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Identification of Candidate Signature Genes and Key Regulators Associated With Trypanotolerance in the Sheko Breed

dc.contributor.authorMekonnen, Yonatan Ayalew
dc.contributor.authorGültas, Mehmet
dc.contributor.authorEffa, Kefena
dc.contributor.authorHanotte, Olivier
dc.contributor.authorSchmitt, Armin O.
dc.date.accessioned2019-11-19T12:56:48Z
dc.date.available2019-11-19T12:56:48Z
dc.date.issued2019de
dc.relation.ISSN1664-8021de
dc.identifier.urihttp://resolver.sub.uni-goettingen.de/purl?gs-1/16692
dc.description.abstractAfrican animal trypanosomiasis (AAT) is caused by a protozoan parasite that affects the health of livestock. Livestock production in Ethiopia is severely hampered by AAT and various controlling measures were not successful to eradicate the disease. AAT affects the indigenous breeds in varying degrees. However, the Sheko breed shows better trypanotolerance than other breeds. The tolerance attributes of Sheko are believed to be associated with its taurine genetic background but the genetic controls of these tolerance attributes of Sheko are not well understood. In order to investigate the level of taurine background in the genome, we compare the genome of Sheko with that of 11 other African breeds. We find that Sheko has an admixed genome composed of taurine and indicine ancestries. We apply three methods: (i) The integrated haplotype score (iHS), (ii) the standardized log ratio of integrated site specific extended haplotype homozygosity between populations (Rsb), and (iii) the composite likelihood ratio (CLR) method to discover selective sweeps in the Sheko genome. We identify 99 genomic regions harboring 364 signature genes in Sheko. Out of the signature genes, 15 genes are selected based on their biological importance described in the literature. We also identify 13 overrepresented pathways and 10 master regulators in Sheko using the TRANSPATH database in the geneXplain platform. Most of the pathways are related with oxidative stress responses indicating a possible selection response against the induction of oxidative stress following trypanosomiasis infection in Sheko. Furthermore, we present for the first time the importance of master regulators involved in trypanotolerance not only for the Sheko breed but also in the context of cattle genomics. Our finding shows that the master regulator Caspase is a key protease which plays a major role for the emergence of adaptive immunity in harmony with the other master regulators. These results suggest that designing and implementing genetic intervention strategies is necessary to improve the performance of susceptible animals. Moreover, the master regulatory analysis suggests potential candidate therapeutic targets for the development of new drugs for trypanosomiasis treatment.de
dc.description.sponsorshipOpen-Access-Publikationsfonds 2019
dc.language.isoengde
dc.rightsopenAccess
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.subjecttrypanosomiasis; trypanotolerant; selection signature; candidate signature genes; master regulators; overrepresented pathwaysde
dc.subject.ddc630
dc.titleIdentification of Candidate Signature Genes and Key Regulators Associated With Trypanotolerance in the Sheko Breedde
dc.typejournalArticlede
dc.identifier.doi10.3389/fgene.2019.01095
dc.identifier.doi10.3389/fgene.2019.01095.s001
dc.identifier.doi10.3389/fgene.2019.01095.s002
dc.identifier.doi10.3389/fgene.2019.01095.s003
dc.identifier.doi10.3389/fgene.2019.01095.s004
dc.identifier.doi10.3389/fgene.2019.01095.s005
dc.identifier.doi10.3389/fgene.2019.01095.s006
dc.identifier.doi10.3389/fgene.2019.01095.s007
dc.identifier.doi10.3389/fgene.2019.01095.s008
dc.identifier.doi10.3389/fgene.2019.01095.s009
dc.identifier.doi10.3389/fgene.2019.01095.s010
dc.identifier.doi10.3389/fgene.2019.01095.s011
dc.identifier.doi10.3389/fgene.2019.01095.s012
dc.identifier.doi10.3389/fgene.2019.01095.s013
dc.identifier.doi10.3389/fgene.2019.01095.s014
dc.identifier.doi10.3389/fgene.2019.01095.s015
dc.identifier.doi10.3389/fgene.2019.01095.s016
dc.type.versionpublishedVersionde
dc.relation.eISSN1664-8021
dc.bibliographicCitation.volume10de
dc.type.subtypejournalArticle
dc.bibliographicCitation.articlenumber1095
dc.description.statuspeerReviewedde
dc.bibliographicCitation.journalFrontiers in Geneticsde


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