First DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants

This study investigated polymorphisms in the milk protein genes CSN1S1, CSN2, CSN1S2, CSN3, LALBA, and LGB, and casein haplotypes in Beninese indigenous cattle. Considering 67 animals, D...

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Autores principales:	Sèyi Fridaïus Ulrich Vanvanhossou, Isabella Jasmin Giambra, Tong Yin, Kerstin Brügemann, Luc Hippolyte Dossa, Sven König
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	casein and whey protein genes genetic variants casein haplotype African taurine and indicine breeds microRNA transcription factor binding sites Genetics QH426-470
Acceso en línea:	https://doaj.org/article/77f068f4ca784cecac8c86ba4da9c466
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spelling	oai:doaj.org-article:77f068f4ca784cecac8c86ba4da9c4662021-11-25T17:40:59ZFirst DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants10.3390/genes121117022073-4425https://doaj.org/article/77f068f4ca784cecac8c86ba4da9c4662021-10-01T00:00:00Zhttps://www.mdpi.com/2073-4425/12/11/1702https://doaj.org/toc/2073-4425This study investigated polymorphisms in the milk protein genes <i>CSN1S1</i>, <i>CSN2</i>, <i>CSN1S2</i>, <i>CSN3</i>, <i>LALBA</i>, and <i>LGB</i>, and casein haplotypes in Beninese indigenous cattle. Considering 67 animals, DNA sequencing of the genes’ exons, flanking regions and parts of the 5′-upstream regions identified 1058 genetic variants including 731 previously unknown. In addition, four novel milk protein variants were detected, including <i>CSN3<sup>K</sup></i> (p.Ala66Val), <i>LALBA<sup>F</sup></i> (p.Arg58Trp), <i>LGB<sup>B1</sup></i> (p.Ala134Val) and <i>LGB<sup>K</sup></i> (p.Thr92Asnfs*13). <i>CSN3<sup>K</sup></i> is caused by a novel SNP (BTA6:85656526C>T, exon 4) whereas <i>LALBA<sup>F</sup></i> and <i>LGB<sup>B1</sup></i> are due to rs714688595C>T (exon 1) and rs109625649C>T (exon 4), respectively. Regarding <i>LGB<sup>K</sup></i>, a frameshift insertion of one adenine residue at BTA11:103257980 (exon 3) induces a premature translation termination resulting in a 46% reduction of the reference protein sequence. The casein polymorphisms formed five main <i>CSN1S1-CSN2-CSN1S2-CSN3</i> haplotypes including B-A1-A-B, B-A1-A-A and C-A2-A-B which are predominant in the investigated cattle breeds. Moreover, in silico analyses of polymorphisms within the 5′- and 3′- untranslated regions of all six milk proteins revealed effects on microRNA and transcription factor binding sites. This study suggests a large genetic variation of milk protein genes in Beninese cattle, which should be investigated in further studies for their effects on milk production, including quality and yield traits.Sèyi Fridaïus Ulrich VanvanhossouIsabella Jasmin GiambraTong YinKerstin BrügemannLuc Hippolyte DossaSven KönigMDPI AGarticlecasein and whey protein genesgenetic variantscasein haplotypeAfrican taurine and indicine breedsmicroRNAtranscription factor binding sitesGeneticsQH426-470ENGenes, Vol 12, Iss 1702, p 1702 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	casein and whey protein genes genetic variants casein haplotype African taurine and indicine breeds microRNA transcription factor binding sites Genetics QH426-470
spellingShingle	casein and whey protein genes genetic variants casein haplotype African taurine and indicine breeds microRNA transcription factor binding sites Genetics QH426-470 Sèyi Fridaïus Ulrich Vanvanhossou Isabella Jasmin Giambra Tong Yin Kerstin Brügemann Luc Hippolyte Dossa Sven König First DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants
description	This study investigated polymorphisms in the milk protein genes <i>CSN1S1</i>, <i>CSN2</i>, <i>CSN1S2</i>, <i>CSN3</i>, <i>LALBA</i>, and <i>LGB</i>, and casein haplotypes in Beninese indigenous cattle. Considering 67 animals, DNA sequencing of the genes’ exons, flanking regions and parts of the 5′-upstream regions identified 1058 genetic variants including 731 previously unknown. In addition, four novel milk protein variants were detected, including <i>CSN3<sup>K</sup></i> (p.Ala66Val), <i>LALBA<sup>F</sup></i> (p.Arg58Trp), <i>LGB<sup>B1</sup></i> (p.Ala134Val) and <i>LGB<sup>K</sup></i> (p.Thr92Asnfs*13). <i>CSN3<sup>K</sup></i> is caused by a novel SNP (BTA6:85656526C>T, exon 4) whereas <i>LALBA<sup>F</sup></i> and <i>LGB<sup>B1</sup></i> are due to rs714688595C>T (exon 1) and rs109625649C>T (exon 4), respectively. Regarding <i>LGB<sup>K</sup></i>, a frameshift insertion of one adenine residue at BTA11:103257980 (exon 3) induces a premature translation termination resulting in a 46% reduction of the reference protein sequence. The casein polymorphisms formed five main <i>CSN1S1-CSN2-CSN1S2-CSN3</i> haplotypes including B-A1-A-B, B-A1-A-A and C-A2-A-B which are predominant in the investigated cattle breeds. Moreover, in silico analyses of polymorphisms within the 5′- and 3′- untranslated regions of all six milk proteins revealed effects on microRNA and transcription factor binding sites. This study suggests a large genetic variation of milk protein genes in Beninese cattle, which should be investigated in further studies for their effects on milk production, including quality and yield traits.
format	article
author	Sèyi Fridaïus Ulrich Vanvanhossou Isabella Jasmin Giambra Tong Yin Kerstin Brügemann Luc Hippolyte Dossa Sven König
author_facet	Sèyi Fridaïus Ulrich Vanvanhossou Isabella Jasmin Giambra Tong Yin Kerstin Brügemann Luc Hippolyte Dossa Sven König
author_sort	Sèyi Fridaïus Ulrich Vanvanhossou
title	First DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants
title_short	First DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants
title_full	First DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants
title_fullStr	First DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants
title_full_unstemmed	First DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants
title_sort	first dna sequencing in beninese indigenous cattle breeds captures new milk protein variants
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/77f068f4ca784cecac8c86ba4da9c466
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First DNA Sequencing in Beninese Indigenous Cattle Breeds Captures New Milk Protein Variants

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