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Arango J, Wolc A, Owen J, Weston K, Fulton JE. Genetic Variation in Natural and Induced Antibody Responses in Layer Chickens. Animals (Basel) 2024; 14:1623. [PMID: 38891669 PMCID: PMC11171384 DOI: 10.3390/ani14111623] [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: 05/01/2024] [Revised: 05/18/2024] [Accepted: 05/27/2024] [Indexed: 06/21/2024] Open
Abstract
Selection of livestock for disease resistance is challenging due to the difficulty in obtaining reliable phenotypes. Antibodies are immunological molecules that provide direct and indirect defenses against infection and link the activities of both the innate and adaptive compartments of the immune system. As a result, antibodies have been used as a trait in selection for immune defense. The goal of this study was to identify genomic regions associated with natural and induced antibodies in chickens using low-pass sequencing. Enzyme-linked immunosorbent assays were used to quantify innate (natural) antibodies binding KLH, OVA, and PHA and induced (adaptive) antibodies binding IBD, IBV, NDV, and REO. We collected plasma from four White Leghorn (WL), two White Plymouth Rock (WPR), and two Rhode Island Red (RIR) lines. Samples numbers ranged between 198 and 785 per breed. GWAS was performed within breed on data pre-adjusted for Line-Hatch-Sex effects using GCTA. A threshold of p = 10-6 was used to select genes for downstream annotation and enrichment analysis with SNPEff and Panther. Significant enrichment was found for the defense/immunity protein, immunoglobulin receptor superfamily, and the antimicrobial response protein in RIR; and the immunoglobulin receptor superfamily, defense/immunity protein, and protein modifying enzyme in WL. However, none were present in WPR, but some of the selected SNP were annotated in immune pathways. This study provides new insights regarding the genetics of the antibody response in layer chickens.
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Affiliation(s)
- Jesus Arango
- Hy-Line International, Dallas Center, IA 50063, USA; (J.A.); (J.E.F.)
- Cobb Genetics, Siloam Springs, AR 72761, USA
| | - Anna Wolc
- Hy-Line International, Dallas Center, IA 50063, USA; (J.A.); (J.E.F.)
- Department of Animal Science, Iowa State University, Ames, IA 50011, USA
| | - Jeb Owen
- Department of Entomology, Washington State University, Pullman, WA 99164, USA; (J.O.); (K.W.)
| | - Kendra Weston
- Department of Entomology, Washington State University, Pullman, WA 99164, USA; (J.O.); (K.W.)
| | - Janet E. Fulton
- Hy-Line International, Dallas Center, IA 50063, USA; (J.A.); (J.E.F.)
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Ma X, Ying F, Li Z, Bai L, Wang M, Zhu D, Liu D, Wen J, Zhao G, Liu R. New insights into the genetic loci related to egg weight and age at first egg traits in broiler breeder. Poult Sci 2024; 103:103613. [PMID: 38492250 PMCID: PMC10959720 DOI: 10.1016/j.psj.2024.103613] [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: 12/19/2023] [Revised: 02/29/2024] [Accepted: 02/29/2024] [Indexed: 03/18/2024] Open
Abstract
Egg weight (EW) and age at first egg (AFE) are economically important traits in breeder chicken production. The genetic basis of these traits, however, is far from understood, especially for broiler breeders. In this study, genetic parameter estimation, genome-wide association analysis, meta-analysis, and selective sweep analysis were carried out to identify genetic loci associated with EW and AFE in 6,842 broiler breeders. The study found that the heritability of EW ranged from 0.42 to 0.44, while the heritability of AFE was estimated at 0.33 in the maternal line. Meta-analysis and selective sweep analysis identified two colocalized regions on GGA4 that significantly influenced EW at 32 wk (EW32W) and at 43 wk (EW43W) with both paternal and maternal lines. The genes AR, YIPF6, and STARD8 were located within the significant region (GGA4: 366.86-575.50 kb), potentially affecting EW through the regulation of follicle development, cell proliferation, and lipid transfer etc. The promising genes LCORL and NCAPG were positioned within the significant region (GGA4:75.35-75.42 Mb), potentially influencing EW through pleiotropic effects on growth and development. Additionally, 3 significant regions were associated with AFE on chromosomes GGA7, GGA19, and GGA27. All of these factors affected the AFE by influencing ovarian development. In our study, the genomic information from both paternal and maternal lines was used to identify genetic regions associated with EW and AFE. Two genomic regions and eight genes were identified as the most likely candidates affecting EW and AFE. These findings contribute to a better understanding of the genetic basis of egg production traits in broiler breeders and provide new insights into future technology development.
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Affiliation(s)
- Xiaochun Ma
- State Key Laboratory of Animal Biotech Breeding; State Key Laboratory of Animal Nutrition and Feeding; Key Laboratory of Animal (Poultry) Genetics Breeding and Reproduction, Ministry of Agriculture; Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Fan Ying
- Foshan Gaoming Xinguang Agricultural and Animal Industrials Corporation, Foshan 528515, China
| | - Zhengda Li
- State Key Laboratory of Animal Biotech Breeding; State Key Laboratory of Animal Nutrition and Feeding; Key Laboratory of Animal (Poultry) Genetics Breeding and Reproduction, Ministry of Agriculture; Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Lu Bai
- State Key Laboratory of Animal Biotech Breeding; State Key Laboratory of Animal Nutrition and Feeding; Key Laboratory of Animal (Poultry) Genetics Breeding and Reproduction, Ministry of Agriculture; Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Mengjie Wang
- State Key Laboratory of Animal Biotech Breeding; State Key Laboratory of Animal Nutrition and Feeding; Key Laboratory of Animal (Poultry) Genetics Breeding and Reproduction, Ministry of Agriculture; Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Dan Zhu
- Foshan Gaoming Xinguang Agricultural and Animal Industrials Corporation, Foshan 528515, China
| | - Dawei Liu
- Foshan Gaoming Xinguang Agricultural and Animal Industrials Corporation, Foshan 528515, China
| | - Jie Wen
- State Key Laboratory of Animal Biotech Breeding; State Key Laboratory of Animal Nutrition and Feeding; Key Laboratory of Animal (Poultry) Genetics Breeding and Reproduction, Ministry of Agriculture; Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Guiping Zhao
- State Key Laboratory of Animal Biotech Breeding; State Key Laboratory of Animal Nutrition and Feeding; Key Laboratory of Animal (Poultry) Genetics Breeding and Reproduction, Ministry of Agriculture; Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Ranran Liu
- State Key Laboratory of Animal Biotech Breeding; State Key Laboratory of Animal Nutrition and Feeding; Key Laboratory of Animal (Poultry) Genetics Breeding and Reproduction, Ministry of Agriculture; Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China.
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3
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Wang J, Liu Z, Cao D, Liu J, Li F, Han H, Han H, Lei Q, Liu W, Li D, Wang J, Zhou Y. Elucidation of the genetic determination of clutch traits in Chinese local chickens of the Laiwu Black breed. BMC Genomics 2023; 24:686. [PMID: 37968610 PMCID: PMC10652520 DOI: 10.1186/s12864-023-09798-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2022] [Accepted: 11/08/2023] [Indexed: 11/17/2023] Open
Abstract
BACKGROUND Egg laying rate (LR) is associated with a clutch, which is defined as consecutive days of oviposition. The clutch trait can be used as a selection indicator to improve egg production in poultry breeding. However, little is known about the genetic basis of clutch traits. In this study, our aim was to estimate genetic parameters and identify quantitative trait single nucleotide polymorphisms for clutch traits in 399 purebred Laiwu Black chickens (a native Chinese breed) using a genome-wide association study (GWAS). METHODS In this work, after estimating the genetic parameters of age at first egg, body weight at first egg, LR, longest clutch until 52 week of age, first week when the longest clutch starts, last week when the longest clutch ends, number of clutches, and longest number of days without egg-laying until 52 week of age, we identified single nucleotide polymorphisms (SNPs) and potential candidate genes associated with clutch traits in Laiwu Black chickens. The restricted maximum likelihood method was used to estimate genetic parameters of clutch pattern in 399 Laiwu Black hens, using the GCTA software. RESULTS The results showed that SNP-based heritability estimates of clutch traits ranged from 0.06 to 0.59. Genotyping data were obtained from whole genome re-sequencing data. After quality control, a total of 10,810,544 SNPs remained to be analyzed. The GWAS revealed that 421 significant SNPs responsible for clutch traits were scattered on chicken chromosomes 1-14, 17-19, 21-25, 28 and Z. Among the annotated genes, NELL2, SMYD9, SPTLC2, SMYD3 and PLCL1 were the most promising candidates for clutch traits in Laiwu Black chickens. CONCLUSION The findings of this research provide critical insight into the genetic basis of clutch traits. These results contribute to the identification of candidate genes and variants. Genes and SNPs potentially provide new avenues for further research and would help to establish a framework for new methods of genomic prediction, and increase the accuracy of estimated genetic merit for egg production and clutch traits.
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Affiliation(s)
- Jie Wang
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China
| | - Zhansheng Liu
- Shandong Animal Husbandry General Station, Jinan, 250023, China
| | - Dingguo Cao
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China
| | - Jie Liu
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China
| | - Fuwei Li
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China
| | - Heguo Han
- Lijin County Center for Animal Disease Control, Lijin, 257400, China
| | - Haixia Han
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China
| | - Qiuxia Lei
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China
| | - Wei Liu
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China
| | - Dapeng Li
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China
| | - Jianxia Wang
- Administrative Examination and Approval Service Bureau of Lijin County, Lijin, 257400, China
| | - Yan Zhou
- Poultry Breeding Engineering Technology Center of Shandong Province, Poultry Institute, Shandong Academy of Agricultural Sciences, Jinan, 250023, Shandong, China.
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Bogdanski FA, Silveira RMF, Rovadoscki GA, Franzo V, Gervásio IC, Escobar DYO, Dauria BD, Meira AN, Mourão LMB, Coutinho LL, Pizzolante CC, de Moraes JE, Mourão GB. Genetic parameters for production, quality, and colors from eggs in Brazilian lineages of chickens. Trop Anim Health Prod 2023; 55:148. [PMID: 37020063 DOI: 10.1007/s11250-023-03554-y] [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: 12/23/2022] [Accepted: 03/29/2023] [Indexed: 04/07/2023]
Abstract
Genetic parameters were estimated for egg production, egg quality, and eggshell colors in eight lineages of Brazilian laying hens. Age at first egg (AFE), total egg production up to the 45th week (PROD), egg weight (EW), albumen height (AH), yolk color (YC), the Haugh units (HU), eggshell strength (ESS), eggshell thickness (EST), yolk weight (YW), eggshell weight (ESW), and eggshell color (L*, a*, and b*) were measured in 2030 eggs obtained from 645 laying hens. Variance components were estimated from a mixed animal model, which included the fixed effects of contemporary groups, cage location, and hen line, and the additive genetic, permanent environmental, and residual as random effects. In general, heritabilities were low to moderate (h2 = 0.11 to 0.48). Genetic correlations among eggshell quality traits were moderate to high (0.36 and 0.69). High genetic correlations were obtained between the eggshell color traits [rg = -0.90 (L* and a*); rg = -0.64 (L* and b*); and rg = 0.65 (a* and b*)]. Results suggest that EW is strongly correlated with ESW, but the genetic correlations between EW and ESS and between EW and EST were low. Genetic correlations between L* and eggshell quality traits were low to moderate, suggesting that L* has little or no relation with external egg quality. However, genetic correlations between a* and b* values and eggshell quality traits were high. The genetic correlations between eggshell color and eggshell quality traits were low, suggesting that the eggshell color does not influence external egg quality. Genetic correlations between PROD and egg quality traits were negative and varied between -0.42 and -0.05. This antagonistic relationship emphasizes the importance of adopting breeding schemes that allow the simultaneous genetic progress of these traits by considering their genetic correlation and economic relevance, such as the selection index.
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Affiliation(s)
- Fátima Auler Bogdanski
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil
| | | | - Gregori Alberto Rovadoscki
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Vamilton Franzo
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Izally Carvalho Gervásio
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Daysi Ylder Orzuza Escobar
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Brayan Dias Dauria
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Ariana Nascimento Meira
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil
| | | | - Luiz Lehmann Coutinho
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil
| | | | - José Evandro de Moraes
- Research Center of Diversified Animal Science, Instituto de Zootecnia, Nova Odessa, Brazil
| | - Gerson Barreto Mourão
- Department of Animal Science, "Luiz de Queiroz" College Agriculture, University of São Paulo, Piracicaba, Brazil.
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Miyumo SA, Wasike CB, Ilatsia ED, Bennewitz J, Chagunda MGG. Genetic and phenotypic correlations among feed efficiency, immune and production traits in indigenous chicken of Kenya. Front Genet 2023; 13:1070304. [PMID: 36685862 PMCID: PMC9849598 DOI: 10.3389/fgene.2022.1070304] [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: 10/14/2022] [Accepted: 12/20/2022] [Indexed: 01/07/2023] Open
Abstract
This study aimed at estimating genetic and phenotypic relationships among feed efficiency, immune and production traits measured pre- (9-20 weeks of age) and post- (12 weeks from on-set of lay) maturity. Production traits were average daily gain (ADG) and average daily feed-intake (ADFI1) in the pre-maturity period and age at first egg (AFE), average daily feed-intake (ADFI2) and average daily egg mass (EM) in the post-maturity period. Feed efficiency comprised of residual feed intake (RFI) estimated in both periods. Natural antibodies binding to keyhole limpet hemocyanin (KLH-IgM) and specific antibodies binding to Newcastle disease virus (NDV-IgG) measured at 16 and 28 weeks of age represented immune traits pre- and post-maturity, respectively. In the growing period, 1,820 records on ADG, KLH-IgM and NDV-IgG, and 1,559 records on ADFI1 and RFI were available for analyses. In the laying period, 1,340 records on AFE, EM, KLH-IgM and NDV-IgG, and 1,288 records on ADFI2 and RFI were used in the analyses. Bi-variate animal mixed model was fitted to estimate (co)variance components, heritability and correlations among the traits. The model constituted sex, population, generation, line and genotype as fixed effects, and animal and residual effects as random variables. During the growing period, moderate to high heritability (0.36-0.68) was estimated for the production traits and RFI while the antibody traits had low (0.10-0.22) heritability estimates. Post-maturity, the production traits and RFI were moderately (0.30-0.37) heritable while moderate to high (0.25-0.41) heritability was estimated for the antibody traits. Genetic correlations between feed efficiency and production traits in both periods showed that RFI had negative genetic correlations with ADG (-0.47) and EM (-0.56) but was positively correlated with ADFI1 (0.60), ADFI2 (0.74) and AFE (0.35). Among immune and production traits, KLH-IgM and NDV-IgG had negative genetic correlations with ADG (-0.22; -0.56), AFE (-0.39; -0.42) and EM (-0.35; -0.16) but were positively correlated with ADFI1 (0.41; 0.34) and ADFI2 (0.47; 0.52). Genetic correlations between RFI with KLH-IgM (0.62; 0.33) and NDV-IgG (0.58; 0.50) were positive in both production periods. Feed intake, RFI and antibody traits measured in both production periods were positively correlated with estimates ranging from 0.48 to 0.82. Results from this study indicate selection possibilities to improve production, feed efficiency and immune-competence in indigenous chicken. The genetic correlations suggest that improved feed efficiency would be associated with high growth rates, early maturing chicken, high egg mass and reduced feed intake. In contrast, improved general (KLH-IgM) and specific (NDV-IgG) immunity would result in lower growth rates and egg mass but associated with early sexual maturation and high feed intake. Unfavorable genetic correlations between feed efficiency and immune traits imply that chicken of higher productivity and antibody levels will consume more feed to support both functions. These associations indicate that selective breeding for feed efficiency and immune-competence may have genetic consequences on production traits and should therefore be accounted for in indigenous chicken improvement programs.
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Affiliation(s)
- Sophie A. Miyumo
- Department of Animal Breeding and Husbandry in the Tropics and Sub-Tropics, University of Hohenheim, Stuttgart, Germany,*Correspondence: Sophie A. Miyumo,
| | - Chrilukovian B. Wasike
- Livestock Efficiency Enhancement Group (LEEG), Department of Animal and Fisheries Sciences, Maseno University, Maseno, Kenya
| | - Evans D. Ilatsia
- Kenya Agricultural and Livestock Research Organization, Naivasha, Kenya
| | - Jorn Bennewitz
- Department of Animal Breeding and Genetics, University of Hohenheim, Stuttgart, Germany
| | - Mizeck G. G. Chagunda
- Department of Animal Breeding and Husbandry in the Tropics and Sub-Tropics, University of Hohenheim, Stuttgart, Germany
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Hu G, Do DN, Davoudi P, Manafiazar G, Kelvin AA, Plastow G, Wang Z, Sargolzaei M, Miar Y. Genetic and phenotypic correlations between Aleutian disease tests with body weight, growth, and feed efficiency traits in mink. J Anim Sci 2022; 100:skac346. [PMID: 36250683 PMCID: PMC9733502 DOI: 10.1093/jas/skac346] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Accepted: 10/15/2022] [Indexed: 12/15/2022] Open
Abstract
The ineffectiveness of vaccination, medicine, and culling strategy leads mink farmers to control Aleutian disease (AD) by selecting AD-resilient mink based on AD tests. However, the genetic background of AD tests and their correlations with economically important or AD-resilient traits are limited. This study estimated the genetic and phenotypic correlations between four AD tests and seven body weight (BW) traits, six growth parameters from the Richards growth model, and eight feed-related traits. Univariate models were used to test the significance (P < 0.05) of fixed effects (sex, color type, AD test year, birth year, and row-by-year), random effects (additive genetic, maternal genetic, and permanent environmental), and a covariate of age using ASReml 4.1. Likewise, pairwise bivariate analyses were conducted to estimate the phenotypic and genetic correlations among the studied traits. Both antigen- and virus capsid protein-based enzyme-linked immunosorbent assay tests (ELISA-G and ELISA-P) showed significant (P < 0.05) moderate positive genetic correlations (±SE) with maturation rate (from 0.36 ± 0.18 to 0.38 ± 0.19). ELISA-G showed a significant negative genetic correlation (±SE) with average daily gain (ADG, -0.37 ± 0.16). ELISA-P showed a significant positive moderate genetic correlation (±SE) with off-feed days (DOF, 0.42 ± 0.17). These findings indicated that selection for low ELISA scores would reduce the maturation rate, increase ADG (by ELISA-G), and minimize DOF (by ELISA-P). The iodine agglutination test (IAT) showed significant genetic correlations with DOF (0.73 ± 0.16), BW at 16 weeks of age (BW16, 0.45 ± 0.23), and BW at harvest (HW, -0.47 ± 0.20), indicating that selection for lower IAT scores would lead to lower DOF and BW16, and higher HW. These estimated genetic correlations suggested that the selection of AD tests would not cause adverse effects on the growth, feed efficiency, and feed intake of mink. The estimates from this study might strengthen the previous finding that ELISA-G could be applied as a reliable and practical indicator trait in the genetic selection of AD-resilient mink in AD-positive farms.
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Affiliation(s)
- Guoyu Hu
- Department of Animal Science and Aquaculture, Dalhousie University, Truro, NS, B2N 5E3, Canada
| | - Duy Ngoc Do
- Department of Animal Science and Aquaculture, Dalhousie University, Truro, NS, B2N 5E3, Canada
| | - Pourya Davoudi
- Department of Animal Science and Aquaculture, Dalhousie University, Truro, NS, B2N 5E3, Canada
| | - Ghader Manafiazar
- Department of Animal Science and Aquaculture, Dalhousie University, Truro, NS, B2N 5E3, Canada
| | - Alyson A Kelvin
- Vaccine and Infectious Disease Organization (VIDO), University of Saskatchewan, Saskatoon, SK, S7N 5E3, Canada
| | - Graham Plastow
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB T6G 2P5, Canada
| | - Zhiquan Wang
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB T6G 2P5, Canada
| | - Mehdi Sargolzaei
- Department of Pathobiology, University of Guelph, Guelph, ON, N1G 2W1, Canada
- Select Sires Inc., Plain City, OH 43064, USA
| | - Younes Miar
- Department of Animal Science and Aquaculture, Dalhousie University, Truro, NS, B2N 5E3, Canada
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Sarvari-Kalouti H, Maghsoudi A, Rokouei M, Faraji-Arough H, Bagherzadeh-Kasmani F. Direct and maternal genetic effects for preinflection point growth traits and humoral immunity in quail. Poult Sci 2022; 102:102340. [PMID: 36470033 PMCID: PMC9719865 DOI: 10.1016/j.psj.2022.102340] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Revised: 10/19/2022] [Accepted: 10/19/2022] [Indexed: 11/13/2022] Open
Abstract
Early growth traits in quails are considered as the growth performances before the inflection point which are genetically different from body weights (BW) at later stages. Moreover, in addition to growth performance, humoral immunity is moderately heritable and is considered in some breeding programs. However, estimating the direct genetic, particularly the maternal genetic correlations between growth and immunity in quail, are not studied sufficiently, which were the aims of the present study. The quails' BW were recorded at hatch (BW0) to 25 d of age with a 5-d interval and body weight gains (BWG) were measured as average growth performance of the birds in a 5-d period. Antibody titer against Newcastle disease virus (IgN) was measured through the hemagglutination inhibition (HI) test. For titration of anti-SRBC antibodies (IgY and IgM), a hemagglutination microtiter assay was used. In general, growth records in 4,181 birds and humoral immune responses in 1,023 birds were assigned to the study. The genetic parameters were estimated by single-trait analysis via Gibb's sampling. After finding the best model for each trait, multi-trait analysis was done to estimate the direct and maternal genetic correlations. Direct heritabilities (h2) were estimated to be moderate for BW (0.481-0.551) and BWG (0.524-0.557), while h2 for immune responses were low (0.035-0.079). Maternal environmental effect (c2) was only significant for BW0, BW5, and BWG0-5. Maternal heritabilities (m2) for BW and BWG were all lower than corresponding h2, ranging from 0.072 (BW25) to 0.098 (BW0). The m2 for IgN (0.098) was more than 2.5 times greater than h2 (0.040) for this trait. Direct (ra) and maternal (rm) genetic correlations between IgN-BW, IgY-BW, and IgY-BWG were negative, while ra and rm for IgM-BW, IgN-BWG, and IgM-BWG were positive. The ra between humoral immune responses were low to moderate and rm was significant only for IgY-IgM (0.339). Given positive genetic correlations in BWG-IgN and BWG-IgM as well as positive genetic correlations between both IgN and IgM with IgY, it is suggested that including the BWG in the breeding programs would directly result in the improvement of the birds' growth performance. It would also contribute indirectly to the improvement of the birds' humoral immune responses.
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Affiliation(s)
- Hojjat Sarvari-Kalouti
- Department of Animal Science, Faculty of Agriculture, University of Zabol, P.O. Box 98661-5538, Zabol, Iran
| | - Ali Maghsoudi
- Department of Animal Science, Faculty of Agriculture, University of Zabol, P.O. Box 98661-5538, Zabol, Iran,Department of Animal Science, Faculty of Agriculture, Tarbiat Modares University, P.O. Box 14115–336, Tehran, Iran.,Corresponding author:
| | - Mohammad Rokouei
- Department of Animal Science, Faculty of Agriculture, University of Zabol, P.O. Box 98661-5538, Zabol, Iran
| | - Hadi Faraji-Arough
- Department of Ostrich, Special Domestic Animals Institute, Research Institute of Zabol, P.O. Box 98661-5538, Zabol, Iran
| | - Farzad Bagherzadeh-Kasmani
- Department of Animal Science, Faculty of Agriculture, University of Zabol, P.O. Box 98661-5538, Zabol, Iran
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Botchway P, Amuzu-Aweh E, Naazie A, Aning G, Otsyina H, Saelao P, Wang Y, Zhou H, Walugembe M, Dekkers J, Lamont S, Gallardo R, Kelly T, Bunn D, Kayang B. Host response to successive challenges with lentogenic and velogenic Newcastle disease virus in local chickens of Ghana. Poult Sci 2022; 101:102138. [PMID: 36126448 PMCID: PMC9489513 DOI: 10.1016/j.psj.2022.102138] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Revised: 06/10/2022] [Accepted: 08/02/2022] [Indexed: 11/30/2022] Open
Abstract
Newcastle disease (ND) is a highly contagious viral disease that constantly threatens poultry production. The velogenic (highly virulent) form of ND inflicts the most damage and can lead to 100% mortality in unvaccinated village chicken flocks. This study sought to characterize responses of local chickens in Ghana after challenging them with lentogenic and velogenic Newcastle disease virus (NDV) strains. At 4 wk of age, chicks were challenged with lentogenic NDV. Traits measured were pre- and post-lentogenic infection growth rates (GR), viral load at 2 and 6 d post-lentogenic infection (DPI), viral clearance rate and antibody levels at 10 DPI. Subsequently, the chickens were naturally exposed to velogenic NDV (vNDV) after anti-NDV antibody titers had waned to levels ≤1:1,700. Body weights and blood samples were again collected for analysis. Finally, chickens were euthanized and lesion scores (LS) across tissues were recorded. Post-velogenic exposure GR; antibody levels at 21 and 34 days post-velogenic exposure (DPE); LS for trachea, proventriculus, intestines, and cecal tonsils; and average LS across tissues were measured. Variance components and heritabilities were estimated for all traits using univariate animal models. Mean pre- and post-lentogenic NDV infection GRs were 6.26 g/day and 7.93 g/day, respectively, but mean post-velogenic NDV exposure GR was −1.96 g/day. Mean lesion scores ranged from 0.52 (trachea) to 1.33 (intestine), with males having significantly higher (P < 0.05) lesion scores compared to females. Heritability estimates for the lentogenic NDV trial traits ranged from moderate (0.23) to high (0.55) whereas those for the vNDV natural exposure trial were very low (≤ 0.08). Therefore, in contrast to the vNDV exposure trial, differences in the traits measured in the lentogenic challenge were more affected by genetics and thus selection for these traits may be more feasible compared to those following vNDV exposure. Our results can form the basis for identifying local chickens with improved resilience in the face of NDV infection for selective breeding to improve productivity.
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Genetic Evaluation of Body Weights and Egg Production Traits Using a Multi-Trait Animal Model and Selection Index in Thai Native Synthetic Chickens (Kaimook e-san2). Animals (Basel) 2022; 12:ani12030335. [PMID: 35158657 PMCID: PMC8833322 DOI: 10.3390/ani12030335] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Revised: 01/27/2022] [Accepted: 01/28/2022] [Indexed: 02/04/2023] Open
Abstract
To improve the genetics of both growth and egg production, which are limitations in purebred native chickens, new genetic lines can be developed using an appropriate genetic approach. The data used in this study included 2713 body weight (BW0, BW4, BW6, BW8, and BW10), breast circumference (BrC6), chicken age at first egg (AFE), and egg production (240EP, 270EP, 300EP, and 365EP) records covering the period 2015 to 2020. A multi-trait animal model with the average information-restricted maximum likelihood (AI-REML) and a selection index was used to estimate the variance components, genetic parameters, and breeding values. The results showed that males had significantly higher weights than females (p < 0.05) from 4 to 10 weeks of age and that this difference increased over the generations. The differences between BW0 and BrC6 by sex and generation were not significant (p > 0.05). The estimated heritability of body weight ranged from 0.642 (BW0) to 0.280 (BW10); meanwhile, the estimated heritability of BrC6 was moderate (0.284). For egg production traits, the estimated heritability of 240EP, 270EP, 300EP, and 365EP was 0.427, 0.403, 0.404, and 0.426, respectively, while the estimated heritability of AFE was 0.269. The genetic and phenotypic correlations among the growth traits (BW0 to BW10) were low to highly positive. The genetic and phenotypic correlations between growth (BW0 to BW10) and BrC6 traits were positive, and the genetic correlations between BW6 (0.80), BW8 (0.84), BW10 (0.93), and BrC6 were strongly positive. Genetic correlations among the egg production traits (240EP, 270EP, 300EP, and 365EP) were low to highly positive and ranged from 0.04 to 0.86. The genetic correlations between AFE and all egg production traits were low to moderately negative and ranged from −0.14 to −0.29. The positive genetic correlations between body weight (BW6, BW8, and BW10) and egg production traits were found only in 240EP. The average genetic progress of body weight traits ranged from −0.38 to 30.12 g per generation for BW0 to BW10 (p < 0.05); the genetic progress was 0.28 cm per generation for BrC6 (p > 0.05). The average genetic progress of cumulative egg production traits ranged from 4.25 to 12.42 eggs per generation for 240EP to 365EP (p < 0.05), while the average genetic progress of AFE was −7.12 days per generation (p < 0.05). In conclusion, our study suggests that the body weight at six weeks of age (BW6), breast circumference at six weeks of age (BrC6), cumulative egg production at 240 days of age (240EP), and age at first egg (AFE) are the traits that should be used as selection criteria, as they have a positive effect on the development of growth and egg production.
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10
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Buranawit K, Laenoi W. Genetic parameters for production traits in F1 reciprocal crossbred Chee Fah and Fah Luang chickens. ANIMAL PRODUCTION SCIENCE 2022. [DOI: 10.1071/an20155] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
ContextRecently, Chee Fah and Fah Luang chickens have been registered as a black-bone native chicken in Thailand. Only a few studies revealed genetic information about them. No publication has reported any data related to their cross-mating, particularly, genetic parameters.AimsThis study aimed to estimate genetic parameters for production traits of F1 generation of reciprocal crossbred Chee Fah and Fah Luang chickens.MethodsA dataset of production traits of two crossbred groups was used in the present study. Effects of breed, month-day of incubation and sex were tested at P<0.05. Genetic parameters were estimated using the restricted maximum likelihood method with multi-trait animal model.Key resultsThe crossbred Chee Fah×Fah Luang was significantly heavier and consumed more feed than Fah Luang×Chee Fah (P<0.05). Male chickens had significantly better 20-week-old bodyweight, feed conversion ratio and average daily gain compared with females for both crossbred groups (P<0.05). The effect of month-day of incubation had a significant influence on production traits (P<0.05), except for day-old bodyweight. Heritabilities for production traits of crossbred chickens were low to high. The highest estimate was observed for day-old bodyweight (0.97), followed by feed intake (0.40), 20-week-old bodyweight (0.06), average daily gain (0.05) and feed conversion ratio (0.03), respectively. Both positive and negative genetic correlations were found among their production traits. Favourable relationships were found between average daily gain versus bodyweight and versus feed conversion ratio (rgg=0.99 and −0.90, respectively). Similarly, production traits showed phenotypic correlations in both directions, which ranged from −0.95 to 0.99.ConclusionsHeritability estimations for production traits were found in low to high magnitude. The desirable genetic relationships were found between feed conversion ratio and day-old bodyweight, 20-week-old bodyweight and average daily gain, and between 20-week-old bodyweight and average daily gain.ImplicationsThese findings could be considered as a source of genetic data for enhancing production traits of crossbred black-bone native chickens.
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11
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Habimana R, Ngeno K, Okeno TO, Hirwa CDA, Keambou Tiambo C, Yao NK. Genome-Wide Association Study of Growth Performance and Immune Response to Newcastle Disease Virus of Indigenous Chicken in Rwanda. Front Genet 2021; 12:723980. [PMID: 34745207 PMCID: PMC8570395 DOI: 10.3389/fgene.2021.723980] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2021] [Accepted: 07/15/2021] [Indexed: 11/13/2022] Open
Abstract
A chicken genome has several regions with quantitative trait loci (QTLs). However, replication and confirmation of QTL effects are required particularly in African chicken populations. This study identified single nucleotide polymorphisms (SNPs) and putative genes responsible for body weight (BW) and antibody response (AbR) to Newcastle disease (ND) in Rwanda indigenous chicken (IC) using genome-wide association studies (GWAS). Multiple testing was corrected using chromosomal false detection rates of 5 and 10% for significant and suggestive thresholds, respectively. BioMart data mining and variant effect predictor tools were used to annotate SNPs and candidate genes, respectively. A total of four significant SNPs (rs74098018, rs13792572, rs314702374, and rs14123335) significantly (p ≤ 7.6E-5) associated with BW were identified on chromosomes (CHRs) 8, 11, and 19. In the vicinity of these SNPs, four genes such as pre-B-cell leukaemia homeobox 1 (PBX1), GPATCH1, MPHOSPH6, and MRM1 were identified. Four other significant SNPs (rs314787954, rs13623466, rs13910430, and rs737507850) all located on chromosome 1 were strongly (p ≤ 7.6E-5) associated with chicken antibody response to ND. The closest genes to these four SNPs were cell division cycle 16 (CDC16), zinc finger, BED-type containing 1 (ZBED1), myxovirus (influenza virus) resistance 1 (MX1), and growth factor receptor bound protein 2 (GRB2) related adaptor protein 2 (GRAP2). Besides, other SNPs and genes suggestively (p ≤ 1.5E-5) associated with BW and antibody response to ND were reported. This work offers a useful entry point for the discovery of causative genes accountable for essential QTLs regulating BW and antibody response to ND traits. Results provide auspicious genes and SNP-based markers that can be used in the improvement of growth performance and ND resistance in IC populations based on gene-based and/or marker-assisted breeding selection.
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Affiliation(s)
- Richard Habimana
- College of Agriculture, Animal Science and Veterinary Medicine, University of Rwanda, Kigali, Rwanda.,Animal Breeding and Genomics Group, Department of Animal Science, Egerton University, Egerton, Kenya
| | - Kiplangat Ngeno
- Animal Breeding and Genomics Group, Department of Animal Science, Egerton University, Egerton, Kenya
| | - Tobias Otieno Okeno
- Animal Breeding and Genomics Group, Department of Animal Science, Egerton University, Egerton, Kenya
| | | | - Christian Keambou Tiambo
- Centre for Tropical Livestock Genetics and Health, International Livestock Research Institute, Nairobi, Kenya
| | - Nasser Kouadio Yao
- Biosciences Eastern and Central Africa - International Livestock Research Institute (BecA-ILRI) Hub, Nairobi, Kenya
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12
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Hako Touko BA, Kong Mbiydzenyuy AT, Tumasang TT, Awah-Ndukum J. Heritability Estimate for Antibody Response to Vaccination and Survival to a Newcastle Disease Infection of Native chicken in a Low-Input Production System. Front Genet 2021; 12:666947. [PMID: 34659331 PMCID: PMC8514834 DOI: 10.3389/fgene.2021.666947] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Accepted: 08/20/2021] [Indexed: 11/30/2022] Open
Abstract
The Newcastle disease virus (NDV) is the deadliest chicken pathogen in low-input village poultry, and selecting for NDV resistance has been recommended as a sustainable strategy in backyard poultry production systems. However, selecting for disease resistance needs precision data from either a big population sample size or on many generations with good pedigree records for effective prediction of heritability (h2) and breeding values of the foundation stock. Such conditions are almost impossible to meet in low-input backyard production systems. This study aimed at proposing a realistic method for estimating the heritability of the immune response to vaccination and survival of NDV infection in village poultry production to inform a breeding strategy for ND resistance in Cameroon. A 1 and 3% selection intensity of cocks and hens for higher antibody (ab) response (ABR) to vaccination followed by progeny selection of chickens who survived an experimental NDV infection was conducted from an initial population of 1,702 chickens. The selection induced an increase of 1012.47units/ml (p<0.01) of the NDV antibody of the progeny as well as an effective survival rate (ESR) increase of 11.75%. Three methods were used to estimate the heritability (h2) of NDV antibody response to vaccination. h2 was low irrespective of the method with estimates of 0.2227, 0.2442, and 0.2839 for the breeder’s equation method, the graphical method, and the full-sib/half-sib nested design, respectively. The mortality rate of infected chickens was high (86%). The antibody response to selection was not influenced by sex and genetic type even though the opposite was observed (p<0.05) for the ESR to NDV infection with naked neck chickens recording an ESR of 14% against 2.25% for the normal feather type. A very low heritability (0.0891) was observed for the survival against NDV infection. We confirm the evidence of disease resistance and the effect of selection for antibody response to vaccination on the improvement of the survival against NDV disease. Although the full sib/half sib nested design is more appropriate in case of availability of pedigree information, the direct methods are still useful in case of unavailability of full pedigree information. It is recommended that gene expression analysis should be prioritized for disease-resistance assessment and selection of native breeds of poultry.
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Affiliation(s)
- Blaise Arnaud Hako Touko
- Biotechnology and Bioinformatics Research Unit, Department of Animal Production, Faculty of Agronomy and Agricultural Sciences, University of Dschang, Dschang, Cameroon
| | - Anold Tatah Kong Mbiydzenyuy
- Biotechnology and Bioinformatics Research Unit, Department of Animal Production, Faculty of Agronomy and Agricultural Sciences, University of Dschang, Dschang, Cameroon.,Animal Research Lab, Department of Animal Sciences, School of Agriculture and Natural Resources, Catholic University Institute of Buea, Buea, Cameroon
| | - Tebug Thomas Tumasang
- Laboratory of Animal Physiology and Health, Department of Animal Sciences, University of Dschang, Dschang, Cameroon
| | - Julius Awah-Ndukum
- Laboratory of Animal Physiology and Health, Department of Animal Sciences, University of Dschang, Dschang, Cameroon
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13
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Tarsani E, Kranis A, Maniatis G, Hager-Theodorides AL, Kominakis A. Detection of loci exhibiting pleiotropic effects on body weight and egg number in female broilers. Sci Rep 2021; 11:7441. [PMID: 33811218 PMCID: PMC8018976 DOI: 10.1038/s41598-021-86817-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2020] [Accepted: 03/16/2021] [Indexed: 12/14/2022] Open
Abstract
The objective of the present study was to discover the genetic variants, functional candidate genes, biological processes and molecular functions underlying the negative genetic correlation observed between body weight (BW) and egg number (EN) traits in female broilers. To this end, first a bivariate genome-wide association and second stepwise conditional-joint analyses were performed using 2586 female broilers and 240 k autosomal SNPs. The aforementioned analyses resulted in a total number of 49 independent cross-phenotype (CP) significant SNPs with 35 independent markers showing antagonistic action i.e., positive effects on one trait and negative effects on the other trait. A number of 33 independent CP SNPs were located within 26 and 14 protein coding and long non-coding RNA genes, respectively. Furthermore, 26 independent markers were situated within 44 reported QTLs, most of them related to growth traits. Investigation of the functional role of protein coding genes via pathway and gene ontology analyses highlighted four candidates (CPEB3, ACVR1, MAST2 and CACNA1H) as most plausible pleiotropic genes for the traits under study. Three candidates (CPEB3, MAST2 and CACNA1H) were associated with antagonistic pleiotropy, while ACVR1 with synergistic pleiotropic action. Current results provide a novel insight into the biological mechanism of the genetic trade-off between growth and reproduction, in broilers.
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Affiliation(s)
- Eirini Tarsani
- Department of Animal Science and Aquaculture, Agricultural University of Athens, Iera Odos 75, 11855, Athens, Greece.
| | - Andreas Kranis
- Aviagen, Newbridge, EH28 8SZ, Midlothian, UK
- The Roslin Institute, University of Edinburgh, Midlothian, EH25 9RG, UK
| | | | - Ariadne L Hager-Theodorides
- Department of Animal Science and Aquaculture, Agricultural University of Athens, Iera Odos 75, 11855, Athens, Greece
| | - Antonios Kominakis
- Department of Animal Science and Aquaculture, Agricultural University of Athens, Iera Odos 75, 11855, Athens, Greece
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14
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Ndung'u CW, Okeno TO, Muasya TK. Pooled parameter estimates for traits of economic importance in indigenous chicken in the tropics. Livest Sci 2020. [DOI: 10.1016/j.livsci.2020.104102] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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15
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Walugembe M, Amuzu-Aweh EN, Botchway PK, Naazie A, Aning G, Wang Y, Saelao P, Kelly T, Gallardo RA, Zhou H, Lamont SJ, Kayang BB, Dekkers JCM. Genetic Basis of Response of Ghanaian Local Chickens to Infection With a Lentogenic Newcastle Disease Virus. Front Genet 2020; 11:739. [PMID: 32849779 PMCID: PMC7402339 DOI: 10.3389/fgene.2020.00739] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2020] [Accepted: 06/19/2020] [Indexed: 11/13/2022] Open
Abstract
Newcastle disease (ND) is a global threat to domestic poultry, especially in rural areas of Africa and Asia, where the loss of entire backyard local chicken flocks often threatens household food security and income. To investigate the genetics of Ghanaian local chicken ecotypes to Newcastle disease virus (NDV), in this study, three popular Ghanaian chicken ecotypes (regional populations) were challenged with a lentogenic NDV strain at 28 days of age. This study was conducted in parallel with a similar study that used three popular Tanzanian local chicken ecotypes and after two companion studies in the United States, using Hy-line Brown commercial laying birds. In addition to growth rate, NDV response traits were measured following infection, including anti-NDV antibody levels [pre-infection and 10 days post-infection (dpi)], and viral load (2 and 6 dpi). Genetic parameters were estimated, and two genome-wide association study analysis methods were used on data from 1,440 Ghanaian chickens that were genotyped on a chicken 600K Single Nucleotide Polymorphism (SNP) chip. Both Ghana and Tanzania NDV challenge studies revealed moderate to high (0.18 – 0.55) estimates of heritability for all traits, except viral clearance where the heritability estimate was not different from zero for the Tanzanian ecotypes. For the Ghana study, 12 quantitative trait loci (QTL) for growth and/or response to NDV from single-SNP analyses and 20 genomic regions that explained more than 1% of genetic variance using the Bayes B method were identified. Seven of these windows were also identified as having at least one significant SNP in the single SNP analyses for growth rate, anti-NDV antibody levels, and viral load at 2 and 6 dpi. An important gene for growth during stress, CHORDC1 associated with post-infection growth rate was identified as a positional candidate gene, as well as other immune related genes, including VAV2, IL12B, DUSP1, and IL17B. The QTL identified in the Ghana study did not overlap with those identified in the Tanzania study. However, both studies revealed QTL with genes vital for growth and immune response during NDV challenge. The Tanzania parallel study revealed an overlapping QTL on chromosome 24 for viral load at 6 dpi with the US NDV study in which birds were challenged with NDV under heat stress. This QTL region includes genes related to immune response, including TIRAP, ETS1, and KIRREL3. The moderate to high estimates of heritability and the identified QTL suggest that host response to NDV of local African chicken ecotypes can be improved through selective breeding to enhance increased NDV resistance and vaccine efficacy.
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Affiliation(s)
- Muhammed Walugembe
- Department of Animal Science, Iowa State University, Ames, IA, United States.,Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States
| | - Esinam N Amuzu-Aweh
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of Ghana, Accra, Ghana
| | - Princess K Botchway
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of Ghana, Accra, Ghana
| | - Augustine Naazie
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of Ghana, Accra, Ghana
| | - George Aning
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of Ghana, Accra, Ghana
| | - Ying Wang
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of California, Davis, Davis, CA, United States
| | - Perot Saelao
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of California, Davis, Davis, CA, United States
| | - Terra Kelly
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of California, Davis, Davis, CA, United States.,School of Veterinary Medicine, University of California, Davis, Davis, CA, United States
| | - Rodrigo A Gallardo
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,School of Veterinary Medicine, University of California, Davis, Davis, CA, United States
| | - Huaijun Zhou
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of California, Davis, Davis, CA, United States
| | - Susan J Lamont
- Department of Animal Science, Iowa State University, Ames, IA, United States.,Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States
| | - Boniface B Kayang
- Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of Ghana, Accra, Ghana
| | - Jack C M Dekkers
- Department of Animal Science, Iowa State University, Ames, IA, United States.,Feed the Future Innovation Lab for Genomics to Improve Poultry, Department of Animal Science, University of California, Davis, Davis, CA, United States
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16
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Tongsiri S, Van der Werf JHJ, Li L, Jeyaruban MG, Wolcott ML, Hermesch S, Chormai T. Using random regression models to estimate genetic variation in growth pattern and its association with sexual maturity of Thai native chickens. Br Poult Sci 2020; 61:615-623. [PMID: 32703033 DOI: 10.1080/00071668.2020.1797995] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
1. Genetic (co)variances and parameters between body weights (BW) across the growth trajectory were estimated using a univariate random regression (RR) animal model. The effect of growth rates (GH) on age at first egg (AFE) and egg weight at first egg (EWFE) were explored using a series of univariate and bivariate analyses. 2. Body weights were taken from Thai native chickens at hatch day to 168 days of age. The model included interactions between age with hatch nested within year and sex as fixed effects, and random effects of direct additive genetic, direct permanent environmental, maternal genetic and maternal permanent environmental effects. All random effects were fitted as regressions to animals' age via quadratic Legendre polynomials and fitting six classes of residual variances was identified as an optimal variance structure to estimate parameters. 3. Genetic and phenotypic variances for BW increased with increasing age. Estimated heritabilities for direct additive (h2 a) and maternal genetic (h2 m) effects on BW traits ranged from 0.34 to 0.54, and 0.04 to 0.06, respectively. Estimated variance ratios for direct (c2 ape) and maternal permanent environmental (c2 mpe) effects ranged from 0.19 to 0.48 and 0.10 to 0.12, respectively. Estimated correlations between weights at different ages were high for all random effects. 4. Estimated h2 a for six GH traits ranged from 0.06 to 0.28, while for AFE and EWFE these were 0.24 and 0.16, respectively. Estimated h2 m and c2 mpe were low for GH. Estimated genetic correlations between GH and AFE ranged from -0.22 to 0.02 and, between GH and EWFE, ranged from -0.05 to 0.40. These estimates suggested that selecting high GH chickens at 28 days of age can be expected to reduce AFE and to increase EWFE.
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Affiliation(s)
- S Tongsiri
- Animal Genetics and Breeding Unit Is a Joint Venture of NSW Department of Primary Industries, University of New England , Armidale, Australia.,Department of Livestock Development, Prachin Buri, Thailand
| | - J H J Van der Werf
- School of Environmental and Rural Science, University of New England , Armidale, Australia
| | - L Li
- Animal Genetics and Breeding Unit Is a Joint Venture of NSW Department of Primary Industries, University of New England , Armidale, Australia
| | - M G Jeyaruban
- Animal Genetics and Breeding Unit Is a Joint Venture of NSW Department of Primary Industries, University of New England , Armidale, Australia
| | - M L Wolcott
- Animal Genetics and Breeding Unit Is a Joint Venture of NSW Department of Primary Industries, University of New England , Armidale, Australia
| | - S Hermesch
- Animal Genetics and Breeding Unit Is a Joint Venture of NSW Department of Primary Industries, University of New England , Armidale, Australia
| | - T Chormai
- Department of Livestock Development, Prachin Buri, Thailand
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17
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E GX, Duan XH, Yang BG, Na RS, Han YG, Zeng Y. Genetic Diversity Pattern of the MHC-LEI0258 Locus across Asian Populations of Chickens. RUSS J GENET+ 2020. [DOI: 10.1134/s1022795420060058] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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18
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Iglesias GM, Canet ZE, Cantaro H, Miquel MC, Melo JE, Miller MM, Berres ME, Fulton JE. Mhc-B haplotypes in "Campero-Inta" chicken synthetic line. Poult Sci 2020; 98:5281-5286. [PMID: 31376352 DOI: 10.3382/ps/pez431] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2019] [Accepted: 07/12/2019] [Indexed: 12/22/2022] Open
Abstract
The major histocompatibility complex-B (MHC-B) in chickens is a cluster of genes located on chromosome 16. The chicken MHC-B is known to be highly associated with resistance to numerous diseases caused by viruses, bacteria, and parasitic pathogens. Since the level of resistance varies with MHC-B haplotypes, identification and classification of different haplotypes within lines is important for sustaining lines. The "Campero-INTA" chicken breed is a meat-type free-range poultry breed that was developed specifically for small producers in Argentina. Campero-INTA was started by selection in populations produced by crosses between a variety of established lines. MHC-B variation was examined in 65 samples obtained in 2002 using the VNTR marker LEI0258, a marker for MHC-B region. These samples plus and an additional 55 samples from 2018 were examined for variation using the MHC-B specific SNP panel that encompasses ∼230,000 bp of the MHC-B region. Eleven MHC-B SNP haplotypes with 6 LEI0258 alleles were identified in the 120 samples representing the Campero-INTA AH (male) line. Seven haplotypes originate from the breeds originally used in the development of Campero-INTA AH line. Two appear to be recombinant haplotypes. The origin of the remaining 2 is not known, but may be associated with genes introduced from crosses with the Fayoumi breed conducted more recently to sustain the line.
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Affiliation(s)
- Gabriela M Iglesias
- Universidad Nacional de Río Negro, Sede Alto Valle y Valle Medio, Escuela de Veterinaria y Producción Agroindustrial, Area de Genética, Choele Choel, Rio Negro 8360, Argentina
| | - Zulma E Canet
- Cátedra de Genética, Facultad de Ciencias Veterinarias, Universidad Nacional de Rosario, Boulevard Ovidio Lagos y Ruta 33, Casilda, Santa Fe 2170, Argentina.,INTA Pergamino, Estación Experimental Agropecuaria "Ing. Agr. Walter Kugler", Pergamino, Buenos Aires 2700, Argentina
| | - Horacio Cantaro
- Universidad Nacional de Río Negro, Sede Alto Valle y Valle Medio, Escuela de Veterinaria y Producción Agroindustrial, Area de Producción Aves y Pilíferos, Choele Choel, Rio Negro 8360, Argentina.,INTA, Proyecto Nacional de Avicultura (PAVI), Estación Experimental Agropecuaria Alto Valle, Programa Nacional de Producción Animal, Ruta Nacional 22, Argentina
| | - María C Miquel
- Cátedra de Genética, Facultad de Ciencias Veterinarias, Universidad de Buenos Aires, Buenos Aires 8332, Argentina
| | - Julián E Melo
- Facultad de Ciencias Agrícolas, Universidad Católica Pontificia Argentina (UCA), Buenos Aires, C.A.B.A 1107, Argentina.,Departamento de Tecnología, Universidad Nacional de Luján (UNLu), B6702 Luján, Buenos Aires, Argentina
| | - Marcia M Miller
- Department of Molecular and Cellular Biology, Beckman Research Institute of the City of Hope, Duarte, CA 91010-3000
| | - Mark E Berres
- Biotechnology Center, University of Wisconsin, Madison, WI 53706
| | - Janet E Fulton
- Biotechnology Center, University of Wisconsin, Madison, WI 53706.,Hy-Line International, Dallas Center, IA 50063
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19
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Otecko NO, Ogali I, Ng'ang'a SI, Mauki DH, Ogada S, Moraa GK, Lichoti J, Agwanda B, Peng MS, Ommeh SC, Zhang YP. Phenotypic and morphometric differentiation of indigenous chickens from Kenya and other tropical countries augments perspectives for genetic resource improvement and conservation. Poult Sci 2019; 98:2747-2755. [PMID: 30850827 PMCID: PMC6591685 DOI: 10.3382/ps/pez097] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Accepted: 02/25/2019] [Indexed: 12/20/2022] Open
Abstract
Indigenous chickens at the Swahili coast and other traditional migratory corridors in Kenya represent important populations that are inconclusively characterized. Using a comprehensive dataset of Kenyan indigenous chickens and additional mined data of chickens from 8 African and 5 Asian countries, we performed univariate and multivariate assessments to uncover the underlying phenotypic and morphometric variability. Kenyan indigenous chickens expressed differentiation of several qualitative and quantitative traits, both among different counties in the Swahili coast, and among coastal, western, and northern migratory corridors. There was a substantial population stratification of these chickens, particularly distinctive clustering of chickens from Marsabit, Lamu, and Kilifi counties. The pooled dataset further clarified a closer phenotypic and morphometric proximity of chickens within different geographical regions. We additionally revealed a preponderance of bantam and rumpless traits to hot and humid locales, and feathered shanks to cooler regions. Currently, most chicken breeding programs in developing countries rely on phenotypic and morphometric properties. Hence, the high chicken diversity and population stratification observed in our study, possibly shaped by natural and artificial selective pressures, reveal opportunities for complementary phenotypic and genotypic assessments to identify resources for effective breed improvement and conservation strategies of indigenous chickens in the tropics.
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Affiliation(s)
- Newton O Otecko
- Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.,Sino-Africa Joint Research Center, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya
| | - Irene Ogali
- Institute for Biotechnology Research, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya.,Veterinary Research Institute, Kenya Agriculture and Livestock Research Organization, Nairobi 00200, Kenya
| | - Said I Ng'ang'a
- Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.,Sino-Africa Joint Research Center, Chinese Academy of Sciences, Kunming, 650223, China
| | - David H Mauki
- Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.,Sino-Africa Joint Research Center, Chinese Academy of Sciences, Kunming, 650223, China
| | - Stephen Ogada
- Institute for Biotechnology Research, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya.,Sino-Africa Joint Research Center, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya
| | - Grace K Moraa
- Institute for Biotechnology Research, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya.,Sino-Africa Joint Research Center, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya
| | - Jacqueline Lichoti
- Directorate of Veterinary Services, State Department of Livestock, Ministry of Agriculture, Livestock and Fisheries, Nairobi 00625, Kenya
| | - Bernard Agwanda
- Department of Zoology, National Museums of Kenya, Nairobi 00100, Kenya
| | - Min-Shen Peng
- Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.,Sino-Africa Joint Research Center, Chinese Academy of Sciences, Kunming, 650223, China
| | - Sheila C Ommeh
- Institute for Biotechnology Research, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya.,Sino-Africa Joint Research Center, Jomo Kenyatta University of Agriculture and Technology, Nairobi 00200, Kenya
| | - Ya-Ping Zhang
- Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.,Sino-Africa Joint Research Center, Chinese Academy of Sciences, Kunming, 650223, China.,State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan University, Kunming 650091, China
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20
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Walugembe M, Mushi JR, Amuzu-Aweh EN, Chiwanga GH, Msoffe PL, Wang Y, Saelao P, Kelly T, Gallardo RA, Zhou H, Lamont SJ, Muhairwa AP, Dekkers JCM. Genetic Analyses of Tanzanian Local Chicken Ecotypes Challenged with Newcastle Disease Virus. Genes (Basel) 2019; 10:genes10070546. [PMID: 31319636 PMCID: PMC6678660 DOI: 10.3390/genes10070546] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2019] [Revised: 06/27/2019] [Accepted: 07/15/2019] [Indexed: 01/03/2023] Open
Abstract
Newcastle Disease (ND) is a continuing global threat to domestic poultry, especially in developing countries, where severe outbreaks of velogenic ND virus (NDV) often cause major economic losses to households. Local chickens are of great importance to rural family livelihoods through provision of high-quality protein. To investigate the genetic basis of host response to NDV, three popular Tanzanian chicken ecotypes (regional populations) were challenged with a lentogenic (vaccine) strain of NDV at 28 days of age. Various host response phenotypes, including anti-NDV antibody levels (pre-infection and 10 days post-infection, dpi), and viral load (2 and 6 dpi) were measured, in addition to growth rate. We estimated genetic parameters and conducted genome-wide association study analyses by genotyping 1399 chickens using the Affymetrix 600K chicken SNP chip. Estimates of heritability of the evaluated traits were moderate (0.18–0.35). Five quantitative trait loci (QTL) associated with growth and/or response to NDV were identified by single-SNP analyses, with some regions explaining ≥1% of genetic variance based on the Bayes-B method. Immune related genes, such as ETS1, TIRAP, and KIRREL3, were located in regions associated with viral load at 6 dpi. The moderate estimates of heritability and identified QTL indicate that NDV response traits may be improved through selective breeding of chickens to enhance increased NDV resistance and vaccine efficacy in Tanzanian local ecotypes.
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Affiliation(s)
- Muhammed Walugembe
- Department of Animal Science, Iowa State University, 2255 Kildee Hall, Ames, IA 50011, USA
| | - James R Mushi
- Department of Veterinary Medicine and Public Health, Sokoine University, P.O. Box 3000 Chuo Kikuu, Morogoro, Tanzania
| | - Esinam N Amuzu-Aweh
- Department of Animal Science, University of Ghana, P.O. Box LG 25 Legon, Accra, Ghana
| | - Gaspar H Chiwanga
- Department of Veterinary Medicine and Public Health, Sokoine University, P.O. Box 3000 Chuo Kikuu, Morogoro, Tanzania
| | - Peter L Msoffe
- Department of Veterinary Medicine and Public Health, Sokoine University, P.O. Box 3000 Chuo Kikuu, Morogoro, Tanzania
| | - Ying Wang
- Department of Animal Science, University of California, Davis, CA 95616, USA
| | - Perot Saelao
- Department of Animal Science, University of California, Davis, CA 95616, USA
| | - Terra Kelly
- Department of Animal Science, University of California, Davis, CA 95616, USA
- School of Veterinary Medicine, University of California, Davis, CA 95616, USA
| | - Rodrigo A Gallardo
- School of Veterinary Medicine, University of California, Davis, CA 95616, USA
| | - Huaijun Zhou
- Department of Animal Science, University of California, Davis, CA 95616, USA
| | - Susan J Lamont
- Department of Animal Science, Iowa State University, 2255 Kildee Hall, Ames, IA 50011, USA
| | - Amandus P Muhairwa
- Department of Veterinary Medicine and Public Health, Sokoine University, P.O. Box 3000 Chuo Kikuu, Morogoro, Tanzania.
| | - Jack C M Dekkers
- Department of Animal Science, Iowa State University, 2255 Kildee Hall, Ames, IA 50011, USA.
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21
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Schilling MA, Memari S, Cattadori IM, Katani R, Muhairwa AP, Buza JJ, Kapur V. Innate Immune Genes Associated With Newcastle Disease Virus Load in Chick Embryos From Inbred and Outbred Lines. Front Microbiol 2019; 10:1432. [PMID: 31281305 PMCID: PMC6596324 DOI: 10.3389/fmicb.2019.01432] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2019] [Accepted: 06/06/2019] [Indexed: 12/21/2022] Open
Abstract
Newcastle disease virus (NDV) causes substantial economic losses to smallholder farmers in low- and middle-income countries with high levels of morbidity and mortality in poultry flocks. Previous investigations have suggested differing levels of susceptibility to NDV between specific inbred lines and amongst breeds of chickens, however, the mechanisms contributing to this remain poorly understood. Studies have shown that some of these differences in levels of susceptibility to NDV infection may be accounted for by variability in the innate immune response amongst various breeds of poultry to NDV infection. Recent studies, in inbred Fayoumi and Leghorn lines, uncovered conserved, breed-dependent, and subline-dependent responses. To better understand the role of innate immune genes in engendering a protective immune response, we assessed the transcriptional responses to NDV of three highly outbred Tanzanian local chicken ecotypes, the Kuchi, the Morogoro Medium, and the Ching’wekwe. Hierarchical clustering and principal coordinate analysis of the gene expression profiles of 21-day old chick embryos infected with NDV clustered in an ecotype-dependent manner and was consistent with the relative viral loads for each of the three ecotypes. The Kuchi and Morogoro Medium exhibit significantly higher viral loads than the Ching’wekwe. The results show that the outbred ecotypes with increased levels of expression of CCL4, NOS2, and SOCS1 also had higher viral loads. The higher expression of SOCS1 is inconsistent with the expression in inbred lines. These differences may uncover new mechanisms or pathways in these populations that may have otherwise been overlooked when examining the response in highly inbred lines. Taken together, our findings provide insights on the specific conserved and differentially expressed innate immune-related genes involved the response of highly outbred chicken lines to NDV. This also suggests that several of the specific innate immunity related genes identified in the current investigation may serve as markers for the selection of chickens with reduced susceptibility to NDV.
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Affiliation(s)
- Megan A Schilling
- Animal Science Department, Pennsylvania State University, University Park, PA, United States.,Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, PA, United States.,School of Life Sciences and Bioengineering, The Nelson Mandela African Institution of Science and Technology, Arusha, TZ, United States
| | - Sahar Memari
- Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, PA, United States
| | - Isabella M Cattadori
- Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, PA, United States.,Applied Biological and Biosecurity Research Laboratory, Pennsylvania State University, University Park, PA, United States.,Department of Biology, Pennsylvania State University, University Park, PA, United States
| | - Robab Katani
- Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, PA, United States.,Applied Biological and Biosecurity Research Laboratory, Pennsylvania State University, University Park, PA, United States
| | - Amandus P Muhairwa
- Department of Veterinary Medicine and Public Health, Sokoine University of Agriculture, Morogoro, TZ, United States
| | - Joram J Buza
- School of Life Sciences and Bioengineering, The Nelson Mandela African Institution of Science and Technology, Arusha, TZ, United States
| | - Vivek Kapur
- Animal Science Department, Pennsylvania State University, University Park, PA, United States.,Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, PA, United States.,School of Life Sciences and Bioengineering, The Nelson Mandela African Institution of Science and Technology, Arusha, TZ, United States.,Applied Biological and Biosecurity Research Laboratory, Pennsylvania State University, University Park, PA, United States
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22
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Saelao P, Wang Y, Chanthavixay G, Gallardo RA, Wolc A, Dekkers JCM, Lamont SJ, Kelly T, Zhou H. Genetics and Genomic Regions Affecting Response to Newcastle Disease Virus Infection under Heat Stress in Layer Chickens. Genes (Basel) 2019; 10:genes10010061. [PMID: 30669351 PMCID: PMC6356198 DOI: 10.3390/genes10010061] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2018] [Revised: 01/08/2019] [Accepted: 01/14/2019] [Indexed: 12/26/2022] Open
Abstract
Newcastle disease virus (NDV) is a highly contagious avian pathogen that poses a tremendous threat to poultry producers in endemic zones due to its epidemic potential. To investigate host genetic resistance to NDV while under the effects of heat stress, a genome-wide association study (GWAS) was performed on Hy-Line Brown layer chickens that were challenged with NDV while under high ambient temperature to identify regions associated with host viral titer, circulating anti-NDV antibody titer, and body weight change. A single nucleotide polymorphism (SNP) on chromosome 1 was associated with viral titer at two days post-infection (dpi), while 30 SNPs spanning a quantitative trait loci (QTL) on chromosome 24 were associated with viral titer at 6 dpi. Immune related genes, such as CAMK1d and CCDC3 on chromosome 1, associated with viral titer at 2 dpi, and TIRAP, ETS1, and KIRREL3, associated with viral titer at 6 dpi, were located in two QTL regions for viral titer that were identified in this study. This study identified genomic regions and candidate genes that are associated with response to NDV during heat stress in Hy-Line Brown layer chickens. Regions identified for viral titer on chromosome 1 and 24, at 2 and 6 dpi, respectively, included several genes that have key roles in regulating the immune response.
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Affiliation(s)
- Perot Saelao
- Integrative Genetics and Genomics Graduate Group, University of California, Davis, CA 95616, USA.
- Genomics to Improve Poultry Innovation Lab, University of California, Davis, CA 95616, USA.
- Department of Animal Science, University of California, Davis, CA 95616, USA.
| | - Ying Wang
- Genomics to Improve Poultry Innovation Lab, University of California, Davis, CA 95616, USA.
- Department of Animal Science, University of California, Davis, CA 95616, USA.
| | - Ganrea Chanthavixay
- Integrative Genetics and Genomics Graduate Group, University of California, Davis, CA 95616, USA.
- Genomics to Improve Poultry Innovation Lab, University of California, Davis, CA 95616, USA.
- Department of Animal Science, University of California, Davis, CA 95616, USA.
| | - Rodrigo A Gallardo
- School of Veterinary Medicine, University of California, Davis, CA 95616, USA.
| | - Anna Wolc
- Department of Animal Science, Iowa State University, Ames, IA 50011, USA.
- Hy-Line International, Dallas Center, IA 50063, USA.
| | - Jack C M Dekkers
- Department of Animal Science, Iowa State University, Ames, IA 50011, USA.
| | - Susan J Lamont
- Department of Animal Science, Iowa State University, Ames, IA 50011, USA.
| | - Terra Kelly
- Genomics to Improve Poultry Innovation Lab, University of California, Davis, CA 95616, USA.
- School of Veterinary Medicine, University of California, Davis, CA 95616, USA.
| | - Huaijun Zhou
- Genomics to Improve Poultry Innovation Lab, University of California, Davis, CA 95616, USA.
- Department of Animal Science, University of California, Davis, CA 95616, USA.
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23
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Tongsiri S, Jeyaruban GM, Hermesch S, van der Werf JHJ, Li L, Chormai T. Genetic parameters and inbreeding effects for production traits of Thai native chickens. ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES 2019; 32:930-938. [PMID: 30744369 PMCID: PMC6601067 DOI: 10.5713/ajas.18.0690] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/12/2018] [Accepted: 11/29/2018] [Indexed: 11/27/2022]
Abstract
Objective Estimate genetic parameters, the rate of inbreeding, and the effect of inbreeding on growth and egg production traits of a Thai native chicken breed Lueng Hang Kao Kabinburi housed under intensive management under a tropical climate. Methods Genetic parameters were estimated for weight measured at four weekly intervals from body weight at day 1 (BW1D) to body weight at 24 weeks (BW24) of age, as well as weight at first egg, age at first egg (AFE), egg weight at first egg, and total number of eggs (EN) produced during the first 17 weeks of lay using restricted maximum likelihood. Inbreeding depression was estimated using a linear regression of individual phenotype on inbreeding coefficient. Results Direct additive genetic effect was significant for all traits. Maternal genetic effect and permanent environmental hen effects were significant for all early growth traits, expect for BW24. For BW24, maternal genetic effect was also significant. Permanent environmental hen effect was significant for AFE. Direct heritabilities ranged from 0.10 to 0.47 for growth traits and ranged from 0.15 to 0.16 for egg production traits. Early growth traits had high genetic correlations between them. The EN was lowly negatively correlated with other traits. The average rate of inbreeding for the population was 0.09% per year. Overall, the inbreeding had no effect on body weight traits, except for BW1D. An increase in inbreeding coefficient by 1% reduced BWID by 0.09 g (0.29% of the mean). Conclusion Improvement in body weight gain can be achieved by selecting for early growth traits. Selection for higher body weight traits is expected to increase the weight of first egg. Due to low but unfavorable correlations with body weight traits, selection on EN needs to be combined with other traits via multi-trait index selection to improve body weight and EN simultaneously.
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Affiliation(s)
- Siriporn Tongsiri
- Animal Genetics and Breeding Unit, University of New England, Armidale, NSW 2351, Australia.,Kabinburi Livestock Research and Breeding Center, Bureau of Animal Husbandry and Genetic Improvement, Department of Livestock Development, Prachin Buri 25110, Thailand
| | - Gilbert M Jeyaruban
- Animal Genetics and Breeding Unit, University of New England, Armidale, NSW 2351, Australia
| | - Susanne Hermesch
- Animal Genetics and Breeding Unit, University of New England, Armidale, NSW 2351, Australia
| | - Julius H J van der Werf
- School of Environmental and Rural Science, University of New England, Armidale, NSW 2351, Australia
| | - Li Li
- Animal Genetics and Breeding Unit, University of New England, Armidale, NSW 2351, Australia
| | - Theerachai Chormai
- Kabinburi Livestock Research and Breeding Center, Bureau of Animal Husbandry and Genetic Improvement, Department of Livestock Development, Prachin Buri 25110, Thailand
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24
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Association of Candidate Genes with Response to Heat and Newcastle Disease Virus. Genes (Basel) 2018; 9:genes9110560. [PMID: 30463235 PMCID: PMC6267452 DOI: 10.3390/genes9110560] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2018] [Revised: 11/12/2018] [Accepted: 11/13/2018] [Indexed: 12/12/2022] Open
Abstract
Newcastle disease is considered the number one disease constraint to poultry production in low and middle-income countries, however poultry that is raised in resource-poor areas often experience multiple environmental challenges. Heat stress has a negative impact on production, and immune response to pathogens can be negatively modulated by heat stress. Candidate genes and regions chosen for this study were based on previously reported associations with response to immune stimulants, pathogens, or heat, including: TLR3, TLR7, MX, MHC-B (major histocompatibility complex, gene complex), IFI27L2, SLC5A1, HSPB1, HSPA2, HSPA8, IFRD1, IL18R1, IL1R1, AP2A2, and TOLLIP. Chickens of a commercial egg-laying line were infected with a lentogenic strain of NDV (Newcastle disease virus); half the birds were maintained at thermoneutral temperature and the other half were exposed to high ambient temperature before the NDV challenge and throughout the remainder of the study. Phenotypic responses to heat, to NDV, or to heat + NDV were measured. Selected SNPs (single nucleotide polymorphisms) within 14 target genes or regions were genotyped; and genotype effects on phenotypic responses to NDV or heat + NDV were tested in each individual treatment group and the combined groups. Seventeen significant haplotype effects, among seven genes and seven phenotypes, were detected for response to NDV or heat or NDV + heat. These findings identify specific genetic variants that are associated with response to heat and/or NDV which may be useful in the genetic improvement of chickens to perform favorably when faced with pathogens and heat stress.
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25
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Chu TT, Bastiaansen JW, Norberg E, Berg P. On farm observations to increase genetic gain in breeding schemes for village poultry production – A simulation study. ACTA AGR SCAND A-AN 2018. [DOI: 10.1080/09064702.2018.1543444] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Thinh Tuan Chu
- Center for Quantitative Genetics and Genomics, Department of Molecular Biology and Genetics, Aarhus University Tjele, Denmark
- Wageningen University & Research, Animal Breeding and Genomics, Wageningen, The Netherlands
| | - John W.M. Bastiaansen
- Wageningen University & Research, Animal Breeding and Genomics, Wageningen, The Netherlands
| | - Elise Norberg
- Center for Quantitative Genetics and Genomics, Department of Molecular Biology and Genetics, Aarhus University Tjele, Denmark
- Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Ås, Norway
| | - Peer Berg
- Center for Quantitative Genetics and Genomics, Department of Molecular Biology and Genetics, Aarhus University Tjele, Denmark
- Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Ås, Norway
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26
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Yadav SP, Kannaki TR, Mahapatra RK, Paswan C, Bhattacharya TK, Sarkar SK, Chatterjee RN. In vivo cell-mediated immune, hemagglutination inhibition response, hematological and biochemical values in native vs. exotic chicken breeds. Poult Sci 2018; 97:3063-3071. [PMID: 29889283 DOI: 10.3382/ps/pey182] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Birds (364) of both sexes, 11-wk-old, belonging to 2 native (Brown Nicobari and Ghagus) breeds and 1 exotic breed (Dahlem Red) were evaluated for cell-mediated immune response (CMI) by phytohemagglutinin-P (PHA-P), hemagglutination inhibition (HI) assay against Newcastle disease virus (NDV) antigen (LaSota stock virus), flow cytometric analysis of CD8+ cytotoxic T lymphocytes (CTLs), and hematology and biochemical assays. The cutaneous basophil hypersensitivity response PHA-P% increase in wattle thickness (mm) was highest in Ghagus (431.14 ± 22.56) which differed significantly with that of Brown Nicobari (269.1 ± 22.66) and Dahlem Red (218.42 ± 22.30). Sex-wise observation showed that females are having significantly higher response than males. Hemagglutination inhibition test was performed to determine the serum antibodies against Newcastle disease (ND) virus. Brown Nicobari showed highest HI antibody titer than Ghagus and Dahlem Red to similar vaccination program after booster NDV dose. Flow cytometry assay revealed significantly higher CTLs proliferation in Brown Nicobari than Ghagus and Dahlem Red. Moreover, CTLs were found to be higher in control group than the treatment group. Other hematological parameters (103/μL) significant difference was found in white blood cell count between Dahlem Red (38.41 ± 1.03) with that of Brown Nicobari (35.28 ± 1.04) and Ghagus (34.57 ± 1.04) in treatment groups. Same trend was observed in the Lymphocyte treatment group. However, in Granulocyte treatment group, Brown Nicobari (11.04 ± 0.35) was found to be significantly different from Dahlem Red (8.68 ± 0.34) and Ghagus (9.27 ± 0.35). Correlations between body weight at 11 wk of age and CMI, HI, cytotoxic T cell were -0.093, 0.047, and -0.036, respectively. Egg weight was found to be positively correlated with that of chick weight. Serum biochemical values showed that Dahlem Red was having significantly higher creatinine levels compared to Ghagus. Triglycerides level was also significantly higher in Ghagus compared to Dahlem Red. No significant breed effect was observed for alkaline phosphate, aspartate transaminase, and alanine transaminase. Cholesterol and total serum protein levels were significantly higher in Dahlem Red compared to Brown Nicobari.
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Affiliation(s)
- S P Yadav
- ICAR-Directorate of Poultry Research, Hyderabad 500030, India
| | - T R Kannaki
- ICAR-Directorate of Poultry Research, Hyderabad 500030, India
| | - R K Mahapatra
- ICAR-Directorate of Poultry Research, Hyderabad 500030, India
| | - Chandan Paswan
- ICAR-Directorate of Poultry Research, Hyderabad 500030, India
| | | | - S K Sarkar
- ICAR-Indian Agricultural Statistics Research Institute, India
| | - R N Chatterjee
- ICAR-Directorate of Poultry Research, Hyderabad 500030, India
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27
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Bayesian analysis of genetic parameters for early growth traits and humoral immune responses in Japanese quail. Livest Sci 2018. [DOI: 10.1016/j.livsci.2018.07.012] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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28
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Rowland K, Wolc A, Gallardo RA, Kelly T, Zhou H, Dekkers JCM, Lamont SJ. Genetic Analysis of a Commercial Egg Laying Line Challenged With Newcastle Disease Virus. Front Genet 2018; 9:326. [PMID: 30177951 PMCID: PMC6110172 DOI: 10.3389/fgene.2018.00326] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2018] [Accepted: 07/30/2018] [Indexed: 01/17/2023] Open
Abstract
In low income countries, chickens play a vital role in daily life. They provide a critical source of protein through egg production and meat. Newcastle disease, caused by avian paramyxovirus type 1, has been ranked as the most devastating disease for scavenging chickens in Africa and Asia. High mortality among flocks infected with velogenic strains leads to a devastating loss of dietary protein and buying power for rural households. Improving the genetic resistance of chickens to Newcastle Disease virus (NDV), in addition to vaccination, is a practical target for improvement of poultry production in low income countries. Because response to NDV has a component of genetic control, it can be influenced through selective breeding. Adding genomic information to a breeding program can increase the amount of genetic progress per generation. In this study, we challenged a commercial egg-laying line with a lentogenic strain of NDV, measured phenotypic responses, collected genotypes, and associated genotypes with phenotypes. Collected phenotypes included viral load at 2 and 6 days post-infection (dpi), antibody levels pre-challenge and 10 dpi, and growth rates pre- and post-challenge. Six suggestive QTL associated with response to NDV and/or growth were identified, including novel and known QTL confirming previously reported associations with related traits. Additionally, previous RNA-seq analysis provided support for several of the genes located in or near the identified QTL. Considering the trend of negative genetic correlation between antibody and Newcastle Disease tolerance (growth under disease) and estimates of moderate to high heritability, we provide evidence that these NDV response traits can be influenced through selective breeding. Producing chickens that perform favorably in challenging environments will ultimately increase the supply of quality protein for human consumption.
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Affiliation(s)
- Kaylee Rowland
- Department of Animal Science, Iowa State University, Ames, IA, United States
| | - Anna Wolc
- Department of Animal Science, Iowa State University, Ames, IA, United States.,Hy-Line International, Dallas Center, IA, United States
| | - Rodrigo A Gallardo
- School of Veterinary Medicine, University of California, Davis, Davis, CA, United States
| | - Terra Kelly
- School of Veterinary Medicine, University of California, Davis, Davis, CA, United States.,Department of Animal Science, University of California, Davis, Davis, CA, United States
| | - Huaijun Zhou
- Department of Animal Science, University of California, Davis, Davis, CA, United States
| | - Jack C M Dekkers
- Department of Animal Science, Iowa State University, Ames, IA, United States
| | - Susan J Lamont
- Department of Animal Science, Iowa State University, Ames, IA, United States
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Marley KB, Kuehn LA, Keele JW, Wileman BW, Gonda MG. Genetic variation in humoral response to an Escherichia coli O157:H7 vaccine in beef cattle. PLoS One 2018; 13:e0197347. [PMID: 29758060 PMCID: PMC5951538 DOI: 10.1371/journal.pone.0197347] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2017] [Accepted: 05/01/2018] [Indexed: 11/18/2022] Open
Abstract
Individuals often respond differently to the same vaccine; some of this variation may be caused by genetic differences among animals. Our objective was to estimate heritability and identify genomic regions associated with humoral response to an Escherichia coli O157:H7 vaccine in beef cattle. Crossbred beef cattle (n = 651) were vaccinated with a commercially available E. coli O157:H7 vaccine. Serum was collected at time of initial vaccination (d 0), booster (d 21), and d 56 after initial vaccination. Total antibodies specific to siderophore receptor and porin proteins in the vaccine were quantified by enzyme-linked immunosorbent assay. Genomic DNA was isolated from whole blood and genotyped with the bovine GeneSeek Genomic Profiler-High Density 78K or 26K Single Nucleotide Polymorphism BeadChip and imputed to 777,000 SNP genotypes. Heritability was estimated by restricted maximum likelihood (REML) using both 1) pedigree and 2) genomic relationships among individuals. Fixed effects were contemporary group, calf age, sex, principal components from SNP genotype data, and pedigree-derived heterozygosity effects. Additive and dominance effects of SNPs were estimated individually while accounting for contemporary group, sex, and the top 20 principal components calculated from the genomic relationship matrix. Heritability of initial response to vaccination (d 21 –d 0) was 0.10 ± 0.175 using pedigree relationships and 0.14 ± 0.149 using genomic relationships, but neither estimate was statistically different from zero. Heritability of booster (d 56 –d 21) and overall (d 56 –d 0) responses were low and not statistically significant from zero. There were no clusters of linked SNP associated with vaccine response, but eight regionally isolated SNPs were significantly associated with initial or overall response to vaccination. Regional genetic variation for initial response to an E. coli O157:H7 vaccine was observed, although overall heritability of this response was not statistically significant from zero.
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Affiliation(s)
- Kara B. Marley
- Department of Animal Science, South Dakota State University, Brookings, South Dakota, United States of America
| | - Larry A. Kuehn
- Meat Animal Research Center, United States Department of Agriculture, Clay Center, Nebraska, United States of America
| | - John W. Keele
- Meat Animal Research Center, United States Department of Agriculture, Clay Center, Nebraska, United States of America
| | - Benjamin W. Wileman
- Department of Animal Sciences and Industry, Kansas State University, Manhattan, Kansas, United States of America
| | - Michael G. Gonda
- Department of Animal Science, South Dakota State University, Brookings, South Dakota, United States of America
- * E-mail:
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Deterioration of eggshell quality is related to calbindin in laying hens infected with velogenic genotype VIId Newcastle disease virus. Theriogenology 2016; 91:62-68. [PMID: 28215687 DOI: 10.1016/j.theriogenology.2016.12.030] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2016] [Revised: 12/14/2016] [Accepted: 12/15/2016] [Indexed: 12/18/2022]
Abstract
The aim of this study was to determine the mechanism by which Newcastle disease virus (NDV) affects eggshell quality. Thirty-week-old specific pathogen free (SPF) egg-laying hens were inoculated with the velogenic genotype VIId NDV strain (infected group) or with inoculating media without virus (control group) by combined intraocular and intranasal routes. The levels of CaBP-D28k mRNA expression in the uterus, a gene related to eggshell quality, were examined by quantitative reverse transcriptase polymerase chain reaction (RT-PCR). The quality of eggshells was analyzed by scanning electron microscopy (SEM). The infected group showed a marked decline in egg production when compared to the control group. The NDV antigen was found more abundantly in the glandular epithelium of the infected hens' uteri from 1 to 15 d post-inoculation (dpi). The levels of CaBP-D28k mRNA expression in the uteri of infected hens were significantly lower than in the control hens from 3 to 15 dpi (P < 0.05). The changes in the Ca concentrations in the eggshells were consistent with the expression of CaBP-D28k mRNA in the infected hens. Ultrastructural examination of eggshells showed significantly reduced shell thickness in the infected hens from 1 to 15 dpi (P < 0.05). Furthermore, obvious changes in the structure of the external shell surface and shell membrane were detected in the infected hens compared with the control hens. In conclusion, the current study confirmed that velogenic genotype VIId NDV infection is associated with the deterioration of the eggshell quality of the laying hens.
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Rovadoscki GA, Petrini J, Ramirez-Diaz J, Pertile SFN, Pertille F, Salvian M, Iung LHS, Rodriguez MAP, Zampar A, Gaya LG, Carvalho RSB, Coelho AAD, Savino VJM, Coutinho LL, Mourão GB. Genetic parameters for growth characteristics of free-range chickens under univariate random regression models. Poult Sci 2016; 95:1989-98. [PMID: 27208151 DOI: 10.3382/ps/pew167] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/31/2016] [Indexed: 11/20/2022] Open
Abstract
Repeated measures from the same individual have been analyzed by using repeatability and finite dimension models under univariate or multivariate analyses. However, in the last decade, the use of random regression models for genetic studies with longitudinal data have become more common. Thus, the aim of this research was to estimate genetic parameters for body weight of four experimental chicken lines by using univariate random regression models. Body weight data from hatching to 84 days of age (n = 34,730) from four experimental free-range chicken lines (7P, Caipirão da ESALQ, Caipirinha da ESALQ and Carijó Barbado) were used. The analysis model included the fixed effects of contemporary group (gender and rearing system), fixed regression coefficients for age at measurement, and random regression coefficients for permanent environmental effects and additive genetic effects. Heterogeneous variances for residual effects were considered, and one residual variance was assigned for each of six subclasses of age at measurement. Random regression curves were modeled by using Legendre polynomials of the second and third orders, with the best model chosen based on the Akaike Information Criterion, Bayesian Information Criterion, and restricted maximum likelihood. Multivariate analyses under the same animal mixed model were also performed for the validation of the random regression models. The Legendre polynomials of second order were better for describing the growth curves of the lines studied. Moderate to high heritabilities (h(2) = 0.15 to 0.98) were estimated for body weight between one and 84 days of age, suggesting that selection for body weight at all ages can be used as a selection criteria. Genetic correlations among body weight records obtained through multivariate analyses ranged from 0.18 to 0.96, 0.12 to 0.89, 0.06 to 0.96, and 0.28 to 0.96 in 7P, Caipirão da ESALQ, Caipirinha da ESALQ, and Carijó Barbado chicken lines, respectively. Results indicate that genetic gain for body weight can be achieved by selection. Also, selection for body weight at 42 days of age can be maintained as a selection criterion.
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Affiliation(s)
- Gregori A Rovadoscki
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Juliana Petrini
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Johanna Ramirez-Diaz
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Simone F N Pertile
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Fábio Pertille
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Mayara Salvian
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Laiza H S Iung
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Mary Ana P Rodriguez
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Aline Zampar
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Leila G Gaya
- Department of Basic Sciences, University of São Paulo, Pirassununga, SP, 13.635-900, Brazil
| | - Rachel S B Carvalho
- Department of Basic Sciences, University of São Paulo, Pirassununga, SP, 13.635-900, Brazil
| | - Antonio A D Coelho
- Department of Genetics, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Vicente J M Savino
- Department of Genetics, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Luiz L Coutinho
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
| | - Gerson B Mourão
- Department of Animal Science, University of São Paulo, Piracicaba, SP, 13.418-900, Brazil
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Padhi MK. Importance of Indigenous Breeds of Chicken for Rural Economy and Their Improvements for Higher Production Performance. SCIENTIFICA 2016; 2016:2604685. [PMID: 27144053 PMCID: PMC4838803 DOI: 10.1155/2016/2604685] [Citation(s) in RCA: 76] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2015] [Accepted: 03/09/2016] [Indexed: 06/05/2023]
Abstract
Indigenous/native breeds of chickens are playing an important role in rural economies in most of the developing and underdeveloped countries. They play a major role for the rural poor and marginalised section of the people with respect to their subsidiary income and also provide them with nutritious chicken egg and meat for their own consumption. Performance of native fowl can be improved by change in husbandry, feeding, and better health cover. However, genetic improvement may be made either through selection and crossbreeding or by utilisation of both selection and crossbreeding. Improvement through selection may be time consuming but the improvement will be permanent. Through crossbreeding improvement may be faster but research has to aim for the production of native-type birds with higher production potential. In the present review efforts have been made to present the importance of native fowl to rural economy and their improvement for higher production performance.
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Affiliation(s)
- Mahendra Kumar Padhi
- Regional Centre, ICAR-Central Avian Research Institute, Baramunda, Bhubaneswar 751003, India
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Tongsiri S, Jeyaruban M, Van Der Werf J. Genetic parameters for egg production traits in purebred and hybrid chicken in a tropical environment. Br Poult Sci 2015; 56:613-20. [DOI: 10.1080/00071668.2015.1099614] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Yi G, Liu W, Li J, Zheng J, Qu L, Xu G, Yang N. Genetic analysis for dynamic changes of egg weight in 2 chicken lines. Poult Sci 2014; 93:2963-9. [DOI: 10.3382/ps.2014-04178] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
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Kapczynski DR, Afonso CL, Miller PJ. Immune responses of poultry to Newcastle disease virus. DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY 2013; 41:447-53. [PMID: 23623955 DOI: 10.1016/j.dci.2013.04.012] [Citation(s) in RCA: 171] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/19/2013] [Revised: 04/17/2013] [Accepted: 04/18/2013] [Indexed: 05/13/2023]
Abstract
Newcastle disease (ND) remains a constant threat to poultry producers worldwide, in spite of the availability and global employment of ND vaccinations since the 1950s. Strains of Newcastle disease virus (NDV) belong to the order Mononegavirales, family Paramyxoviridae, and genus Avulavirus, are contained in one serotype and are also known as avian paramyxovirus serotype-1 (APMV-1). They are pleomorphic in shape and are single-stranded, non-segmented, negative sense RNA viruses. The virus has been reported to infect most orders of birds and thus has a wide host range. Isolates are characterized by virulence in chickens and the presence of basic amino acids at the fusion protein cleavage site. Low virulent NDV typically produce subclinical disease with some morbidity, whereas virulent isolates can result in rapid, high mortality of birds. Virulent NDV are listed pathogens that require immediate notification to the Office of International Epizootics and outbreaks typically result in trade embargos. Protection against NDV is through the use of vaccines generated with low virulent NDV strains. Immunity is derived from neutralizing antibodies formed against the viral hemagglutinin and fusion glycoproteins, which are responsible for attachment and spread of the virus. However, new techniques and technologies have also allowed for more in depth analysis of the innate and cell-mediated immunity of poultry to NDV. Gene profiling experiments have led to the discovery of novel host genes modulated immediately after infection. Differences in virus virulence alter host gene response patterns have been demonstrated. Furthermore, the timing and contributions of cell-mediated immune responses appear to decrease disease and transmission potential. In view of recent reports of vaccine failure from many countries on the ability of classical NDV vaccines to stop spread of disease, renewed interest in a more complete understanding of the global immune response of poultry to NDV will be critical to developing new control strategies and intervention programs for the future.
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Affiliation(s)
- Darrell R Kapczynski
- Exotic and Emerging Avian Disease Research Unit, Southeast Poultry Research Laboratory, Agricultural Research Service, USDA, Athens, GA 30605, United States.
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Khawaja T, Khan SH, Mukhtar N, Ullah N, Parveen A. Production performance, egg quality and biochemical parameters of Fayoumi, Rhode Island Red and their reciprocal crossbred chickens. JOURNAL OF APPLIED ANIMAL RESEARCH 2013. [DOI: 10.1080/09712119.2012.739969] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Luo C, Qu H, Ma J, Wang J, Li C, Yang C, Hu X, Li N, Shu D. Genome-wide association study of antibody response to Newcastle disease virus in chicken. BMC Genet 2013; 14:42. [PMID: 23663563 PMCID: PMC3654938 DOI: 10.1186/1471-2156-14-42] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2012] [Accepted: 05/06/2013] [Indexed: 11/21/2022] Open
Abstract
Background Since the first outbreak in Indonesia in 1926, Newcastle disease has become one of the most common and contagious bird diseases throughout the world. To date, enhancing host antibody response by vaccination remains the most efficient strategy to control outbreaks of Newcastle disease. Antibody response plays an important role in host resistance to Newcastle disease, and selection for antibody response can effectively improve disease resistance in chickens. However, the molecular basis of the variation in antibody response to Newcastle disease virus (NDV) is not clear. The aim of this study was to detect genes modulating antibody response to NDV by a genome-wide association study (GWAS) in chickens. Results To identify genes or chromosomal regions associated with antibody response to NDV after immunization, a GWAS was performed using 39,833 SNP markers in a chicken F2 resource population derived from a cross between two broiler lines that differed in their resistance. Two SNP effects reached 5% Bonferroni genome-wide significance (P<1.26×10-6). These two SNPs, rs15354805 and rs15355555, were both on chicken (Gallus gallus) chromosome 1 and spanned approximately 600 Kb, from 100.4 Mb to 101.0 Mb. Rs15354805 is in intron 7 of the chicken Roundabout, axon guidance receptor, homolog 2 (ROBO2) gene, and rs15355555 is located about 243 Kb upstream of ROBO2. Rs15354805 explained 5% of the phenotypic variation in antibody response to NDV, post immunization, in chickens. Rs15355555 had a similar effect as rs15354805 because of its linkage disequilibrium with rs15354805 (r2=0.98). Conclusion The region at about 100 Mb from the proximal end of chicken chromosome 1, including the ROBO1 and ROBO2 genes, has a strong effect on the antibody response to the NDV in chickens. This study paves the way for further research on the host immune response to NDV.
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Affiliation(s)
- Chenglong Luo
- Institute of Animal Science, Guangdong Academy of Agricultural Sciences, 1 Dafeng 1st Street, Wushan, Tianhe District, Guangzhou 510640, Guangdong, China
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Okeno TO, Kahi AK, Peters KJ. Evaluation of breeding objectives for purebred and crossbred selection schemes for adoption in indigenous chicken breeding programmes. Br Poult Sci 2013; 54:62-75. [PMID: 23444855 DOI: 10.1080/00071668.2013.764492] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
1. The aim of the study was to evaluate the genetic and economic breeding objectives for an indigenous chicken (IC) breeding programme in Kenya. 2. A closed three-tier nucleus breeding programme with three breeding objectives and two selection schemes was simulated. The breeding objectives included IC dual-purpose (ICD) for both eggs and meat, IC layer (ICL) for eggs and IC broiler (ICB) for meat production. 3. Pure line selection scheme (PLS) for development of IC pure breeds and crossbreeding scheme (CBS) for the production of hybrids were considered. Two-and three-way crossbreeding strategies were evaluated under CBS and the impact of nucleus size on genetic gains and profitability of the breeding programme were investigated. 4. Males were the main contributors to genetic gains. The highest genetic gains for egg number (2·71 eggs) and growth traits (1·74 g average daily gain and 57·96 g live weight at 16 weeks) were realised under PLS in ICL and ICB, respectively. 5. The genetic response for age at first egg was desirable in all the breeding objectives, while that for fertility and hatchability were only favourable under ICL and PLS in ICD. Faecal egg count and immune antibody response had low, but positive gains except under PLS where the later was unfavourable. ICB was the most profitable breeding objective, followed by ICD and ICL under all the selection schemes. 6. Although PLS was superior in genetic gains and profitability and recommended in breeding programmes targeting ICL and ICB, a three line CBS should be considered in development of a dual-purpose breed. 7. Increasing the nucleus size beyond 5% of the IC population was not attractive as it resulted in declining profitability of the breeding programme.
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Affiliation(s)
- T O Okeno
- Animal Breeding in the Tropics and Sub-Tropics, Department of Crop and Livestock Sciences , Humboldt Universität zu Berlin, Philippstraße 13, Berlin, Germany
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Estimates of (co)variance components for production and reproduction traits with different models in Fars native fowls. Livest Sci 2013. [DOI: 10.1016/j.livsci.2012.11.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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Niknafs S, Nejati-Javaremi A, Mehrabani-Yeganeh H, Fatemi SA. Estimation of genetic parameters for body weight and egg production traits in Mazandaran native chicken. Trop Anim Health Prod 2013; 44:1437-43. [PMID: 22286525 DOI: 10.1007/s11250-012-0084-6] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/16/2012] [Indexed: 10/14/2022]
Abstract
Native chicken breeding station of Mazandaran was established in 1988 with two main objectives: genetic improvement through selection programs and dissemination of indigenous Mazandarani birds. (Co)variance components and genetic parameters for economically important traits were estimated using (bi) univariate animal models with ASREML procedure in Mazandarani native chicken. The data were from 18 generations of selection (1988-2009). Heritability estimates for body weight at different ages [at hatch (bw1), 8 (bw8), 12 (bw12) weeks of ages and sex maturation (wsm)] ranged from 0.24 ± 0.00 to 0.47 ± 0.01. Heritability for reproductive traits including age at sex maturation (asm); egg number (en); weight of first egg (ew1); average egg weight at 28 (ew28), 30 (ew30), and 32 (ew32) weeks of age; their averages (av); average egg weight for the first 12 weeks of production (ew12); egg mass (em); and egg intensity (eint) varied from 0.16 ± 0.01 to 0.43 ± 0.01. Generally, the magnitudes of heritability for the investigated traits were moderate. However, egg production traits showed smaller heritability compared with growth traits. Genetic correlations among egg weight at different ages were mostly higher than 0.8. On the one hand, body weight at different ages showed positive and relatively moderate genetic correlations with egg weight traits (ew1, ew28, ew30, ew32, ew12, and av) and varied from 0.30 ± 0.03 to 0.59 ± 0.02. On the other hand, low negative genetic correlations were obtained between body weight traits (bw1, bw8, bw12, and wsm) and egg number (en). Also, there is low negative genetic correlation (-24 ± 0.04 to -29 ± 0.05) between egg number and egg weight. Therefore, during simultaneous selection process for both growth and egg production traits, probable reduction in egg production due to low reduction in egg number may be compensated by increases in egg weight.
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Affiliation(s)
- Shahram Niknafs
- Department of Animal Science, College of Agriculture & Natural Resources, University of Tehran, Karaj, Iran.
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Nikbakht G, Esmailnejad A, Barjesteh N. LEI0258 microsatellite variability in Khorasan, Marandi, and Arian chickens. Biochem Genet 2013; 51:341-9. [PMID: 23340766 DOI: 10.1007/s10528-013-9567-z] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2011] [Accepted: 10/27/2012] [Indexed: 10/27/2022]
Abstract
Microsatellite LEI0258 is a genetic marker for chicken MHC haplotypes and can be used as an indicator of the influence of population genetics on immune responses. LEI0258 microsatellite variability in three Iranian indigenous chicken populations (Khorasan, Marandi, and Arian) was investigated. In total, 142 Khorasan, 42 Marandi, and 58 Arian chickens were examined. Collectively, 25 different alleles and 79 genotypes could be found. The observed levels of heterozygosity were 81% in Khorasan and Marandi and 34% in Arian chickens. Our results indicate that LEI0258 diversity in Marandi chickens is higher than in the other populations. Allelic diversity in Iranian chickens is relatively higher than in the local chicken breeds reported for Brazil and Vietnam.
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Affiliation(s)
- Gholamreza Nikbakht
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Azadi Avenue, Tehran, Iran.
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Wolc A, Arango J, Settar P, O'Sullivan N, Olori V, White I, Hill W, Dekkers J. Genetic parameters of egg defects and egg quality in layer chickens. Poult Sci 2012; 91:1292-8. [DOI: 10.3382/ps.2011-02130] [Citation(s) in RCA: 35] [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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Phenotypic and genetic parameters for body weights and antibody response against Newcastle disease virus (NDV) vaccine for Kuchi chicken ecotype of Tanzania under extensive management. Trop Anim Health Prod 2012; 44:1529-34. [PMID: 22331458 DOI: 10.1007/s11250-012-0099-z] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 02/02/2012] [Indexed: 10/28/2022]
Abstract
This study was carried out to estimate phenotypic and genetic parameters for body weights and primary antibody response (Ab) against Newcastle diseases virus (NDV) vaccine for Kuchi chicken ecotype of Tanzania managed extensively. Body weight was evaluated at 8 (Bwt8), 12 (Bwt12), 16 (Bwt16) and 20 (Bwt20) weeks of age, while Ab against NDV vaccine was evaluated at 6 weeks of age (2 weeks post-vaccination). Number of birds per trait varied from 373 to 430. Mean value ± standard error (SE) over both sexes for Bwt8, Bwt12, Bwt12 and Bwt20 were 348 ± 2.8, 685 ± 5.3 g, 974 ± 6.4 g and 1,188 ± 7.3 g, respectively. Mean Ab value (HI titre in log(2)) against NDV vaccine was 4.69 ± 0.06. Heritability values ± SE for Bwt8, Bwt12, Bwt16, Bwt20 and Ab against NDV vaccine were 0.30 ± 0.13, 0.34 ± 0.12, 0.37 ± 0.11, 0.39 ± 0.12 and 0.22 ± 0.08, respectively. Genetic (r (g)) and phenotypic (r (p)) correlations were positive and high among body weights (i.e. r (g) = 0.53 to 0.74 and r(p) = 0.44 to 0.64), and were negative and low (i.e. around 0.10 and below) among Ab against NDV vaccine and body weights. Based on these estimates, it was concluded that growth performance for Kuchi chicken under extensive management is still poor. Adequate additive genetic variations exist for body weights and Ab against NDV vaccine under extensive management, thus they can be improved through selection under such environment, and further that both traits (body weight(s) and Ab) can be improved/selected simultaneously without significant reduction in genetic gain (response) for each trait.
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Application of risk-rated profit model functions in estimation of economic values for indigenous chicken breeding. Trop Anim Health Prod 2012; 44:1279-87. [PMID: 22246574 DOI: 10.1007/s11250-011-0069-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/28/2011] [Indexed: 10/14/2022]
Abstract
The economic values for productive (egg number, average daily gain, live weight, and mature weight) and functional (fertility, hatchability, broodiness, survival rate, feed intake, and egg weight) traits were derived for three production systems utilizing indigenous chicken in Kenya. The production systems considered were free-range, semi-intensive, and intensive system and were evaluated based on fixed flock size and fixed feed resource production circumstances. A bio-economic model that combined potential performances, feeding strategies, optimum culling strategies, farmer's preferences and accounted for imperfect knowledge concerning risk attitude of farmers and economic dynamics was employed to derive risk-rated economic values. The economic values for all the traits were highest in free-range system under the two production circumstances and decreased with level of intensification. The economic values for egg number, average daily gain, live weight, fertility, hatchability, and survival rate were positive while those for mature weight, broodiness, egg weight, and feed intake were negative. Generally, the economic values estimated under fixed feed resource production circumstances were higher than those derived under fixed flock size. The difference between economic values estimated using simple (traditional) and risk-rated profit model functions ranged from -47.26% to +67.11% indicating that inclusion of risks in estimation of economic values is important. The results of this study suggest that improvement targeting egg number, average daily gain, live weight, fertility, hatchability, and survival rate would have a positive impact on profitability of indigenous chicken production in Kenya.
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Savegnago R, Caetano S, Ramos S, Nascimento G, Schmidt G, Ledur M, Munari D. Estimates of genetic parameters, and cluster and principal components analyses of breeding values related to egg production traits in a White Leghorn population. Poult Sci 2011; 90:2174-88. [DOI: 10.3382/ps.2011-01474] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
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Xu H, Zeng H, Luo C, Zhang D, Wang Q, Sun L, Yang L, Zhou M, Nie Q, Zhang X. Genetic effects of polymorphisms in candidate genes and the QTL region on chicken age at first egg. BMC Genet 2011; 12:33. [PMID: 21492484 PMCID: PMC3096585 DOI: 10.1186/1471-2156-12-33] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2010] [Accepted: 04/15/2011] [Indexed: 12/30/2022] Open
Abstract
Background The age at first egg (AFE), an important indicator for sexual maturation in female chickens, is controlled by polygenes. Based on our knowledge of reproductive physiology, 6 genes including gonadotrophin releasing hormone-I (GnRH-I), neuropeptide Y (NPY), dopamine D2 receptor (DRD2), vasoactive intestinal polypeptide (VIP), VIP receptor-1 (VIPR-1), and prolactin (PRL), were selected as candidates for influencing AFE. Additionally, the region between ADL0201 and MCW0241 of chromosome Z was chosen as the candidate QTL region according to some QTL databases. The objective of the present study was to investigate the effects of mutations in candidate genes and the QTL region on chicken AFE. Results Marker-trait association analysis of 8 mutations in those 6 genes in a Chinese native population found a highly significant association (P < 0.01) between G840327C of the GnRH-I gene with AFE, and it remained significant even with Bonferroni correction. Based on the results of the 2-tailed χ2 test, mutations T32742394C, T32742468C, G32742603A, and C33379782T in the candidate QTL region of chromosome Z were selected for marker-trait association analysis. The haplotypes of T32742394C and T32742468C were significantly associated (P < 0.05) with AFE. Bioinformatics analysis indicated that T32742394C and T32742468C were located in the intron region of the SH3-domain GRB2-like 2 (SH3GL2) gene, which appeared to be associated in the endocytosis and development of the oocyte. Conclusion This study found that G840327C of the GnRH-I gene and the haplotypes of T32742394C-T32742468C of the SH3GL2 gene were associated with the chicken AFE.
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Affiliation(s)
- Haiping Xu
- Department of Animal Genetics, Breeding and Reproduction, College of Animal Science, South China Agricultural University, Guangzhou 510642, Guangdong, China
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Dana N, Vander Waaij EH, van Arendonk JAM. Genetic and phenotypic parameter estimates for body weights and egg production in Horro chicken of Ethiopia. Trop Anim Health Prod 2010; 43:21-8. [PMID: 20625931 PMCID: PMC2995860 DOI: 10.1007/s11250-010-9649-4] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/27/2010] [Indexed: 11/02/2022]
Abstract
A breeding program has been established in 2008 to improve productivity of Horro chicken, an indigenous population in the western highlands of Ethiopia. The pedigree descended from 26 sires and 260 dams. Body weights were measured every 2 weeks from hatch to 8 weeks then every 4 weeks for the next 8 weeks. Egg production was recorded to 44 weeks of age for one generation. Genetic parameters were estimated using animal model fitted with common environmental effects for growth traits and ignoring common environment for egg production traits. Direct heritabilities ranged from low (0.15 ± 0.08), for body weight at 6 weeks, to moderate (0.40 ± 0.23), for hatch weight. Heritabilities of common environmental effects on growth were high at hatch (0.39 ± 0.10) and remained low afterwards. Age at first egg showed a very low heritability (0.06 ± 0.15). Heritabilities of egg numbers in the first, second, third, and fourth months of laying were 0.32 (±0.13), 0.20 (±0.16), 0.56 (±0.15), and 0.25 (±0.14), respectively. Heritabilities of cumulative of monthly records of egg numbers were from 0.24 ± 0.16 (for the first 2 months, EP12) to 0.35 ± 0.16 (over the 6 months, EP16). Body weight at 16 weeks of age (BW16) has a strong genetic correlation with the cumulative of monthly records: 0.92 (with EP12), 0.69 (with EP36), and 0.73 (with EP16). Besides their strong association, BW16 and EP16 showed higher heritability, relative to their respective trait categories. These two traits seemed to have common genes and utilizing them as selection traits would be expected to improve both egg production and growth performance of local chicken. However, the standard errors of estimates in this study were mostly high indicating that the estimates have low precision. Parameter estimations based on more data are needed before applying the current results in breeding programs.
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Affiliation(s)
- Nigussie Dana
- Ethiopian Institute of Agricultural Research, P.O. Box 32, Debre Zeit, Ethiopia.
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