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Mulim HA, Hernandez RO, Vanderhout R, Bai X, Willems O, Regmi P, Erasmus MA, Brito LF. Genetic background of walking ability and its relationship with leg defects, mortality, and performance traits in turkeys (Meleagris gallopavo). Poult Sci 2024; 103:103779. [PMID: 38788487 PMCID: PMC11145530 DOI: 10.1016/j.psj.2024.103779] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2024] [Revised: 03/28/2024] [Accepted: 04/17/2024] [Indexed: 05/26/2024] Open
Abstract
This study aimed to explore the genetic basis of walking ability and potentially related performance traits in turkey purebred populations. Phenotypic, pedigree, and genomic datasets from 2 turkey lines hatched between 2010 and 2023 were included in the study. Walking ability data, defined based on a scoring system ranging from 1 (worst) to 6 (best), were collected on 192,019 animals of a female line and 235,461 animals of a male line. Genomic information was obtained for 46,427 turkeys (22,302 from a female line and 24,125 from a male line) using a 65K single nucleotide polymorphism (SNP) panel. Variance components and heritability for walking ability were estimated. Furthermore, genetic and phenotypic correlations among walking ability, mortality and disorders, and performance traits were calculated. A genome-wide association study (GWAS) was also conducted to identify SNPs associated with walking ability. Walking ability is moderately heritable (0.23 ± 0.01) in both turkey lines. The genetic correlations between walking ability and the other evaluated traits ranged from -0.02 to -0.78, with leg defects exhibiting the strongest negative correlation with walking ability. In the female line, 31 SNPs were associated with walking ability and overlapped with 116 genes. These positional genes are linked to 6 gene ontology (GO) terms. Notably, genes such as CSRP2, DDX1, RHBDL1, SEZ6L, and CTSK are involved in growth, development, locomotion, and bone disorders. GO terms, including fibronectin binding (GO:0001968), peptide cross-linking (GO:0018149), and catabolic process (GO:0009057), are directly linked with mobility. In the male line, 66 markers associated with walking ability were identified and overlapped with 281 genes. These genes are linked to 12 GO terms. Genes such as RB1CC1, TNNI1, MSTN, FN1, SIK3, PADI2, ERBB4, B3GNT2, and BACE1 are associated with cell growth, myostatin development, and disorders. GO terms in the male line are predominantly related to lipid metabolism. In conclusion, walking ability is moderately heritable in both populations. Furthermore, walking ability can be enhanced through targeted genetic selection, emphasizing its relevance to both animal welfare and productivity.
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Affiliation(s)
- Henrique A Mulim
- Department of Animal Sciences, Purdue University, West Lafayette, IN, USA
| | - Rick O Hernandez
- Department of Animal Sciences, Purdue University, West Lafayette, IN, USA
| | | | - Xuechun Bai
- Hendrix Genetics Limited, Kitchener, ON, Canada
| | | | - Prafulla Regmi
- Department of Poultry Science, University of Georgia, Athens, GA, USA
| | - Marisa A Erasmus
- Department of Animal Sciences, Purdue University, West Lafayette, IN, USA
| | - Luiz F Brito
- Department of Animal Sciences, Purdue University, West Lafayette, IN, USA.
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Mahmoud BY, Semida DA, El-Full EA, Emam AM. Genetic evaluation for survival traits in Japanese quail line selected for fast growth rate. Anim Biotechnol 2023; 34:2414-2419. [PMID: 35801402 DOI: 10.1080/10495398.2022.2094800] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022]
Abstract
The main objectives of this study were to estimate genetic parameters for the survival, longevity and evaluate risk factors for the occurrence of mortality in a Japanese quail line selected for high growth rate during the period from hatch to 21 days of age (GR1-21) for eight generations and its control. Total number of 1095, 2289 and 16,506 for sires, dams and progeny, respectively, was used to estimate genetic parameters, a separate hatch of 687 chicks was used to examine the risk factors of quails in the selected (SL, 438) and control (CL, 249) lines. The proportion of censored quails until 42 days of age was 82.20 and 87.14 for SL and CL, respectively. The CL showed higher longevity than SL (38.42 vs. 36.86 days). In the two tested lines, mortality% significantly declined when body weight at death increased, however, the CL had a higher reduction of mortality% than the SL (50 vs. 42%). Survival and longevity had low heritability values, low genetic and phenotypic correlations between survival and longevity with GR1-21 and ranging from 0.025 to 0.208. The survival tended to be less correlated with GR1-21 and body weight at marketing age than the longevity.
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Affiliation(s)
- Bothaina Y Mahmoud
- Poultry Production Department, Faculty of Agriculture, Fayoum University, Fayoum, Egypt
| | - Doaa A Semida
- Poultry Production Department, Faculty of Agriculture, Fayoum University, Fayoum, Egypt
| | - Ensaf A El-Full
- Poultry Production Department, Faculty of Agriculture, Fayoum University, Fayoum, Egypt
| | - Ahmed M Emam
- Poultry Production Department, Faculty of Agriculture, Fayoum University, Fayoum, Egypt
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Soyalp S, Hartono E, Willems OW, Wood BJ, Aggrey SE, Rekaya R. Research Note: Analysis of body weight and walking ability in turkeys and the prediction of categorical responses across systematic effect classes using a linear threshold model. Poult Sci 2023; 102:102993. [PMID: 37611453 PMCID: PMC10466913 DOI: 10.1016/j.psj.2023.102993] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2023] [Revised: 07/24/2023] [Accepted: 07/28/2023] [Indexed: 08/25/2023] Open
Abstract
Heavy selection for growth in turkeys has led to a decay in leg soundness and walking ability. In this study, different models and traits were used to investigate the genetic relationships between body weight (BW) and walking ability (WA) in a turkey population. The data consisted of BW and WA traits collected on 276,059 male birds. Body weight was measured at 12 and 20 wk and WA at 20 wk of age. For WA, birds were scored based on a 1 (bad) to 6 (good) grading system. Due to the small number of records with scores 5 and 6, birds with WA scores of 4, 5, and 6 were grouped together resulting in only 4 classes. Additionally, a binary classification of WA (scores 1 and 2 = Similarly, an estimate of the genetic correlation between WA and BW at 20 wk was -0.45, indicating a more pronounced class 1; scores 3, 4, 5, and 6 = class 2) was evaluated. The inheritability estimates of WA ranged between 0.25 and 0.27 depending on the number of classes. The Heritability of BW at 12 and 20 wk was 0.44 and 0.51, respectively. The genetic correlation between WA and BW at 12 wk was around -0.35, indicating that heavy birds tend to have poor WA. antagonistic relationship between BW and WA. The genetic correlation between BW at 12 and 20 wk was positive and high (0.80). The residual correlation between WA and BW at 12 and 20 wk of age was -0.07 and -0.02, respectively. The residual correlation between body weight traits was 0.57. Similar results were observed when a binary classification was adopted for WA. The probability of an individual with a given genetic merit expressing a certain class of WA was determined for different fixed effect designations. Predictive probabilities clearly showed that birds when hatched in the winter would have a small chance to exhibit good WA phenotypes.
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Affiliation(s)
- Samet Soyalp
- Department of Animal and Dairy Science, University of Georgia, Athens, GA 30602, USA
| | - Evan Hartono
- Department of Poultry Science, University of Georgia, Athens, GA 30602, USA
| | | | - Ben J Wood
- School of Veterinary Science, The University of Queensland, Brisbane, Queensland, Australia
| | - Samuel E Aggrey
- Department of Poultry Science, University of Georgia, Athens, GA 30602, USA
| | - Romdhane Rekaya
- Department of Animal and Dairy Science, University of Georgia, Athens, GA 30602, USA.
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Soyalp S, Hartono E, Willems OW, Bai X, Wood BJ, Aggrey SE, Rekaya R. Growth Rate Distribution and Potential Non-Linear Relationship between Body Weight and Walking Ability in Turkeys. Animals (Basel) 2023; 13:2979. [PMID: 37760379 PMCID: PMC10525933 DOI: 10.3390/ani13182979] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Revised: 09/14/2023] [Accepted: 09/18/2023] [Indexed: 09/29/2023] Open
Abstract
The aim of this study was to investigate the potential non-linear relationship between growth and walking ability (WA). The phenotypic data included body weights at 12 and 20 weeks and WA at 20 weeks of age measured on 276,059 male turkeys. The growth rate at three age periods (0 to 12, 12 to 20 and 0 to 20 weeks) was calculated. Each bird was assigned to one of the quartiles of the growth rate distribution for each age period. Between the first and fourth quartiles, the incidence of score 1 (bad WA) increased by 31, 18, and 33% for the first, second, and third age periods, respectively. For good WA (scores 4, 5, and 6), the incidence decreased by 55, 66, and 72% between the first and fourth quartiles for the first, second, and third age periods, respectively. Estimates of heritability of WA ranged between 0.18 and 0.26. The genetic correlations between adjacent growth rate quartiles were high and decayed as the interval between quartiles increased. The magnitude of the variation in the incidence of walking scores and genetic correlations across the growth rate quartiles point towards a non-linear relationship between growth and mobility suggesting other factors may affect walking ability.
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Affiliation(s)
- Samet Soyalp
- Department of Animal and Dairy Science, University of Georgia, Athens, GA 30602, USA
| | - Evan Hartono
- Department of Poultry Science, University of Georgia, Athens, GA 30602, USA
| | | | - Xuechun Bai
- Hybrid Turkeys, Kitchener, ON N2K 352, Canada (X.B.)
| | - Benjamin J. Wood
- School of Veterinary Science, The University of Queensland, Brisbane, QLD 4343, Australia;
| | - Samuel E. Aggrey
- Department of Poultry Science, University of Georgia, Athens, GA 30602, USA
| | - Romdhane Rekaya
- Department of Animal and Dairy Science, University of Georgia, Athens, GA 30602, USA
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Faraji-Arough H, Maghsoudi A, Rokouei M. Study of genetic and non-genetic effects on cumulative survival in a crossbred population of quail. Trop Anim Health Prod 2022; 55:5. [PMID: 36509919 DOI: 10.1007/s11250-022-03418-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2022] [Accepted: 12/01/2022] [Indexed: 12/15/2022]
Abstract
Minimizing bird mortality in the commercial quail breeding industry is important from an economic and welfare perspective. Genetic and non-genetic factors can influence on the cumulative survival of the birds (CS). Accordingly, this study aimed to investigate non-genetic factors on CSs (cumulative survival of the birds from hatch to 5 (CS1), 10 (CS2), 15 (CS3), 20 (CS4), 25 (CS5), 30 (CS6), 35 (CS7), 40 (CS8), and 45 (CS9) days of age), and estimation of the genetic parameters for CSs in crossbred population of quail. Data set included 1794 records from crossbred chicks hatched from 70 sires and 72 dams. The fixed effects were analyzed using an animal model by ASReml software, and all traits were analyzed using Bayesian method via Gibbs sampling by fitting of 6 threshold animal models including the direct genetic effect, the maternal permanent environmental effect, and the maternal genetic effect. The best fitted model for each trait was selected based on the deviance information criteria. Hatch number, the month of hatch, and combination of chickens showed a significant effect on CSs, but the sex of chickens does not have a significant effect on CSs. However, females have higher survival than males (except for CS1). With the best model, the highest and lowest direct heritability was estimated for CS5 (0.386) and CS3 (0.250), respectively. The maternal genetic effect was significant for CS1, CS2, CS3, and CS4 traits, but the maternal permanent environmental effect was significant only for CS1. The range of maternal heritability for CS1 to CS4 traits was estimated from 0.064 to 0.111, and ratio of the permanent environmental variance to phenotypic variance for CS1 was 0.021. The result showed that increasing of the birds' survival could be performed by correcting non-genetic factors and genetic selection for CSs considering the maternal genetic effects in younger ages. HIGHLIGHTS: • In the commercial quail breeding industry, the bird mortality is important from an economic and welfare perspective. • Improving quail survival can be achieved by controlling the genetic and non-genetic factors affecting on survival, so knowledge of these factors is necessary. • The combination of crossbred chickens had a significant effect on cumulative survival traits. • The Cumulative survival traits in the crossbred population had relatively high genetic diversity, so genetic selection for these traits could be effective.
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Affiliation(s)
- Hadi Faraji-Arough
- Department of Ostrich, Special Domestic Animals Institute, Research Institute of Zabol, Zabol, Iran.
| | - Ali Maghsoudi
- Department of Animal Science, Faculty of Agriculture, University of Zabol, Zabol, Iran
- Department of Animal Science, Faculty of Agriculture, Tarbiat Modares University, Tehran, Iran
| | - Mohammad Rokouei
- Department of Animal Science, Faculty of Agriculture, University of Zabol, Zabol, Iran
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Abdalla EA, Makanjuola BO, van Staaveren N, Wood BJ, Baes CF. Accuracy of genomic selection for reducing susceptibility to pendulous crop in turkey (Meleagris gallopavo). Poult Sci 2022; 101:101601. [PMID: 34954445 PMCID: PMC8715376 DOI: 10.1016/j.psj.2021.101601] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2021] [Revised: 09/03/2021] [Accepted: 11/15/2021] [Indexed: 11/29/2022] Open
Abstract
Pendulous crop (PC) in the turkey occurs when the crop distends from its normal position, thereby preventing the movement of feed and water from the crop down into the digestive system. This condition negatively impacts the turkey industry at both production and welfare levels. In this study, we estimated the genetic parameters for PC incidence and its genetic correlation with 5 production traits. Additionally, we evaluated the prediction accuracy and bias of breeding values for the selection candidates using pedigree (BLUP) or pedigree-genomic (ssGBLUP) relationships among the animals. A total of 245,783 turkey records were made available by Hybrid Turkeys, Kitchener, Canada. Of these, 6,545 were affected with PC. In addition, the data included 9,634 records for breast meat yield (BMY); 5,592 records for feed conversion ratio (FCR) and residual feed intake (RFI) in males; 170,844 records for body weight (BW) and walking score (WS) between 18 and 20 wk of age for males (71,012) and females (99,832), respectively. Among this population, 36,830 were genotyped using a 65K SNP Illumina Inc. chip. While all animals passed the quality control criteria, only 53,455 SNP markers were retained for subsequent analysis. Heritability for PC was estimated at 0.16 ± 0.00 and 0.17 ± 0.00 using BLUP and ssGBLUP, respectively. The incidence of PC was not genetically correlated with WS or FCR. Low unfavourable genetic correlations with BW (0.12 and 0.14), BMY (0.24 and 0.24) and RFI (-0.33 and -0.28) were obtained using BLUP and ssGBLUP, respectively. Using ssGBLUP showed higher prediction accuracy (0.51) for the breeding values for the selection candidates than the pedigree-based model (0.35). Whereas the bias of the prediction was slightly reduced with ssGBLUP (0.33 ± 0.05) than BLUP (0.30 ± 0.08), both models showed a regression coefficient lower than one, indicating inflation in the predictions. The results of this study suggest that PC is a heritable trait and selection for lower PC incidence rates is feasible. Although further investigation is necessary, selection for BW, BMY, and RFI may increase PC incidence. Incorporating genomic information would lead to higher accuracy in predicting the genetic merit for selection candidates.
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Affiliation(s)
- E A Abdalla
- Centre for Genetic Improvement of Livestock, University of Guelph, Guelph, Ontario, Canada, N1G 2W1.
| | - B O Makanjuola
- Centre for Genetic Improvement of Livestock, University of Guelph, Guelph, Ontario, Canada, N1G 2W1
| | - N van Staaveren
- The Campbell Centre for the Study of Animal Welfare, Department of Animal Biosciences, University of Guelph, Guelph, Ontario, Canada, N1G 2W1
| | - B J Wood
- School of Veterinary Science, University of Queensland, Gatton Campus, Queensland, Australia, QLD 4000; Hybrid Turkeys, Kitchener, Canada
| | - C F Baes
- Centre for Genetic Improvement of Livestock, University of Guelph, Guelph, Ontario, Canada, N1G 2W1; Institute of Genetics, Vetsuisse Faculty, University of Bern, Bern, Switzerland
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Doornweerd JE, Kootstra G, Veerkamp RF, Ellen ED, van der Eijk JAJ, van de Straat T, Bouwman AC. Across-Species Pose Estimation in Poultry Based on Images Using Deep Learning. FRONTIERS IN ANIMAL SCIENCE 2021. [DOI: 10.3389/fanim.2021.791290] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Animal pose-estimation networks enable automated estimation of key body points in images or videos. This enables animal breeders to collect pose information repeatedly on a large number of animals. However, the success of pose-estimation networks depends in part on the availability of data to learn the representation of key body points. Especially with animals, data collection is not always easy, and data annotation is laborious and time-consuming. The available data is therefore often limited, but data from other species might be useful, either by itself or in combination with the target species. In this study, the across-species performance of animal pose-estimation networks and the performance of an animal pose-estimation network trained on multi-species data (turkeys and broilers) were investigated. Broilers and turkeys were video recorded during a walkway test representative of the situation in practice. Two single-species and one multi-species model were trained by using DeepLabCut and tested on two single-species test sets. Overall, the within-species models outperformed the multi-species model, and the models applied across species, as shown by a lower raw pixel error, normalized pixel error, and higher percentage of keypoints remaining (PKR). The multi-species model had slightly higher errors with a lower PKR than the within-species models but had less than half the number of annotated frames available from each species. Compared to the single-species broiler model, the multi-species model achieved lower errors for the head, left foot, and right knee keypoints, although with a lower PKR. Across species, keypoint predictions resulted in high errors and low to moderate PKRs and are unlikely to be of direct use for pose and gait assessments. A multi-species model may reduce annotation needs without a large impact on performance for pose assessment, however, with the recommendation to only be used if the species are comparable. If a single-species model exists it could be used as a pre-trained model for training a new model, and possibly require a limited amount of new data. Future studies should investigate the accuracy needed for pose and gait assessments and estimate genetic parameters for the new phenotypes before pose-estimation networks can be applied in practice.
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Abdalla EA, Wood BJ, Baes CF. Accuracy of breeding values for production traits in turkeys (Meleagris gallopavo) using recursive models with or without genomics. Genet Sel Evol 2021; 53:16. [PMID: 33593272 PMCID: PMC7885440 DOI: 10.1186/s12711-021-00611-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2020] [Accepted: 02/01/2021] [Indexed: 11/10/2022] Open
Abstract
Background Knowledge about potential functional relationships among traits of interest offers a unique opportunity to understand causal mechanisms and to optimize breeding goals, management practices, and prediction accuracy. In this study, we inferred the phenotypic causal networks among five traits in a turkey population and assessed the effect of the use of such causal structures on the accuracy of predictions of breeding values. Methods Phenotypic data on feed conversion ratio, residual feed intake, body weight, breast meat yield, and walking score in addition to genotype data from a commercial breeding population were used. Causal links between the traits were detected using the inductive causation algorithm based on the joint distribution of genetic effects obtained from a standard Bayesian multiple trait model. Then, a structural equation model was implemented to infer the magnitude of causal structure coefficients among the phenotypes. Accuracies of predictions of breeding values derived using pedigree- and blending-based multiple trait models were compared to those obtained with the pedigree- and blending-based structural equation models. Results In contrast to the two unconditioned traits (i.e., feed conversion ratio and breast meat yield) in the causal structures, the three conditioned traits (i.e., residual feed intake, body weight, and walking score) showed noticeable changes in estimates of genetic and residual variances between the structural equation model and the multiple trait model. The analysis revealed interesting functional associations and indirect genetic effects. For example, the structural coefficient for the path from body weight to walking score indicated that a 1-unit genetic improvement in body weight is expected to result in a 0.27-unit decline in walking score. Both structural equation models outperformed their counterpart multiple trait models for the conditioned traits. Applying the causal structures led to an increase in accuracy of estimated breeding values of approximately 7, 6, and 20% for residual feed intake, body weight, and walking score, respectively, and different rankings of selection candidates for the conditioned traits. Conclusions Our results suggest that structural equation models can improve genetic selection decisions and increase the prediction accuracy of breeding values of selection candidates. The identified causal relationships between the studied traits should be carefully considered in future turkey breeding programs.
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Affiliation(s)
- Emhimad A Abdalla
- Centre for Genetic Improvement of Livestock, University of Guelph, Guelph, ON, Canada.
| | - Benjamin J Wood
- Centre for Genetic Improvement of Livestock, University of Guelph, Guelph, ON, Canada.,School of Veterinary Science, University of Queensland, Gatton Campus, Gatton, QLD, Australia.,Hybrid Turkeys, C-650 Riverbend Drive, Suite C, Kitchener, Canada
| | - Christine F Baes
- Centre for Genetic Improvement of Livestock, University of Guelph, Guelph, ON, Canada.,Institute of Genetics, Vetsuisse Faculty, University of Bern, Bern, Switzerland
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van Staaveren N, Leishman EM, Wood BJ, Harlander-Matauschek A, Baes CF. Farmers' Perceptions About Health and Welfare Issues in Turkey Production. Front Vet Sci 2020; 7:332. [PMID: 32596273 PMCID: PMC7303269 DOI: 10.3389/fvets.2020.00332] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2020] [Accepted: 05/13/2020] [Indexed: 12/20/2022] Open
Abstract
Farmers play an essential role in the management of animals and ensuring their health and welfare. However, relatively little is known about the health and welfare-related issues farmers themselves find important in the turkey sector. As part of a larger study, a cross-sectional survey of turkey farmers was conducted in Canada to identify the main perceived reasons for culling, mortality, and carcass condemnations in their flocks. Additionally, farmers were asked to rate the importance of different health and welfare-related issues (i.e., mortality, aggressive pecking, disease, leg injuries, leg deformities, breast injuries, and varying body size) during their summer and winter production, as well as for the sector as a whole. A total of 83 responses were analyzed (response rate 20%). The most frequently mentioned reasons for the culling of turkeys included leg-related issues (90.0%), sickness (60.5%), and small body size (58.0%). The perceived reasons for mortality were most often unknown (59.7%), or related to cannibalism (41.6%) or dehydration (42.9%). The main reasons for carcass condemnations at processing were related to skin (33.8%) or subcutaneous conditions (64.7%). Leg deformities and mortality were considered the biggest issues for the turkey production sector. In general, farmers rated items as more of an issue when the question pertained to the sector as a whole rather than to their farm. These results increase our understanding of the health and welfare-related problems in turkey production that farmers find important. This can ultimately help focus research efforts in addressing these issues through improved management adaptations or breeding approaches, thereby improving both the well-being of farmers and birds.
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Affiliation(s)
- Nienke van Staaveren
- Centre for the Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, Canada.,The Campbell Centre for the Study of Animal Welfare, Department of Animal Biosciences, University of Guelph, Guelph, ON, Canada
| | - Emily M Leishman
- Centre for the Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, Canada
| | - Benjamin J Wood
- Centre for the Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, Canada.,Hybrid Turkeys, Kitchener, ON, Canada.,School of Veterinary Science, University of Queensland, Gatton, QLD, Australia
| | - Alexandra Harlander-Matauschek
- The Campbell Centre for the Study of Animal Welfare, Department of Animal Biosciences, University of Guelph, Guelph, ON, Canada
| | - Christine F Baes
- Centre for the Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, Canada.,Institute of Genetics, Vetsuisse Faculty, University of Bern, Bern, Switzerland
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Bouwman A, Savchuk A, Abbaspourghomi A, Visser B. Automated Step Detection in Inertial Measurement Unit Data From Turkeys. Front Genet 2020; 11:207. [PMID: 32265981 PMCID: PMC7096551 DOI: 10.3389/fgene.2020.00207] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Accepted: 02/21/2020] [Indexed: 11/28/2022] Open
Abstract
Locomotion is an important welfare and health trait in turkey production. Current breeding values for locomotion are often based on subjective scoring. Sensor technologies could be applied to obtain objective evaluation of turkey gait. Inertial measurement units (IMUs) measure acceleration and rotational velocity, which makes them attractive devices for gait analysis. The aim of this study was to compare three different methods for step detection from IMU data from turkeys. This is an essential step for future feature extraction for the evaluation of turkey locomotion. Data from turkeys walking through a corridor with IMUs attached to each upper leg were annotated manually. We evaluated change point detection, local extrema approach, and gradient boosting machine in terms of step detection and precision of start and end point of the steps. All three methods were successful in step detection, but local extrema approach showed more false detections. In terms of precision of start and end point of steps, change point detection performed poorly due to significant irregular delay, while gradient boosting machine was most precise. For the allowed distance to the annotated steps of 0.2 s, the precision of gradient boosting machine was 0.81 and the recall was 0.84, which is much better in comparison to the other two methods (<0.61). At an allowed distance of 1 s, performance of the three models was similar. Gradient boosting machine was identified as the most accurate for signal segmentation with a final goal to extract information about turkey gait; however, it requires an annotated training dataset.
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Affiliation(s)
- Aniek Bouwman
- Animal Breeding and Genomics, Wageningen University & Research, Wageningen, Netherlands
| | - Anatolii Savchuk
- Jheronimus Academy of Data Science (JADS), 's-Hertogenbosch, Netherlands.,Hendrix Genetics, Boxmeer, Netherlands
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Kapell DNRG, Hocking PM, Glover PK, Kremer VD, Avendaño S. Genetic basis of leg health and its relationship with body weight in purebred turkey lines. Poult Sci 2018; 96:1553-1562. [PMID: 28339774 PMCID: PMC5447359 DOI: 10.3382/ps/pew479] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2016] [Accepted: 12/09/2016] [Indexed: 11/20/2022] Open
Abstract
The aims of this study were to estimate the genetic parameters for leg and foot health and mobility in purebred turkey lines and their genetic correlations with BW. Traits were gait score (GS) as an overall measure of leg health, footpad dermatitis (FPD), and 2 skeletal leg health traits, namely, valgus and varus deformities (VVD) and tibial dyschondroplasia (TD). Data from 4 different lines, comprising 3 yr of phenotypic records and 4 yr of pedigree information per line, were used. The sex average BW for the lines at 18 wk ranged from 19.1 kg (line A) to 12.4 kg (line D). The prevalence of VVD ranged from 5.2 to 14.6% and for TD from 4.1 to 23.2%. The average score for FPD on a scale of 0 to 100 ranged from 48.5 to 61.1. Gait Score was scored on a scale of 1 to 5, standardized to a mean of 3 and SD of 1. Heritabilities were estimated at 0.08 to 0.13 for GS, 0.01 to 0.07 for VVD, 0.06 to 0.12 for TD, and 0.10 to 0.15 for FPD (all SE ≤ 0.02). Estimates of the genetic correlations between VVD and TD ranged from 0.03 to 0.21 (all SE ≤ 0.08), and estimates of these with GS ranged from 0.07 to 0.87 (all SE ≤ 0.09). The genetic correlations of FPD with GS ranged from 0.00 to 0.34 (all SE ≤ 0.04), and with the skeletal leg health traits from -0.06 to 0.33 (all SE ≤ 0.06). Body weight showed estimated genetic correlations ranging from 0.28 to 0.51 (all SE ≤ 0.06) with GS, -0.06 to 0.50 (all SE ≤ 0.13) with VVD/TD and 0.05 to 0.34 (all SE ≤ 0.05) with FPD. The results suggest that selection for improved leg health can be incorporated effectively in a commercial turkey breeding program using balanced breeding goals, in which production traits and leg health traits are considered simultaneously.
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Affiliation(s)
| | - P M Hocking
- The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, UK
| | - P K Glover
- Aviagen Turkeys Inc., Lewisburg, West Virginia 24901
| | - V D Kremer
- Aviagen Turkeys Ltd, Tattenhall, Cheshire CH3 9GA, UK
| | - S Avendaño
- Aviagen Ltd, Newbridge, Midlothian EH28 8SZ, UK
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Xu Y, Hu J, Zhang Y, Guo Z, Huang W, Xie M, Liu H, Lei C, Hou S, Liu X, Zhou Z. Selection response and estimation of the genetic parameters for multidimensional measured breast meat yield related traits in a long-term breeding Pekin duck line. ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES 2018; 31:1575-1580. [PMID: 29642677 PMCID: PMC6127582 DOI: 10.5713/ajas.17.0837] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/13/2017] [Accepted: 03/14/2018] [Indexed: 12/29/2022]
Abstract
Objective This study was conducted to estimate the genetic parameters and breeding values of breast meat related traits of Pekin ducks. Selection response was also determined by using ultrasound breast muscle thickness (BMT) measurements in combination with bosom breadth (BB) and keel length (KL) values. Methods The traits analyzed were breast meat weight (BMW), body weight (BW), breast meat percentage (BMP) and the three parameters of breast meat (BB, KL, and BMT). These measurements were derived from studying 15,781 Pekin ducks selected from 10 generations based on breast meat weight. Genetic parameters and breeding value were estimated for the analysis of the breeding process. Results Estimated heritability of BMW and BMP were moderate (0.23 and 0.16, respectively), and heritability of BW was high (0.48). Other traits such as BB, KL, and BMT indicated moderate heritability ranging between 0.11 and 0.28. Significant phenotypic correlations of BMW with BW and BMP were discovered (p<0.05), and genetic correlations of BMW with BW and BMP were positive and high (0.83 and 0.66, respectively). It was noted that BMW had positive correlations with all the other traits. Generational average estimated breeding values of all traits increased substantially over the course of selection, which demonstrated that the ducks responded efficiently to increased breast meat yield after 10 generations of breeding. Conclusion The results indicated that duck BMW had the potential to be increased through genetic selection with positive effects on BW and BMP. The ultrasound BMT, in combination with the measurement of BB and KL, is shown to be essential and effective in the process of high breast meat yield duck breeding.
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Affiliation(s)
- Yaxi Xu
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.,Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Jian Hu
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Yunsheng Zhang
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Zhanbao Guo
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Wei Huang
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Ming Xie
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Hehe Liu
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Chuzhao Lei
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Shuisheng Hou
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Xiaolin Liu
- College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Zhengkui Zhou
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
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14
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Changes in leg health, skin, and plumage condition in domestic male turkeys of varying body weights. Appl Anim Behav Sci 2016. [DOI: 10.1016/j.applanim.2016.02.010] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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15
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Willems OW, Buddiger NJH, Wood BJ. Genetic analysis of production and feed efficiency traits in an Orlopp turkey line (Meleagris gallopavo). Br Poult Sci 2014; 55:715-9. [PMID: 25248125 DOI: 10.1080/00071668.2014.966058] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
1. Genetic parameters for production and feed efficiency traits in the Orlopp line of turkeys were estimated to determine breeding goals and future potential of the line in a long-term genetic improvement programme. 2. Body weight, egg production and fertility traits were recorded and feed conversion ratio (FCR) was assessed from 16-20 weeks of age. 3. Moderate heritabilities were found for feed intake and body weight gain (0.25 to 0.31). Average FCR was 3.14, with heritability of 0.10. Body weight, breast conformation score and egg production traits showed moderate heritabilities (0.22 to 0.52), while both fertility and hatch of fertile eggs were low (0.04 and 0.09, respectively). 4. Genetic correlations between breast confirmation score, 10- and 18-week body weights were moderate, 0.50 and 0.45, respectively. Average egg weight also showed moderate genetic correlations with 10- and 18-week body weights (0.59 and 0.42).
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Affiliation(s)
- O W Willems
- a Centre for the Genetic Improvement of Livestock, Department of Animal and Poultry Science , University of Guelph , Guelph , ON , Canada
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16
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Da Costa M, Grimes J, Oviedo-Rondón E, Barasch I, Evans C, Dalmagro M, Nixon J. Footpad dermatitis severity on turkey flocks and correlations with locomotion, litter conditions, and body weight at market age. J APPL POULTRY RES 2014. [DOI: 10.3382/japr.2013-00848] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
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17
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Willems OW, Miller SP, Wood BJ. Assessment of residual body weight gain and residual intake and body weight gain as feed efficiency traits in the turkey (Meleagris gallopavo). Genet Sel Evol 2013; 45:26. [PMID: 23865507 PMCID: PMC3737043 DOI: 10.1186/1297-9686-45-26] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2012] [Accepted: 06/24/2013] [Indexed: 11/13/2022] Open
Abstract
Background Since feed represents 70% of the total cost in poultry production systems, an animal’s ability to convert feed is an important trait. In this study, residual feed intake (RFI) and residual body weight gain (RG), and their linear combination into residual feed intake and body weight gain (RIG) were studied to estimate their genetic parameters and analyze the potential differences in feed intake between the top ranked birds based on the criteria for each trait. Methods Phenotypic and genetic analyses were completed on 8340 growing tom turkeys that were measured for feed intake and body weight gain over a four-week period from 16 to 20 weeks of age. Results The heritabilities of RG and RIG were 0.19 ± 0.03 and 0.23 ± 0.03, respectively. Residual body weight gain had moderate genetic correlations with feed intake (−0.41) and body weight gain (0.43). All three linear combinations to form the RIG traits had genetic correlations ranging from −0.62 to −0.52 with feed intake, and slightly weaker, 0.22 to 0.34, with body weight gain. Sorted into three equal groups (low, medium, high) based on RG, the most efficient group (high) gained 0.62 and 1.70 kg more (P < 0.001) body weight than that of the medium and low groups, yet the feed intake for the high group was less (P < 0.05) than that of the medium group (19.52 vs. 19.75 kg). When separated into similar partitions, the high RIG group (most efficient) had both the lowest (P < 0.001) feed intake (18.86 vs. 19.57 and 20.41 kg) and the highest (P < 0.001) body weight gain (7.41 vs. 7.03 and 6.43 kg) relative to the medium and low groups, respectively. Conclusions The difference in feed intake between the top ranked birds based on different residual feed efficiency traits may be small when looking at the average individual, however, when extrapolated to the production level, the lower feed intake values could lead to significant savings in feed costs over time.
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Affiliation(s)
- Owen W Willems
- Centre for the Genetic Improvement of Livestock, Department of Animal and Poultry Science, University of Guelph, Guelph, ON, Canada.
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Karcher D, Makagon M, Fraley G, Fraley S, Lilburn M. Influence of raised plastic floors compared with pine shaving litter on environment and Pekin duck condition. Poult Sci 2013; 92:583-90. [DOI: 10.3382/ps.2012-02215] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
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Abstract
Behavioural adaptation of farm animals to environmental changes contributes to high levels of production under a wide range of farming conditions, from highly controlled indoor systems to harsh outdoor systems. The genetic variation in livestock behaviour is considerable. Animals and genotypes with a larger behavioural capacity for adaptation may cope more readily with varying farming conditions than those with a lower capacity for adaptation. This capacity should be exploited when the aim is to use a limited number of species extensively across the world. The genetics of behavioural traits is understood to some extent, but it is seldom accounted for in breeding programmes. This review summarizes the estimates of genetic parameters for behavioural traits in cattle, pigs, poultry and fish. On the basis of the major studies performed in the last two decades, we focus the review on traits of common interest in the four species. These concern the behavioural responses to both acute and chronic stressors in the physical environment (feed, temperature, etc.) and those in the social environment (other group members, progeny, humans). The genetic strategies used to improve the behavioural capacity for adaptation of animals differ between species. There is a greater emphasis on responses to acute environmental stress in fish and birds, and on responses to chronic social stress in mammals.
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Indirect genetic effects for survival in domestic chickens (Gallus gallus) are magnified in crossbred genotypes and show a parent-of-origin effect. Genetics 2012; 192:705-13. [PMID: 22851648 DOI: 10.1534/genetics.112.142554] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
Through social interactions, individuals can affect one another's phenotype. The heritable effect of an individual on the phenotype of a conspecific is known as an indirect genetic effect (IGE). Although IGEs can have a substantial impact on heritable variation and response to selection, little is known about the genetic architecture of traits affected by IGEs. We studied IGEs for survival in domestic chickens (Gallus gallus), using data on two purebred lines and their reciprocal cross. Birds were kept in groups of four. Feather pecking and cannibalism caused mortality, as beaks were kept intact. Survival time was shorter in crossbreds than in purebreds, indicating outbreeding depression and the presence of nonadditive genetic effects. IGEs contributed the majority of heritable variation in crossbreds (87 and 72%) and around half of heritable variation in purebreds (65 and 44%). There was no evidence of dominance variance, neither direct nor indirect. Absence of dominance variance in combination with considerable outbreeding depression suggests that survival is affected by many loci. Direct-indirect genetic correlations were moderately to highly negative in crossbreds (-0.37 ± 0.17 and -0.83 ± 0.10), but low and not significantly different from zero in purebreds (0.20 ± 0.21 and -0.28 ± 0.18). Consequently, unlike purebreds, crossbreds would fail to respond positively to mass selection. The direct genetic correlation between both crosses was high (0.95 ± 0.23), whereas the indirect genetic correlation was moderate (0.41 ± 0.26). Thus, for IGEs, it mattered which parental line provided the sire and which provided the dam. This indirect parent-of-origin effect appeared to be paternally transmitted and is probably Z chromosome linked.
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