Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed

In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illum...
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Autor*in:	Magriet A. van der Nest [verfasserIn] Nompilo Hlongwane [verfasserIn] Khanyisile Hadebe [verfasserIn] Wai-Yin Chan [verfasserIn] Nicolaas A. van der Merwe [verfasserIn] Lieschen De Vos [verfasserIn] Ben Greyling [verfasserIn] Bhaveni B. Kooverjee [verfasserIn] Pranisha Soma [verfasserIn] Edgar F. Dzomba [verfasserIn] Michael Bradfield [verfasserIn] Farai C. Muchadeyi [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2021

Schlagwörter:	simbra crossbreeding genomic selection indicine taurine

Übergeordnetes Werk:	In: Frontiers in Genetics - Frontiers Media S.A., 2011, 11(2021)
Übergeordnetes Werk:	volume:11 ; year:2021

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.3389/fgene.2020.608650

Katalog-ID:	DOAJ072410817

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allfields	10.3389/fgene.2020.608650 doi (DE-627)DOAJ072410817 (DE-599)DOAJ15271c43c48d4489aad2de634cfccf93 DE-627 ger DE-627 rakwb eng QH426-470 Magriet A. van der Nest verfasserin aut Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry. simbra crossbreeding genomic selection indicine taurine Genetics Nompilo Hlongwane verfasserin aut Khanyisile Hadebe verfasserin aut Wai-Yin Chan verfasserin aut Nicolaas A. van der Merwe verfasserin aut Lieschen De Vos verfasserin aut Ben Greyling verfasserin aut Bhaveni B. Kooverjee verfasserin aut Pranisha Soma verfasserin aut Edgar F. Dzomba verfasserin aut Michael Bradfield verfasserin aut Farai C. Muchadeyi verfasserin aut In Frontiers in Genetics Frontiers Media S.A., 2011 11(2021) (DE-627)65799829X (DE-600)2606823-0 16648021 nnns volume:11 year:2021 https://doi.org/10.3389/fgene.2020.608650 kostenfrei https://doaj.org/article/15271c43c48d4489aad2de634cfccf93 kostenfrei https://www.frontiersin.org/articles/10.3389/fgene.2020.608650/full kostenfrei https://doaj.org/toc/1664-8021 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 11 2021
spelling	10.3389/fgene.2020.608650 doi (DE-627)DOAJ072410817 (DE-599)DOAJ15271c43c48d4489aad2de634cfccf93 DE-627 ger DE-627 rakwb eng QH426-470 Magriet A. van der Nest verfasserin aut Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry. simbra crossbreeding genomic selection indicine taurine Genetics Nompilo Hlongwane verfasserin aut Khanyisile Hadebe verfasserin aut Wai-Yin Chan verfasserin aut Nicolaas A. van der Merwe verfasserin aut Lieschen De Vos verfasserin aut Ben Greyling verfasserin aut Bhaveni B. Kooverjee verfasserin aut Pranisha Soma verfasserin aut Edgar F. Dzomba verfasserin aut Michael Bradfield verfasserin aut Farai C. Muchadeyi verfasserin aut In Frontiers in Genetics Frontiers Media S.A., 2011 11(2021) (DE-627)65799829X (DE-600)2606823-0 16648021 nnns volume:11 year:2021 https://doi.org/10.3389/fgene.2020.608650 kostenfrei https://doaj.org/article/15271c43c48d4489aad2de634cfccf93 kostenfrei https://www.frontiersin.org/articles/10.3389/fgene.2020.608650/full kostenfrei https://doaj.org/toc/1664-8021 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 11 2021
allfields_unstemmed	10.3389/fgene.2020.608650 doi (DE-627)DOAJ072410817 (DE-599)DOAJ15271c43c48d4489aad2de634cfccf93 DE-627 ger DE-627 rakwb eng QH426-470 Magriet A. van der Nest verfasserin aut Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry. simbra crossbreeding genomic selection indicine taurine Genetics Nompilo Hlongwane verfasserin aut Khanyisile Hadebe verfasserin aut Wai-Yin Chan verfasserin aut Nicolaas A. van der Merwe verfasserin aut Lieschen De Vos verfasserin aut Ben Greyling verfasserin aut Bhaveni B. Kooverjee verfasserin aut Pranisha Soma verfasserin aut Edgar F. Dzomba verfasserin aut Michael Bradfield verfasserin aut Farai C. Muchadeyi verfasserin aut In Frontiers in Genetics Frontiers Media S.A., 2011 11(2021) (DE-627)65799829X (DE-600)2606823-0 16648021 nnns volume:11 year:2021 https://doi.org/10.3389/fgene.2020.608650 kostenfrei https://doaj.org/article/15271c43c48d4489aad2de634cfccf93 kostenfrei https://www.frontiersin.org/articles/10.3389/fgene.2020.608650/full kostenfrei https://doaj.org/toc/1664-8021 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 11 2021
allfieldsGer	10.3389/fgene.2020.608650 doi (DE-627)DOAJ072410817 (DE-599)DOAJ15271c43c48d4489aad2de634cfccf93 DE-627 ger DE-627 rakwb eng QH426-470 Magriet A. van der Nest verfasserin aut Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry. simbra crossbreeding genomic selection indicine taurine Genetics Nompilo Hlongwane verfasserin aut Khanyisile Hadebe verfasserin aut Wai-Yin Chan verfasserin aut Nicolaas A. van der Merwe verfasserin aut Lieschen De Vos verfasserin aut Ben Greyling verfasserin aut Bhaveni B. Kooverjee verfasserin aut Pranisha Soma verfasserin aut Edgar F. Dzomba verfasserin aut Michael Bradfield verfasserin aut Farai C. Muchadeyi verfasserin aut In Frontiers in Genetics Frontiers Media S.A., 2011 11(2021) (DE-627)65799829X (DE-600)2606823-0 16648021 nnns volume:11 year:2021 https://doi.org/10.3389/fgene.2020.608650 kostenfrei https://doaj.org/article/15271c43c48d4489aad2de634cfccf93 kostenfrei https://www.frontiersin.org/articles/10.3389/fgene.2020.608650/full kostenfrei https://doaj.org/toc/1664-8021 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 11 2021
allfieldsSound	10.3389/fgene.2020.608650 doi (DE-627)DOAJ072410817 (DE-599)DOAJ15271c43c48d4489aad2de634cfccf93 DE-627 ger DE-627 rakwb eng QH426-470 Magriet A. van der Nest verfasserin aut Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed 2021 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry. simbra crossbreeding genomic selection indicine taurine Genetics Nompilo Hlongwane verfasserin aut Khanyisile Hadebe verfasserin aut Wai-Yin Chan verfasserin aut Nicolaas A. van der Merwe verfasserin aut Lieschen De Vos verfasserin aut Ben Greyling verfasserin aut Bhaveni B. Kooverjee verfasserin aut Pranisha Soma verfasserin aut Edgar F. Dzomba verfasserin aut Michael Bradfield verfasserin aut Farai C. Muchadeyi verfasserin aut In Frontiers in Genetics Frontiers Media S.A., 2011 11(2021) (DE-627)65799829X (DE-600)2606823-0 16648021 nnns volume:11 year:2021 https://doi.org/10.3389/fgene.2020.608650 kostenfrei https://doaj.org/article/15271c43c48d4489aad2de634cfccf93 kostenfrei https://www.frontiersin.org/articles/10.3389/fgene.2020.608650/full kostenfrei https://doaj.org/toc/1664-8021 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 11 2021
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callnumber-first	Q - Science
author	Magriet A. van der Nest
spellingShingle	Magriet A. van der Nest misc QH426-470 misc simbra misc crossbreeding misc genomic selection misc indicine misc taurine misc Genetics Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed
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topic_title	QH426-470 Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed simbra crossbreeding genomic selection indicine taurine
topic	misc QH426-470 misc simbra misc crossbreeding misc genomic selection misc indicine misc taurine misc Genetics
topic_unstemmed	misc QH426-470 misc simbra misc crossbreeding misc genomic selection misc indicine misc taurine misc Genetics
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title	Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed
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author_browse	Magriet A. van der Nest Nompilo Hlongwane Khanyisile Hadebe Wai-Yin Chan Nicolaas A. van der Merwe Lieschen De Vos Ben Greyling Bhaveni B. Kooverjee Pranisha Soma Edgar F. Dzomba Michael Bradfield Farai C. Muchadeyi
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title_sort	breed ancestry, divergence, admixture, and selection patterns of the simbra crossbreed
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title_auth	Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed
abstract	In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry.
abstractGer	In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry.
abstract_unstemmed	In this study, we evaluated an admixed South African Simbra crossbred population, as well as the Brahman (Indicine) and Simmental (Taurine) ancestor populations to understand their genetic architecture and detect genomic regions showing signatures of selection. Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. This study represents an important step toward developing and improving strategies for selection and population breeding to ultimately contribute meaningfully to the beef production industry.
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title_short	Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed
url	https://doi.org/10.3389/fgene.2020.608650 https://doaj.org/article/15271c43c48d4489aad2de634cfccf93 https://www.frontiersin.org/articles/10.3389/fgene.2020.608650/full https://doaj.org/toc/1664-8021
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Animals were genotyped using the Illumina BovineLD v2 BeadChip (7K). Genomic structure analysis confirmed that the South African Simbra cattle have an admixed genome, composed of 5/8 Taurine and 3/8 Indicine, ensuring that the Simbra genome maintains favorable traits from both breeds. Genomic regions that have been targeted by selection were detected using the linkage disequilibrium-based methods iHS and Rsb. These analyses identified 10 candidate regions that are potentially under strong positive selection, containing genes implicated in cattle health and production (e.g., TRIM63, KCNA10, NCAM1, SMIM5, MIER3, and SLC24A4). These adaptive alleles likely contribute to the biological and cellular functions determining phenotype in the Simbra hybrid cattle breed. Our data suggested that these alleles were introgressed from the breed's original indicine and taurine ancestors. The Simbra breed thus possesses derived parental alleles that combine the superior traits of the founder Brahman and Simmental breeds. These regions and genes might represent good targets for ad-hoc physiological studies, selection of breeding material and eventually even gene editing, for improved traits in modern cattle breeds. 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Breed Ancestry, Divergence, Admixture, and Selection Patterns of the Simbra Crossbreed

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