Polymerase Chain Reaction Polymorphism, Single Nucleotide Regular Articles Respiratory Rate Seasons Sequence Analysis, DNA Tropical Climate Veterinary Medicine/Veterinary Science Zoology |
| 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 |
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