Tetens, Jens

[["dc.bibliographiccitation.journal","Journal of Applied Genetics"],["dc.contributor.author","Vosgerau, Sarah"],["dc.contributor.author","Krattenmacher, Nina"],["dc.contributor.author","Falker-Gieske, Clemens"],["dc.contributor.author","Seidel, Anita"],["dc.contributor.author","Tetens, Jens"],["dc.contributor.author","Stock, Kathrin F."],["dc.contributor.author","Nolte, Wietje"],["dc.contributor.author","Wobbe, Mirell"],["dc.contributor.author","Blaj, Iulia"],["dc.contributor.author","Reents, Reinhard"],["dc.contributor.author","Thaller, Georg"],["dc.date.accessioned","2022-02-01T10:32:00Z"],["dc.date.available","2022-02-01T10:32:00Z"],["dc.date.issued","2022"],["dc.description.abstract","Abstract   Reliability of genomic predictions is influenced by the size and genetic composition of the reference population. For German Warmblood horses, compilation of a reference population has been enabled through the cooperation of five German breeding associations. In this study, preliminary data from this joint reference population were used to genetically and genomically characterize withers height and to apply single-step methodology for estimating genomic breeding values for withers height. Using data on 2113 mares and their genomic information considering about 62,000 single nucleotide polymorphisms (SNPs), analysis of the genomic relationship revealed substructures reflecting breed origin and different breeding goals of the contributing breeding associations. A genome-wide association study confirmed a known quantitative trait locus (QTL) for withers height on equine chromosome (ECA) 3 close to LCORL and identified a further significant peak on ECA 1. Using a single-step approach with a combined relationship matrix, the estimated heritability for withers height was 0.31 (SE = 0.08) and the corresponding genomic breeding values ranged from − 2.94 to 2.96 cm. A mean reliability of 0.38 was realized for these breeding values. The analyses of withers height showed that compiling a reference population across breeds is a suitable strategy for German Warmblood horses. The single-step method is an appealing approach for practical genomic prediction in horses, because not many genotypes are available yet and animals without genotypes can by this way directly contribute to the estimation system."],["dc.description.abstract","Abstract   Reliability of genomic predictions is influenced by the size and genetic composition of the reference population. For German Warmblood horses, compilation of a reference population has been enabled through the cooperation of five German breeding associations. In this study, preliminary data from this joint reference population were used to genetically and genomically characterize withers height and to apply single-step methodology for estimating genomic breeding values for withers height. Using data on 2113 mares and their genomic information considering about 62,000 single nucleotide polymorphisms (SNPs), analysis of the genomic relationship revealed substructures reflecting breed origin and different breeding goals of the contributing breeding associations. A genome-wide association study confirmed a known quantitative trait locus (QTL) for withers height on equine chromosome (ECA) 3 close to LCORL and identified a further significant peak on ECA 1. Using a single-step approach with a combined relationship matrix, the estimated heritability for withers height was 0.31 (SE = 0.08) and the corresponding genomic breeding values ranged from − 2.94 to 2.96 cm. A mean reliability of 0.38 was realized for these breeding values. The analyses of withers height showed that compiling a reference population across breeds is a suitable strategy for German Warmblood horses. The single-step method is an appealing approach for practical genomic prediction in horses, because not many genotypes are available yet and animals without genotypes can by this way directly contribute to the estimation system."],["dc.identifier.doi","10.1007/s13353-021-00681-w"],["dc.identifier.pii","681"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/99000"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-517"],["dc.relation.eissn","2190-3883"],["dc.relation.issn","1234-1983"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0"],["dc.title","Genetic and genomic characterization followed by single-step genomic evaluation of withers height in German Warmblood horses"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","e0205576"],["dc.bibliographiccitation.issue","10"],["dc.bibliographiccitation.journal","PLoS One"],["dc.bibliographiccitation.volume","13"],["dc.contributor.author","Blaj, Iulia"],["dc.contributor.author","Tetens, Jens"],["dc.contributor.author","Preuß, Siegfried"],["dc.contributor.author","Bennewitz, Jörn"],["dc.contributor.author","Thaller, Georg"],["dc.contributor.editor","Óvilo, Cristina"],["dc.date.accessioned","2020-12-10T18:42:09Z"],["dc.date.available","2020-12-10T18:42:09Z"],["dc.date.issued","2018"],["dc.identifier.doi","10.1371/journal.pone.0205576"],["dc.identifier.eissn","1932-6203"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/15706"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/77827"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.notes.intern","Merged from goescholar"],["dc.relation.orgunit","Fakultät für Agrarwissenschaften"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0"],["dc.title","Genome-wide association studies and meta-analysis uncovers new candidate genes for growth and carcass traits in pigs"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","2823"],["dc.bibliographiccitation.issue","9"],["dc.bibliographiccitation.journal","G3: Genes, Genomes, Genetics"],["dc.bibliographiccitation.lastpage","2834"],["dc.bibliographiccitation.volume","9"],["dc.contributor.author","Falker-Gieske, Clemens"],["dc.contributor.author","Blaj, Iulia"],["dc.contributor.author","Preuß, Siegfried"],["dc.contributor.author","Bennewitz, Jörn"],["dc.contributor.author","Thaller, Georg"],["dc.contributor.author","Tetens, Jens"],["dc.date.accessioned","2020-12-10T18:42:41Z"],["dc.date.available","2020-12-10T18:42:41Z"],["dc.date.issued","2019"],["dc.identifier.doi","10.1534/g3.119.400452"],["dc.identifier.eissn","2160-1836"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/16481"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/78045"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.notes.intern","Merged from goescholar"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0"],["dc.title","GWAS for Meat and Carcass Traits Using Imputed Sequence Level Genotypes in Pooled F2-Designs in Pigs"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","631"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","BMC Genomics"],["dc.bibliographiccitation.volume","23"],["dc.contributor.author","Blaj, Iulia"],["dc.contributor.author","Tetens, Jens"],["dc.contributor.author","Bennewitz, Jörn"],["dc.contributor.author","Thaller, Georg"],["dc.contributor.author","Falker-Gieske, Clemens"],["dc.date.accessioned","2022-09-05T09:03:00Z"],["dc.date.available","2022-09-05T09:03:00Z"],["dc.date.issued","2022-09-03"],["dc.date.updated","2022-09-04T03:12:20Z"],["dc.description.abstract","Abstract\r\n \r\n Background\r\n Structural variants and tandem repeats are relevant sources of genomic variation that are not routinely analyzed in genome wide association studies mainly due to challenging identification and genotyping. Here, we profiled these variants via state-of-the-art strategies in the founder animals of four F2 pig crosses using whole-genome sequence data (20x coverage). The variants were compared at a founder level with the commonly screened SNPs and small indels. At the F2 level, we carried out an association study using imputed structural variants and tandem repeats with four growth and carcass traits followed by a comparison with a previously conducted SNPs and small indels based association study.\r\n \r\n \r\n Results\r\n A total of 13,201 high confidence structural variants and 103,730 polymorphic tandem repeats (with a repeat length of 2-20 bp) were profiled in the founders. We observed a moderate to high (r from 0.48 to 0.57) level of co-localization between SNPs or small indels and structural variants or tandem repeats. In the association step 56.56% of the significant variants were not in high LD with significantly associated SNPs and small indels identified for the same traits in the earlier study and thus presumably not tagged in case of a standard association study. For the four growth and carcass traits investigated, many of the already proposed candidate genes in our previous studies were confirmed and additional ones were identified. Interestingly, a common pattern on how structural variants or tandem repeats regulate the phenotypic traits emerged. Many of the significant variants were embedded or nearby long non-coding RNAs drawing attention to their functional importance. Through which specific mechanisms the identified long non-coding RNAs and their associated structural variants or tandem repeats contribute to quantitative trait variation will need further investigation.\r\n \r\n \r\n Conclusions\r\n The current study provides insights into the characteristics of structural variants and tandem repeats and their role in association studies. A systematic incorporation of these variants into genome wide association studies is advised. While not of immediate interest for genomic prediction purposes, this will be particularly beneficial for elucidating biological mechanisms driving the complex trait variation."],["dc.identifier.citation","BMC Genomics. 2022 Sep 03;23(1):631"],["dc.identifier.doi","10.1186/s12864-022-08716-0"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/114071"],["dc.language.iso","en"],["dc.rights","CC BY 4.0"],["dc.rights.holder","The Author(s)"],["dc.subject","Structural variants"],["dc.subject","Tandem repeats"],["dc.subject","Genome wide association studies"],["dc.subject","Imputation"],["dc.subject","Pig"],["dc.subject","Whole-genome sequencing"],["dc.subject","lncRNA"],["dc.title","Structural variants and tandem repeats in the founder individuals of four F2 pig crosses and implications to F2 GWAS results"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]