Genetic analysis of teat number and litter traits in pigs

Lundeheim, N.; Chalkias, Helena; Rydhmer, Lotta

doi:10.1080/09064702.2013.841749

Cited by 16 publications

(30 citation statements)

References 5 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Previously, a maternal effect on teat number was reported [24] but has not been studied by GWAS or genomic prediction. Data error is a source of phenotypic variation, but teat number is easy to measure and any data errors that might have occurred would only be minor, given that our GWAS results on chromosome 7 agreed with those of other studies [2, 3] and that our genomic heritability estimates are consistent with those based on pedigree data [3, 23]. …”

Section: Discussionsupporting

confidence: 83%

“…Estimated narrow-sense heritabilities ranged from 0.346 to 0.350 (Table 1) and were within the range of recently published heritability estimates based on pedigree relationships, e.g., 0.39 in a study using 57,000 Yorkshire pigs [23], and 0.37 in a study using 1550 Landrace pigs [3]. The above genomic and pedigree-based heritability estimates indicate that swine teat number has a strong genetic component, and also that a large portion of the phenotypic variation is not explained by additive genetic effects.…”

Section: Discussionsupporting

confidence: 76%

See 1 more Smart Citation

Genome-wide association study and accuracy of genomic prediction for teat number in Duroc pigs using genotyping-by-sequencing

Tan

Ren

et al. 2017

Genet Sel Evol

View full text Add to dashboard Cite

BackgroundThe number of teats in pigs is related to a sow’s ability to rear piglets to weaning age. Several studies have identified genes and genomic regions that affect teat number in swine but few common results were reported. The objective of this study was to identify genetic factors that affect teat number in pigs, evaluate the accuracy of genomic prediction, and evaluate the contribution of significant genes and genomic regions to genomic broad-sense heritability and prediction accuracy using 41,108 autosomal single nucleotide polymorphisms (SNPs) from genotyping-by-sequencing on 2936 Duroc boars.ResultsNarrow-sense heritability and dominance heritability of teat number estimated by genomic restricted maximum likelihood were 0.365 ± 0.030 and 0.035 ± 0.019, respectively. The accuracy of genomic predictions, calculated as the average correlation between the genomic best linear unbiased prediction and phenotype in a tenfold validation study, was 0.437 ± 0.064 for the model with additive and dominance effects and 0.435 ± 0.064 for the model with additive effects only. Genome-wide association studies (GWAS) using three methods of analysis identified 85 significant SNP effects for teat number on chromosomes 1, 6, 7, 10, 11, 12 and 14. The region between 102.9 and 106.0 Mb on chromosome 7, which was reported in several studies, had the most significant SNP effects in or near the PTGR2, FAM161B, LIN52, VRTN, FCF1, AREL1 and LRRC74A genes. This region accounted for 10.0% of the genomic additive heritability and 8.0% of the accuracy of prediction. The second most significant chromosome region not reported by previous GWAS was the region between 77.7 and 79.7 Mb on chromosome 11, where SNPs in the FGF14 gene had the most significant effect and accounted for 5.1% of the genomic additive heritability and 5.2% of the accuracy of prediction. The 85 significant SNPs accounted for 28.5 to 28.8% of the genomic additive heritability and 35.8 to 36.8% of the accuracy of prediction.ConclusionsThe three methods used for the GWAS identified 85 significant SNPs with additive effects on teat number, including SNPs in a previously reported chromosomal region and SNPs in novel chromosomal regions. Most significant SNPs with larger estimated effects also had larger contributions to the total genomic heritability and accuracy of prediction than other SNPs.Electronic supplementary materialThe online version of this article (doi:10.1186/s12711-017-0311-8) contains supplementary material, which is available to authorized users.

show abstract

Section: Discussionsupporting

confidence: 83%

Section: Discussionsupporting

confidence: 76%

Genome-wide association study and accuracy of genomic prediction for teat number in Duroc pigs using genotyping-by-sequencing

Tan

Ren

et al. 2017

Genet Sel Evol

View full text Add to dashboard Cite

show abstract

“…The heritability of teat number ranges from 0.32 to 0.39 (Lundeheim et al . ). To date, a total of 168 QTL related to teat number have been reported in different populations (Hu et al .…”

Section: Effect Of the Ssc5:60296617 Snp On Teat Number Traitsmentioning

confidence: 97%

Genotyping by sequencing reveals a new locus for pig teat number

Wang

Zhang

et al. 2017

Animal Genetics

View full text Add to dashboard Cite

Teat number is an extremely valuable trait for sow reproduction performance and piglet survival. Here, we used genotyping-by-sequencing and a general liner model to carry out genome-wide analysis of sow total teat number in an Erhualian population. The results indicated that eight SNPs on chromosomes 4, 5, 9 and 10 were significant genome wide (Bonferroni method, P < 2.85E-7) for sow total teat number. Validation analyses were performed in 298 Erhualian and 904 Large White sows using these significant SNPs and the general liner model procedure in sas. Finally, only the SNP on chromosome 5 was found to be significantly associated with sow teat number in both populations. The GG genotype individuals had 2.23 and 0.82 more teat numbers respectively than did the AA genotype individuals in these two populations (P < 0.05). According to the expression and annotation analyses, we inferred the presence of a gene or lincRNA that could affect teat number by regulating other genes and ultimately affecting the mammogenesis of pigs. Further studies using methods such as Cas9 editing and gene silencing analysis are necessary for additional function analysis.

show abstract

“…Estimated NFT heritability for several pig breeds ranges from 0.28 to 0.49 (Long, Aasmundstad, & Holm, ; Lundeheim, Chalkias, & Rydhmer, ; Rohrer & Nonneman, ). Lundeheim et al () reported a genetic variance of 0.35 and 0.46 for the total number of teats and NFTs, respectively, in the Swedish Yorkshire breed at an animal weight of 100 kg and found a high genetic correlation value of 0.82 between the two traits. Krupa, Žáková, Krupová, and Michaličková () estimated a genetic variance of 0.187 for the total number of teats in the Czech dam breeds.…”

Section: Introductionmentioning

confidence: 99%

Estimation of economic weights for number of teats and sperm quality traits in pigs

Krupa

Wolfová

Krupová

et al. 2019

J Animal Breeding Genetics

View full text Add to dashboard Cite

Accurate predictive modelling facilitates efficient and effective trait selection in animal breeding and can decrease costs while maximizing profits when raising economically important animals. The objective of this study was to extend a previously developed bioeconomic model and computer program to calculate the marginal economic values (MEVs) and economic weights (EWs) for direct and maternal pig traits affected by new reproductive traits, namely the number of sow functional teats (NFTs) and boar sperm quality traits (SQTs) that included sperm volume, sperm concentration, motility percentage and percentage of abnormal spermatozoa. The MEV of NFTs represented the cost differences between naturally and artificially reared piglets until weaning and the cost differences between naturally and artificially reared finished animals. The MEVs of SQTs expressed the saved costs for artificial insemination, assuming a decreased price per insemination dose when improving the SQTs. The absolute and relative EWs for the newly defined complex of traits in the breeding objectives for pig breeds involved in the Czech national three‐way crossing system (Czech Large White [CLW], Czech Landrace [CL] and Pietrain [PN]) were calculated using gene flow methods. The NFT trait was included only for dam breeds, and the relative EW averaged 3.6% of the total economic importance based on the genetic standard deviations of all 19 simultaneously evaluated traits in CLW and CL breeds. The relative EWs of the four SQTs comprised 2.0% of the total economic importance of the 19 traits in the CLW and CL dam breeds and 8% of the total economic importance of the 18 traits in the PN sire breed. Therefore, inclusion of the NFTs for dam breeds and SQTs for sire breeds in the breeding goal is recommended to aid in obtaining ideal outcomes with optimal economic values.

show abstract

Genetic analysis of teat number and litter traits in pigs

Cited by 16 publications

References 5 publications

Genome-wide association study and accuracy of genomic prediction for teat number in Duroc pigs using genotyping-by-sequencing

Genome-wide association study and accuracy of genomic prediction for teat number in Duroc pigs using genotyping-by-sequencing

Genotyping by sequencing reveals a new locus for pig teat number

Estimation of economic weights for number of teats and sperm quality traits in pigs

Contact Info

Product

Resources

About