1
|
Iglesias GM, Beker MP, Remolins JS, Canet ZE, Librera J, Cantaro H, Maizon DO, Fulton JE. MHC-B variation in maternal and paternal synthetic lines of the Argentinian Campero INTA chicken. Poult Sci 2021; 100:101253. [PMID: 34217141 PMCID: PMC8258676 DOI: 10.1016/j.psj.2021.101253] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2020] [Revised: 03/16/2021] [Accepted: 05/03/2021] [Indexed: 11/30/2022] Open
Abstract
The Campero-INTA chicken of Argentina was developed to provide a robust bird that can survive under Argentinian pasture conditions with no significant additional nutrition, producing a source of animal protein for small producers or low-income families. In previous work, we described the AH paternal line of Campero and its Major Histocompatibility Complex B region (MHC-B) variation. In this work we analyzed the three remaining synthetic lines used to produce the Campero-INTA production bird: lines AS, A, and E. Because of the association between variation within the MHC of chickens and disease resistance, MHC variation within this breed is of particular interest. MHC variability within the lines used to produce the Campero-INTA chicken was examined using a 90 SNP panel encompassing the chicken MHC-B region plus the VNTR, LEI0258, located within the chicken MHC. Across all 4lines 12 haplotypes were found, with 7 of these being previously reported in North America/European breeds, reflecting the original breed sources for these birds. Three Campero unique haplotypes were found, 2 of which likely originated from MHC recombination events. MHC-B variation for all lines involved with production of the final Campero-INTA bird has now been determined.
Collapse
Affiliation(s)
- Gabriela M Iglesias
- Universidad Nacional de Rio Negro, Sede Alto Valle y Valle Medio, Escuela de Veterinaria y Producción Agroindustrial, Cátedra de Genética, Pacheco 460, Choele Choel, Rio Negro, 8360 Argentina.
| | - María P Beker
- Universidad Nacional de Rio Negro, Sede Alto Valle y Valle Medio, Escuela de Veterinaria y Producción Agroindustrial, Cátedra de Genética, Pacheco 460, Choele Choel, Rio Negro, 8360 Argentina
| | - Jose S Remolins
- Universidad Nacional de Rio Negro, Sede Alto Valle y Valle Medio, Escuela de Veterinaria y Producción Agroindustrial, Cátedra de Genética, Pacheco 460, Choele Choel, Rio Negro, 8360 Argentina
| | - Zulma E Canet
- Universidad Nacional de Rosario, Facultad de Ciencias Veterinarias, Cátedra de Genética, Boulevard Ovidio Lagos y Ruta 33, Casilda. Santa Fe, Argentina; INTA Pergamino, Estación Experimental Agropecuaria "Ing. Agr. Walter Kugler", Av. Frondizi (Ruta 32) Km 4,5. Pergamino, Buenos Aires, Argentina
| | - José Librera
- Universidad Nacional de Rosario, Facultad de Ciencias Veterinarias, Cátedra de Genética, Boulevard Ovidio Lagos y Ruta 33, Casilda. Santa Fe, Argentina
| | - Horacio Cantaro
- Universidad Nacional de Rio Negro, Sede Alto Valle y Valle Medio, Escuela de Veterinaria y Producción Agroindustrial, Cátedra de Genética, Pacheco 460, Choele Choel, Rio Negro, 8360 Argentina; Estación Experimental Agropecuaria Alto Valle, Programa Nacional de Producción Animal, Ruta Nacional 22, Km, 1190 Argentina
| | - Daniel O Maizon
- Instituto Nacional de Tecnología Agropecuaria (INTA), Estación Experimental Agropecuaria Anguil, Ruta Nacional 5 Km 580, Anguil, Argentina
| | - Janet E Fulton
- Hy-Line International, P.O. Box 310 Dallas Center, IA 50063, USA
| |
Collapse
|
2
|
Manjula P, Fulton JE, Seo D, Lee JH. Major histocompatibility complex B variability in Korean native chicken breeds. Poult Sci 2020; 99:4704-4713. [PMID: 32988505 PMCID: PMC7598131 DOI: 10.1016/j.psj.2020.05.049] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2019] [Revised: 05/04/2020] [Accepted: 05/22/2020] [Indexed: 12/01/2022] Open
Abstract
Adaptive genetic variations have direct influences on the fitness traits of the animal. The major histocompatibility complex B (MHC-B) region is responsible for adaptive and innate immune responses in chickens. In native Korean chicken breeds, no information on serologically defined B haplotypes is available. We investigated the MHC-B diversity in 5 restored lines of Korean native chicken and Ogye chicken breeds using a recently described MHC-B single-nucleotide polymorphism (SNP) panel and the MHC-linked LEI0258 variable number of tandem repeat marker. High SNP haplotype diversity was observed in Korean native chicken breeds with an average of 9.7 MHC-B SNP haplotypes per line. The total number of haplotypes ranged from 6 to 12 per line, and population-specific haplotypes ranged from 3 to 4. A total of 41 BSNP haplotypes, including 26 novel population-specific haplotypes and 15 common haplotypes, were reported over all populations. The 15 common haplotypes included 7 novel and 8 previously reported standard haplotypes. Selection and breeding evidence supports the observation of common haplotypes between the Korean native chicken and exotic breeds. Similarly, the LEI0258 marker showed allele variation, between 193 bp and 474 bp having 5 to 8 alleles per population. Some of these alleles (193, 249, 309, and 443 bp) were shared and more frequently observed. Comparison between SNP haplotypes and LEI0258 allele sizes for the same samples showed that some LEI0258 allele sizes correspond to more than one BSNP haplotype. The use of the MHC-B SNP panel greatly enhances the identification of MHC diversity compared with the sole use of the LEI0258 marker in native chicken populations.
Collapse
Affiliation(s)
- Prabuddha Manjula
- Division of Animal and Dairy Science, Chungnam National University, Daejeon 34134, Republic of Korea
| | | | - Dongwon Seo
- Division of Animal and Dairy Science, Chungnam National University, Daejeon 34134, Republic of Korea
| | - Jun Heon Lee
- Division of Animal and Dairy Science, Chungnam National University, Daejeon 34134, Republic of Korea.
| |
Collapse
|
3
|
Haunshi S, Devara D, Ramasamy K, Ullengala R, Chatterjee RN. Genetic diversity at major histocompatibility complex and its effect on production and immune traits in indigenous chicken breeds of India. Arch Anim Breed 2020; 63:173-182. [PMID: 32760784 PMCID: PMC7397721 DOI: 10.5194/aab-63-173-2020] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2019] [Accepted: 05/12/2020] [Indexed: 12/03/2022] Open
Abstract
The genetic diversity at major histocompatibility complex (MHC) in indigenous chicken breeds of India
(Ghagus and Nicobari) in comparison with the White Leghorn (WLH) breed was
investigated by genotyping the MHC-linked LEI0258 marker. Altogether 38 alleles
and 96 genotypes were observed among three breeds. The observed and
effective alleles were highest in Ghagus (23, 8.3) followed by Nicobari (14,
3.2) and WLH (10 and 2.2) breeds. The size of alleles ranged from 193 to 489 bp in Ghagus, 193 to 552 bp in Nicobari and 241 to 565 bp in the WLH breed. The
number of private alleles was also highest in Ghagus (18) followed by
Nicobari (8) and WLH (5) breeds. The most frequent allele was 261 bp in WLH
(66 %), 343 bp in Nicobari (50.4 %) and 309 bp in the Ghagus (28.15 %)
breed. Observed and expected heterozygosities were highest in Ghagus (0.83,
0.88) followed by Nicobari (0.58, 0.68) and WLH (0.53, 0.54). The genetic
distance (Nei) between Ghagus and Nicobari breeds (2.24) was higher as
compared to that of Ghagus and WLH (1.23) and that between Nicobari and WLH
breeds (0.89). Association analysis revealed significant influence of MHC
alleles on body weight, egg production in Ghagus and WLH breeds and antibody
titres to Newcastle disease vaccine in the Nicobari breed.
Collapse
Affiliation(s)
- Santosh Haunshi
- ICAR-Directorate of Poultry Research, Rajendranagar, Hyderabad 500030, India
| | - Divya Devara
- ICAR-Directorate of Poultry Research, Rajendranagar, Hyderabad 500030, India
| | - Kannaki Ramasamy
- ICAR-Directorate of Poultry Research, Rajendranagar, Hyderabad 500030, India
| | - Rajkumar Ullengala
- ICAR-Directorate of Poultry Research, Rajendranagar, Hyderabad 500030, India
| | | |
Collapse
|
4
|
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.
Collapse
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
| |
Collapse
|
5
|
Esmailnejad A, Nikbakht Brujeni G, Badavam M. LEI0258 microsatellite variability and its association with humoral and cell mediated immune responses in broiler chickens. Mol Immunol 2017; 90:22-26. [PMID: 28662410 DOI: 10.1016/j.molimm.2017.06.027] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2017] [Revised: 05/06/2017] [Accepted: 06/12/2017] [Indexed: 11/20/2022]
Abstract
Major histocompatibility complex (MHC) has a profound influence on disease resistance or susceptibility, productivity and important economic traits in chicken. Association of the MHC with a wide range of immune responses makes it a valuable predictive factor for the disease pathogenesis and outcome. The tandem repeat LEI0258 is a genetic marker which is located within the B locus of chicken MHC and strongly associated with serologically defined haplotypes. LEI0258 microsatellite marker was applied to investigate the MHC polymorphism in Ross 308 broiler chicken (N=104). Association of LEI0258 alleles with humoral and cell mediated immune responses to Newcastle disease (ND), Infectious bursal disease (IBD) and Avian influenza (AI) vaccines were also examined. LEI0258 polymorphism was determined by PCR-based fragment analysis, and association of LEI0258 alleles with immune responses were evaluated using multivariate regression analysis and GLM procedures. A total of seven alleles ranging from 195 to 448bp were found, including two novel alleles (263 and 362bp) that were unique in Ross 308 broiler population. Association study revealed a significant influence of MHC alleles on humoral and cellular immune responses in Ross population (P<0.05). Alleles 385 and 448bp were associated with increased peripheral blood lymphocyte proliferation response. Alleles 300, 362 and 448bp had a positive effect on immune responses to Infectious bursal disease vaccine, and allele 263bp was significantly correlated with elevated antibody titer against Newcastle disease vaccine. Results obtained from this study confirmed the important role of MHC as a candidate gene marker for immune responses that could be used in genetic improvement of disease-resistant traits and resource conservation in broiler population.
Collapse
Affiliation(s)
- Atefeh Esmailnejad
- Department of Pathobiology, School of Veterinary Medicine, Shiraz University, Shiraz, Iran
| | - Gholamreza Nikbakht Brujeni
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran.
| | - Maryam Badavam
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran
| |
Collapse
|
6
|
Nguyen-Phuc H, Fulton JE, Berres ME. Genetic variation of major histocompatibility complex (MHC) in wild Red Junglefowl (Gallus gallus). Poult Sci 2016; 95:400-11. [PMID: 26839415 DOI: 10.3382/ps/pev364] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2015] [Accepted: 10/27/2015] [Indexed: 01/09/2023] Open
Abstract
The major histocompatibility complex (MHC) is a multi-family gene cluster that encodes proteins with immuno-responsive function. While studies of MHC in domesticated poultry are relatively common, very little is known about this highly polymorphic locus in wild Red Junglefowl (Gallus gallus), the natural progenitor of domestic chickens. We investigated the diversity of MHC within and among four wild Red Junglefowl populations across diversified natural habitats in South Central Vietnam. Based on a SNP panel of 84 sites spanning 210 Kb of the MHC-B locus, we identified 310 unique haplotypes in 398 chromosomes. None of these haplotypes have been described before and we did not observe any of the wild Red Junglefowl haplotypes in domesticated chickens. Analysis of molecular variance (AMOVA) revealed that 94.51% of observed haplotype variation was accounted for at the within individual level. Little genetic variance was apportioned within and among populations, the latter accounting only for 0.83%. We also found evidence of increased recombination, including numerous hotspots, and limited linkage disequilibrium among the 84 SNP sites. Compared to an average haplotype diversity of 3.55% among seventeen lines of domestic chickens, our results suggest extraordinarily high haplotype diversity remains in wild Red Junglefowl and is consistent with a pattern of balancing selection. Wild Red Junglefowl in Vietnam, therefore, represent a rich resource of natural genomic variation independent from artificial selection.
Collapse
Affiliation(s)
- Hoa Nguyen-Phuc
- University of Wisconsin-Madison, Department of Animal Sciences, Madison, WI
| | | | - Mark E Berres
- University of Wisconsin-Madison, Department of Animal Sciences, Madison, WI
| |
Collapse
|
7
|
Fulton JE, McCarron AM, Lund AR, Pinegar KN, Wolc A, Chazara O, Bed'Hom B, Berres M, Miller MM. A high-density SNP panel reveals extensive diversity, frequent recombination and multiple recombination hotspots within the chicken major histocompatibility complex B region between BG2 and CD1A1. Genet Sel Evol 2016; 48:1. [PMID: 26743767 PMCID: PMC4705597 DOI: 10.1186/s12711-015-0181-x] [Citation(s) in RCA: 58] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2015] [Accepted: 12/23/2015] [Indexed: 11/22/2022] Open
Abstract
BACKGROUND The major histocompatibility complex (MHC) is present within the genomes of all jawed vertebrates. MHC genes are especially important in regulating immune responses, but even after over 80 years of research on the MHC, much remains to be learned about how it influences adaptive and innate immune responses. In most species, the MHC is highly polymorphic and polygenic. Strong and highly reproducible associations are established for chicken MHC-B haplotypes in a number of infectious diseases. Here, we report (1) the development of a high-density SNP (single nucleotide polymorphism) panel for MHC-B typing that encompasses a 209,296 bp region in which 45 MHC-B genes are located, (2) how this panel was used to define chicken MHC-B haplotypes within a large number of lines/breeds and (3) the detection of recombinants which contributes to the observed diversity. METHODS A SNP panel was developed for the MHC-B region between the BG2 and CD1A1 genes. To construct this panel, each SNP was tested in end-point read assays on more than 7500 DNA samples obtained from inbred and commercially used egg-layer lines that carry known and novel MHC-B haplotypes. One hundred and one SNPs were selected for the panel. Additional breeds and experimentally-derived lines, including lines that carry MHC-B recombinant haplotypes, were then genotyped. RESULTS MHC-B haplotypes based on SNP genotyping were consistent with the MHC-B haplotypes that were assigned previously in experimental lines that carry B2, B5, B12, B13, B15, B19, B21, and B24 haplotypes. SNP genotyping resulted in the identification of 122 MHC-B haplotypes including a number of recombinant haplotypes, which indicate that crossing-over events at multiple locations within the region lead to the production of new MHC-B haplotypes. Furthermore, evidence of gene duplication and deletion was found. CONCLUSIONS The chicken MHC-B region is highly polymorphic across the surveyed 209-kb region that contains 45 genes. Our results expand the number of identified haplotypes and provide insights into the contribution of recombination events to MHC-B diversity including the identification of recombination hotspots and an estimation of recombination frequency.
Collapse
Affiliation(s)
| | | | | | | | - Anna Wolc
- Hy-Line International, Dallas Center, IA, USA.
- Iowa State University, 239C Kildee, Ames, IA, 50011, USA.
| | - Olympe Chazara
- Department of Pathology and Centre for Trophoblast Research, University of Cambridge, Cambridge, UK.
- Génétique Animale et Biologie Intégrative, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France.
| | - Bertrand Bed'Hom
- Génétique Animale et Biologie Intégrative, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France.
| | - Mark Berres
- Department of Animal Sciences, University of Wisconsin, Madison, USA.
| | - Marcia M Miller
- Department of Molecular and Cellular Biology, Beckman Research Institute, City of Hope, Duarte, CA, USA.
| |
Collapse
|
8
|
Nikbakht G, Esmailnejad A. Chicken major histocompatibility complex polymorphism and its association with production traits. Immunogenetics 2015; 67:247-52. [DOI: 10.1007/s00251-015-0832-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2014] [Accepted: 02/17/2015] [Indexed: 10/23/2022]
|