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Raschia MA, Maizon DO, Amadio AF, Nani JP, Poli MA. Quantitative trait loci exploration and characterization of gestation length in Holstein cattle. Theriogenology 2024; 215:43-49. [PMID: 38006854 DOI: 10.1016/j.theriogenology.2023.11.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 11/07/2023] [Accepted: 11/10/2023] [Indexed: 11/27/2023]
Abstract
Gestation length (GL) is a moderately heritable trait in cattle with economic and management implications. This study aimed to characterize the gestation length of an Argentinian Holstein cattle population, understand contributing factors, and explore the GL effect on production performance. Further objectives were to estimate direct and maternal heritabilities for this trait and to identify genomic regions affecting it. Data consisted of GL records from 45,738 births corresponding to 17,004 Holstein cows and heifers. The effects of age and calving season over GL were analyzed using a Student's t-test for homoscedastic samples. The effects of the GL category (GL shorter than 1.5 SD, within ±1.5 SD, and longer than 1.5 SD from the mean) on production performance were studied by analysis of variance. A single-step genome-wide association study was performed using the BLUPF90 suite of programs with genotypes from 654 Holstein animals on 40,339 SNP. The results showed that the younger the age at calving, the shorter the GL. Moreover, gestations ending in warmer seasons were, in general, statistically shorter than those ending in colder seasons for both heifers and cows. Regarding the effect of GL on production performance, cows with gestation periods within ±1.5 SD from the population mean exhibited the highest 305-day cumulative milk, fat, and protein productions. Direct and maternal heritabilities for GL were 0.42 and 0.03, respectively. We detected a SNP suggestively associated with direct gestation length at 57.7 Mb on Bos taurus autosome 18, a locus included in a region described in the literature as associated with the trait. The information obtained on the environmental and genetic factors affecting GL in Argentinian Holstein cows contributes to characterizing the population in pursuit of improving the performance of national dairy cattle breeding systems.
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Affiliation(s)
- M A Raschia
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética "Ewald A. Favret", Nicolás Repetto y de Los Reseros s/n, Hurlingham, (B1686), Buenos Aires, Argentina.
| | - D O Maizon
- Instituto Nacional de Tecnología Agropecuaria, E.E.A. Anguil, Ruta 5 Km 580, Anguil, (6326), La Pampa, Argentina
| | - A F Amadio
- Instituto Nacional de Tecnología Agropecuaria, E.E.A. Rafaela, Ruta 34 Km 227, Rafaela, (S2300), Santa Fe, Argentina; Consejo Nacional de Investigaciones Científicas y Técnicas, Argentina
| | - J P Nani
- ABS Global, 1525 River Rd, DeForest, WI, 53532, United States
| | - M A Poli
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética "Ewald A. Favret", Nicolás Repetto y de Los Reseros s/n, Hurlingham, (B1686), Buenos Aires, Argentina; Universidad del Salvador, Facultad de Ciencias Agrarias y Veterinaria, Champagnat 1599, B1630AHU Pilar, Campus del Pilar, Argentina
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Raschia MA, Caffaro ME, Rossi ÚA, Poli MA. Modification of a previously patented method to unequivocally score A2-like and A1-like bovine β-casein variants. MethodsX 2023; 10:102183. [PMID: 37424753 PMCID: PMC10326427 DOI: 10.1016/j.mex.2023.102183] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Accepted: 04/13/2023] [Indexed: 07/11/2023] Open
Abstract
A growing interest in the production and commercialization of A2 cow's milk has been observed in many countries in the last few years due to the beneficial properties for human health attributed to A2 β-casein variant. Methods of varying complexity and different equipment requirements have been proposed for the determination of the β-casein genotype of individual cows. We proposed herein a modification of a previously patented method based on an amplification-created restriction site PCR followed by restriction fragment length polymorphism analysis. This method allows to identify and differentiate A2-like from A1-like β-casein variants, after differential endonuclease cleavage flanking the nucleotide that determines the amino acid at position 67 of β-casein. The advantages of this method are that it: • enables to unequivocally score A2-like as well as A1-like β-casein variants, • can be performed at low cost in simply equipped molecular biology laboratories, and • can be scaled up to analyze hundreds of samples per day. For these reasons, and based on the results obtained from the analysis carried out in this work, it showed to be a reliable method for the screening of herds to selective breeding of homozygous cows and bulls for A2 or A2-like alleles.
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Affiliation(s)
- María Agustina Raschia
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética “Ewald A. Favret”. Nicolás Repetto y de Los Reseros s/n, Hurlingham B1686, Buenos Aires, Argentina
| | - María Eugenia Caffaro
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética “Ewald A. Favret”. Nicolás Repetto y de Los Reseros s/n, Hurlingham B1686, Buenos Aires, Argentina
| | - Úrsula Amaranta Rossi
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Patobiología-IPVET (UEDD INTA-CONICET), Nicolás Repetto y de Los Reseros s/n, Hurlingham B1686, Buenos Aires, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Buenos Aires, Argentina
| | - Mario Andrés Poli
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética “Ewald A. Favret”. Nicolás Repetto y de Los Reseros s/n, Hurlingham B1686, Buenos Aires, Argentina
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Ceccobelli S, Landi V, Senczuk G, Mastrangelo S, Sardina MT, Ben-Jemaa S, Persichilli C, Karsli T, Bâlteanu VA, Raschia MA, Poli MA, Ciappesoni G, Muchadeyi FC, Dzomba EF, Kunene NW, Lühken G, Deniskova TE, Dotsev AV, Zinovieva NA, Zsolnai A, Anton I, Kusza S, Carolino N, Santos-Silva F, Kawęcka A, Świątek M, Niżnikowski R, Špehar M, Anaya G, Granero A, Perloiro T, Cardoso P, Grande S, de Los Santos BL, Danchin-Burge C, Pasquini M, Martínez Martínez A, Delgado Bermejo JV, Lasagna E, Ciani E, Sarti FM, Pilla F. A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino-derived sheep breeds. Genet Sel Evol 2023; 55:24. [PMID: 37013467 PMCID: PMC10069132 DOI: 10.1186/s12711-023-00797-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Accepted: 03/24/2023] [Indexed: 04/05/2023] Open
Abstract
BACKGROUND To enhance and extend the knowledge about the global historical and phylogenetic relationships between Merino and Merino-derived breeds, 19 populations were genotyped with the OvineSNP50 BeadChip specifically for this study, while an additional 23 populations from the publicly available genotypes were retrieved. Three complementary statistical tests, Rsb (extended haplotype homozygosity between-populations), XP-EHH (cross-population extended haplotype homozygosity), and runs of homozygosity (ROH) islands were applied to identify genomic variants with potential impact on the adaptability of Merino genetic type in two contrasting climate zones. RESULTS The results indicate that a large part of the Merino's genetic relatedness and admixture patterns are explained by their genetic background and/or geographic origin, followed by local admixture. Multi-dimensional scaling, Neighbor-Net, Admixture, and TREEMIX analyses consistently provided evidence of the role of Australian, Rambouillet and German strains in the extensive gene introgression into the other Merino and Merino-derived breeds. The close relationship between Iberian Merinos and other South-western European breeds is consistent with the Iberian origin of the Merino genetic type, with traces from previous contributions of other Mediterranean stocks. Using Rsb and XP-EHH approaches, signatures of selection were detected spanning four genomic regions located on Ovis aries chromosomes (OAR) 1, 6 and 16, whereas two genomic regions on OAR6, that partially overlapped with the previous ones, were highlighted by ROH islands. Overall, the three approaches identified 106 candidate genes putatively under selection. Among them, genes related to immune response were identified via the gene interaction network. In addition, several candidate genes were found, such as LEKR1, LCORL, GHR, RBPJ, BMPR1B, PPARGC1A, and PRKAA1, related to morphological, growth and reproductive traits, adaptive thermogenesis, and hypoxia responses. CONCLUSIONS To the best of our knowledge, this is the first comprehensive dataset that includes most of the Merino and Merino-derived sheep breeds raised in different regions of the world. The results provide an in-depth picture of the genetic makeup of the current Merino and Merino-derived breeds, highlighting the possible selection pressures associated with the combined effect of anthropic and environmental factors. The study underlines the importance of Merino genetic types as invaluable resources of possible adaptive diversity in the context of the occurring climate changes.
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Affiliation(s)
- Simone Ceccobelli
- Department of Agricultural, Food and Environmental Sciences, Università Politecnica delle Marche, 60131, Ancona, Italy.
| | - Vincenzo Landi
- Department of Veterinary Medicine, University of Bari ''Aldo Moro", 70010, Valenzano, Italy
| | - Gabriele Senczuk
- Department of Agricultural, Environmental and Food Sciences, University of Molise, 86100, Campobasso, Italy
| | - Salvatore Mastrangelo
- Department of Agricultural, Food and Forest Sciences, University of Palermo, 90128, Palermo, Italy
| | - Maria Teresa Sardina
- Department of Agricultural, Food and Forest Sciences, University of Palermo, 90128, Palermo, Italy
| | - Slim Ben-Jemaa
- Laboratoire des Productions Animales et Fourragères, Institut National de la Recherche Agronomique de Tunisie, Université de Carthage, 2049, Ariana, Tunisia
| | - Christian Persichilli
- Department of Agricultural, Environmental and Food Sciences, University of Molise, 86100, Campobasso, Italy
| | - Taki Karsli
- Department of Animal Science, Faculty of Agriculture, Eskisehir Osmangazi University, 26040, Eskisehir, Turkey
| | - Valentin-Adrian Bâlteanu
- Laboratory of Genomics, Biodiversity, Animal Breeding and Molecular Pathology, Institute of Life Sciences, University of Agricultural Sciences and Veterinary Medicine of Cluj-Napoca, 400372, Cluj-Napoca, Romania
| | - María Agustina Raschia
- Instituto de Genética "Ewald A. Favret", Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, B1686, Hurlingham, Buenos Aires, Argentina
| | - Mario Andrés Poli
- Instituto de Genética "Ewald A. Favret", Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, B1686, Hurlingham, Buenos Aires, Argentina
| | - Gabriel Ciappesoni
- Instituto Nacional de Investigación Agropecuaria, 90200, Canelones, Uruguay
| | | | - Edgar Farai Dzomba
- Discipline of Genetics, School of Life Sciences, University of KwaZulu-Natal, 3209, Scottsville, Pietermaritzburg, South Africa
| | | | - Gesine Lühken
- Institute of Animal Breeding and Genetics, Justus Liebig University, 35390, Giessen, Germany
| | | | | | | | - Attila Zsolnai
- Department of Animal Breeding, Institute of Animal Science, Hungarian University of Agriculture and Life Sciences, Kaposvár Campus, 2053, Herceghalom, Hungary
| | - István Anton
- Department of Animal Breeding, Institute of Animal Science, Hungarian University of Agriculture and Life Sciences, Kaposvár Campus, 2053, Herceghalom, Hungary
| | - Szilvia Kusza
- Centre for Agricultural Genomics and Biotechnology, Faculty of Agricultural and Food Sciences and Environmental Management, University of Debrecen, 4032, Debrecen, Hungary
| | - Nuno Carolino
- Instituto Nacional de Investigação Agrária e Veterinária, 2005-048, Vale de Santarém, Portugal
| | - Fátima Santos-Silva
- Instituto Nacional de Investigação Agrária e Veterinária, 2005-048, Vale de Santarém, Portugal
| | - Aldona Kawęcka
- Department of Sheep and Goat Breeding, National Research Institute of Animal Production, 32-083, Kraków, Poland
| | - Marcin Świątek
- Department of Animal Breeding, Institute of Animal Sciences, Warsaw University of Life Sciences-SGGW, 02-786, Warsaw, Poland
| | - Roman Niżnikowski
- Department of Animal Breeding, Institute of Animal Sciences, Warsaw University of Life Sciences-SGGW, 02-786, Warsaw, Poland
| | - Marija Špehar
- Croatian Agency for Agriculture and Food, 10000, Zagreb, Croatia
| | - Gabriel Anaya
- MERAGEM Group, Department of Genetics, University of Córdoba, 14071, Córdoba, Spain
| | - Antonio Granero
- Asociación Nacional de Criadores de Ganado Merino (ACME), 28028, Madrid, Spain
| | - Tiago Perloiro
- Associação Nacional de Criadores de Ovinos da Raça Merina (ANCORME), 7005-665, Évora, Portugal
| | - Pedro Cardoso
- Associação de Produtores Agropecuários (OVIBEIRA), 6000-244, Castelo Branco, Portugal
| | - Silverio Grande
- Associazione Nazionale della Pastorizia (ASSONAPA), 00187, Rome, Italy
| | | | | | - Marina Pasquini
- Department of Agricultural, Food and Environmental Sciences, Università Politecnica delle Marche, 60131, Ancona, Italy
| | | | | | - Emiliano Lasagna
- Department of Agricultural, Food and Environmental Sciences, University of Perugia, 06121, Perugia, Italy
| | - Elena Ciani
- Department of Bioscience, Biotechnology and Biopharmaceutics, University of Bari "Aldo Moro", 70124, Bari, Italy
| | - Francesca Maria Sarti
- Department of Agricultural, Food and Environmental Sciences, University of Perugia, 06121, Perugia, Italy
| | - Fabio Pilla
- Department of Agricultural, Environmental and Food Sciences, University of Molise, 86100, Campobasso, Italy
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Raschia MA, Ríos PJ, Maizon DO, Demitrio D, Poli MA. Methodology for the identification of relevant loci for milk traits in dairy cattle, using machine learning algorithms. MethodsX 2022; 9:101733. [PMID: 35637693 PMCID: PMC9144035 DOI: 10.1016/j.mex.2022.101733] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2022] [Accepted: 05/11/2022] [Indexed: 11/29/2022] Open
Abstract
Machine learning methods were considered efficient in identifying single nucleotide polymorphisms (SNP) underlying a trait of interest. This study aimed to construct predictive models using machine learning algorithms, to identify loci that best explain the variance in milk traits of dairy cattle. Further objectives involved validating the results by comparison with reported relevant regions and retrieving the pathways overrepresented by the genes flanking relevant SNPs. Regression models using XGBoost (XGB), LightGBM (LGB), and Random Forest (RF) algorithms were trained using estimated breeding values for milk production (EBVM), milk fat content (EBVF) and milk protein content (EBVP) as phenotypes and genotypes on 40417 SNPs as predictor variables. To evaluate their efficiency, metrics for actual vs. predicted values were determined in validation folds (XGB and LGB) and out-of-bag data (RF). Less than 4500 relevant SNPs were retrieved for each trait. Among the genes flanking them, signaling and transmembrane transporter activities were overrepresented. The models trained:Predicted breeding values for animals not included in the dataset. Were efficient in identifying a subset of SNPs explaining phenotypic variation.
The results obtained using XGB and LGB algorithms agreed with previous results. Therefore, the method proposed could be applied for future association studies on milk traits.
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Affiliation(s)
- María Agustina Raschia
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética “Ewald A. Favret”. Hurlingham, Buenos Aires, Argentina
- Corresponding author.
| | - Pablo Javier Ríos
- Universidad de Buenos Aires, Buenos Aires, Argentina
- Facultad de Ciencias Exactas, Universidad Nacional de La Plata, Argentina
| | - Daniel Omar Maizon
- Instituto Nacional de Tecnología Agropecuaria, E.E.A. Anguil. Anguil, La Pampa, Argentina
- Facultad de Agronomía, Universidad Nacional de La Pampa, Argentina
| | - Daniel Demitrio
- Instituto Nacional de Tecnología Agropecuaria, Dirección General de Sistemas de Información, Comunicación y Procesos - Gerencia de Informática y Gestión de la Información. Buenos Aires, Argentina
- Facultad de Ciencias Exactas, Universidad Nacional de La Plata, Argentina
| | - Mario Andrés Poli
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética “Ewald A. Favret”. Hurlingham, Buenos Aires, Argentina
- Facultad de Ciencias Agrarias y Veterinarias, Universidad del Salvador, Argentina
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Raschia MA, Donzelli MV, Medus PD, Cetrá BM, Maizon DO, Suarez VH, Pichler R, Periasamy K, Poli MA. Single nucleotide polymorphisms from candidate genes associated with nematode resistance and resilience in Corriedale and Pampinta sheep in Argentina. Gene 2020; 770:145345. [PMID: 33333217 DOI: 10.1016/j.gene.2020.145345] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Revised: 10/29/2020] [Accepted: 12/01/2020] [Indexed: 12/24/2022]
Abstract
Selective breeding of genetically resistant animals is considered a promising strategy to face the problem of nematode resistance to anthelmintics and mitigate concerns about the presence of chemical residues in animal food products and the environment. Gastrointestinal nematode resistance is a complex, multifactorial trait related to host immunity. However, the mechanisms underlying host resistance and response to infection remain to be fully elucidated. In this context, the objective of this study was to provide insight into the chromosomal regions determining nematode resistance and resilience in Corriedale and resistance in Pampinta sheep breeds. A total of 170 single nucleotide polymorphisms (SNP) from 76 candidate genes for immune response were studied in 624 Corriedale and 304 Pampinta animals. Lambs underwent artificial or natural challenges with infective larvae mainly from Haemonchus contortus. Fecal egg counts, estimated breeding values for fecal egg counts, and rate of packed cell volume change and FAMACHA© score change over the challenge were used, when available, as indicators of host parasite resistance or resilience. Phenotype-genotype association studies were conducted and significance values obtained were adjusted for multiple testing errors. Eight SNPs, located on OARs 3, 6, 12, and 20, reached significance in Corriedale sheep under artificial challenge. Those SNP represent allelic variants from the MHC-Ovine Lymphocyte Antigen-DRA, two C-type lectin domain families, the Interleukin 2 receptor β, the Toll-like receptor 10, the Mannan binding lectin serine peptidase 2, and the NLR family, CARD domain containing 4 genes. On Pampinta lambs under natural challenge, we found three significant SNPs, located in the TIMP metallopeptidase inhibitor 3, the FBJ murine osteosarcoma viral oncogene homolog, and the Interleukin 20 receptor alpha genes, on OARs 3, 7, and 8, respectively. The results obtained herein confirm genomic regions previously reported as associated with nematode resistance in other sheep breeds, reinforcing their role in host response to parasites. These findings contribute to gain knowledge on parasite resistance and resilience in Corriedale sheep and report for the first time SNPs associated with resistance to gastrointestinal parasite infections in Pampinta breed.
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Affiliation(s)
- María Agustina Raschia
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética "Ewald A. Favret", Nicolás Repetto y de Los Reseros s/n, Hurlingham (B1686), Buenos Aires, Argentina; Animal Production and Health Section, Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture, International Atomic Energy Agency, Vienna, Austria.
| | - María Valeria Donzelli
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética "Ewald A. Favret", Nicolás Repetto y de Los Reseros s/n, Hurlingham (B1686), Buenos Aires, Argentina
| | - Pablo Daniel Medus
- Instituto Nacional de Tecnología Agropecuaria, E.E.A. Concepción del Uruguay, RP 39 Km 143.5, Concepción del Uruguay (3260), Entre Ríos, Argentina
| | - Bibiana M Cetrá
- Instituto Nacional de Tecnología Agropecuaria, E.E.A. Mercedes, Juan Pujol al Este s/n, Mercedes (3470), Corrientes, Argentina
| | - Daniel O Maizon
- Instituto Nacional de Tecnología Agropecuaria, E.E.A. Anguil, Ruta 5 Km 580, Anguil (6326), La Pampa, Argentina
| | - Víctor H Suarez
- Instituto Nacional de Tecnología Agropecuaria, E.E.A. Salta, RN 68 Km 172, Cerrillos (4403), Salta, Argentina
| | - Rudolf Pichler
- Animal Production and Health Section, Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture, International Atomic Energy Agency, Vienna, Austria
| | - Kathiravan Periasamy
- Animal Production and Health Section, Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture, International Atomic Energy Agency, Vienna, Austria; Animal Genetics Resources Branch, Animal Production and Health Division, Food and Agriculture Organization of the United Nations, Rome, Italy
| | - Mario A Poli
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética "Ewald A. Favret", Nicolás Repetto y de Los Reseros s/n, Hurlingham (B1686), Buenos Aires, Argentina
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Hasenauer FC, Rossi UA, Caffaro ME, Raschia MA, Maurizio E, Poli MA, Rossetti CA. Association of TNF rs668920841 and INRA111 polymorphisms with caprine brucellosis: A case-control study of candidate genes involved in innate immunity. Genomics 2020; 112:3925-3932. [PMID: 32629097 DOI: 10.1016/j.ygeno.2020.06.050] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2020] [Revised: 05/25/2020] [Accepted: 06/28/2020] [Indexed: 01/24/2023]
Abstract
Caprine brucellosis is an infectious, contagious zoonotic disease caused by Brucella melitensis. Multiple factors, including host genetics, can influence the outcome of the exposure to Brucella; and it is expected that genetic variants that affect the host innate immune response could have a key role in Brucella infection and pathogenesis. In this study, we evaluated if polymorphisms in innate immunity-related genes are associated with results of Brucella infection in goats. Nine polymorphisms within interferon gamma (IFNG), tumor necrosis factor (TNF), MyD88 innate immune signal transduction adaptor (MYD88), interleukin 10 (IL10) and IL-10 receptor subunit alpha (IL10RA) genes and two molecular markers (BMS2753 and INRA111) were resolved by PCR-capillary electrophoresis in samples from 81 seronegative and 61 seropositive goats for brucellosis. A heterozygous genotype at INRA111, a microsatellite near the VRK serine/threonine kinase 2 (VRK2) gene, was associated with absence of Brucella-specific antibodies in goats naturally exposed to the pathogen (P = .004). Conversely, variants in the TNF gene (rs668920841) and near the IFN gamma receptor 1 (IFNGR1) gene (microsatellite BMS2753) were significantly associated with presence of Brucella-specific antibodies at allelic (P = .042 and P = .046) and genotypic level (P = .012 and P = .041, respectively). Moreover, an in silico analysis predicted a functional role of the insertion-deletion polymorphism rs668920841 on the transcriptional regulation of the caprine TNF gene. Altogether, these results contribute to the identification of genetic factors that have a putative effect on the resistance / susceptibility phenotype of goats to Brucella infection.
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Affiliation(s)
- F C Hasenauer
- Instituto de Patobiología, CICVyA, INTA, Nicolás Repetto y de Los Reseros s/n, Hurlingham, B1686, Buenos Aires, Argentina; CONICET, Godoy Cruz 2290, C1425 CABA, Argentina
| | - U A Rossi
- Instituto de Patobiología, CICVyA, INTA, Nicolás Repetto y de Los Reseros s/n, Hurlingham, B1686, Buenos Aires, Argentina; CONICET, Godoy Cruz 2290, C1425 CABA, Argentina
| | - M E Caffaro
- Instituto de Genética "Ewald A. Favret", CICVyA, INTA, Nicolás Repetto y de Los Reseros s/n, Hurlingham, B1686, Buenos Aires, Argentina
| | - M A Raschia
- Instituto de Genética "Ewald A. Favret", CICVyA, INTA, Nicolás Repetto y de Los Reseros s/n, Hurlingham, B1686, Buenos Aires, Argentina
| | - E Maurizio
- Instituto de Patobiología, CICVyA, INTA, Nicolás Repetto y de Los Reseros s/n, Hurlingham, B1686, Buenos Aires, Argentina; CONICET, Godoy Cruz 2290, C1425 CABA, Argentina
| | - M A Poli
- Instituto de Genética "Ewald A. Favret", CICVyA, INTA, Nicolás Repetto y de Los Reseros s/n, Hurlingham, B1686, Buenos Aires, Argentina
| | - C A Rossetti
- Instituto de Patobiología, CICVyA, INTA, Nicolás Repetto y de Los Reseros s/n, Hurlingham, B1686, Buenos Aires, Argentina.
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Caffaro ME, Raschia MA, Amadio AF, Poli MA. Generalized glycogenosis in Brahman-derived breeds: diagnosis and prevalence in Argentina. Trop Anim Health Prod 2019; 52:483-488. [PMID: 31377960 DOI: 10.1007/s11250-019-02026-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2018] [Accepted: 07/24/2019] [Indexed: 11/26/2022]
Abstract
Generalized glycogenosis is a lethal autosomal recessive disease caused by a deficient activity of the acidic 1,4-α-glucosidase enzyme and characterized by an accumulation of glycogen within lysosomes. Three mutations in the GAA gene causing bovine generalized glycogenosis have been identified in two cattle breeds, Brahman and Shorthorn. The objective of this study was to evaluate the prevalence of carriers of the E7 mutation in the GAA gene in Argentinean Brahman-derived herds. A total of 930 Braford, 94 Brangus, and 8 Brahman samples were analyzed. The genotyping was done by polymerase chain reaction and restriction fragment length polymorphism (PCR/RFLP). We found that 12.02% (95% CI 12.00-12.04) of the total number of samples received were heterozygous (i.e., carriers) for the E7 mutation, while 12.58% (95% CI 12.56-12.60) of the Braford, 6.38% (95% CI 6.26-6.51) of the Brangus, and 12.50% (95% CI 9.82-15.18) of the Brahman samples were carriers of this loss-of-function allele. Neither breed nor sex were significantly associated to the presence of the mutation. The prevalence informed in this study is similar to the average prevalence reported for Australian Brahmans. The finding of heterozygous animals suggests that breeders and insemination centers should continue screening their herds to minimize the dissemination of this deleterious allele.
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Affiliation(s)
- María Eugenia Caffaro
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética "Ewald A. Favret", Nicolás Repetto y de Los Reseros s/n, Hurlingham (B1686), Buenos Aires, Argentina.
| | - María Agustina Raschia
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética "Ewald A. Favret", Nicolás Repetto y de Los Reseros s/n, Hurlingham (B1686), Buenos Aires, Argentina.
| | - Ariel Fernando Amadio
- Instituto Nacional de Tecnología Agropecuaria, E.E.A. Rafaela. Ruta 34 Km 227, Rafaela, Santa Fe, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Buenos Aires, Argentina
| | - Mario Andrés Poli
- Instituto Nacional de Tecnología Agropecuaria, CICVyA-CNIA, Instituto de Genética "Ewald A. Favret", Nicolás Repetto y de Los Reseros s/n, Hurlingham (B1686), Buenos Aires, Argentina
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Raschia MA, Nani JP, Maizon DO, Beribe MJ, Amadio AF, Poli MA. Single nucleotide polymorphisms in candidate genes associated with milk yield in Argentinean Holstein and Holstein x Jersey cows. J Anim Sci Technol 2018; 60:31. [PMID: 30564433 PMCID: PMC6291960 DOI: 10.1186/s40781-018-0189-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/26/2018] [Accepted: 12/03/2018] [Indexed: 12/04/2022]
Abstract
BACKGROUND Research on loci influencing milk production traits of dairy cattle is one of the main topics of investigation in livestock. Many genomic regions and polymorphisms associated with dairy production have been reported worldwide. In this context, the purpose of this study was to identify candidate loci associated with milk yield in Argentinean dairy cattle. A database of candidate genes and single nucleotide polymorphisms (SNPs) for milk production and composition was developed. Thirty-nine SNPs belonging to 22 candidate genes were genotyped on 1643 animals (Holstein and Holstein x Jersey). The genotypes obtained were subjected to association studies considering the whole population and discriminating the population by Holstein breed percentage. Phenotypic data consisted of milk production values recorded during the first lactation of 1156 Holstein and 462 Holstein x Jersey cows from 18 dairy farms located in the central dairy area of Argentina. From these records, 305-day cumulative milk production values were predicted. RESULTS Eight SNPs (rs43375517, rs29004488, rs132812135, rs137651874, rs109191047, rs135164815, rs43706485, and rs41255693), located on six Bos taurus autosomes (BTA4, BTA6, BTA19, BTA20, BTA22, and BTA26), showed suggestive associations with 305-day cumulative milk production (under Benjamini-Hochberg procedure with a false discovery rate of 0.1). Two of those SNPs (rs43375517 and rs135164815) were significantly associated with milk production (Bonferroni adjusted p-values < 0.05) when considering the Holstein population. CONCLUSIONS The results obtained are consistent with previously reported associations in other Holstein populations. Furthermore, the SNPs found to influence bovine milk production in this study may be used as possible candidate SNPs for marker-assisted selection programs in Argentinean dairy cattle.
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Affiliation(s)
- María Agustina Raschia
- Instituto Nacional de Tecnología Agropecuaria (INTA), Centro de Investigación en Ciencias Veterinarias y Agronómicas (CICVyA), Instituto de Genética “Ewald A. Favret”, Nicolás Repetto y de los Reseros s/n, Hurlingham, B1686 Argentina
| | - Juan Pablo Nani
- Instituto Nacional de Tecnología Agropecuaria (INTA), Estación Experimental Agropecuaria Rafaela, Ruta Nacional 34 Km 227, Rafaela, Argentina
| | - Daniel Omar Maizon
- Instituto Nacional de Tecnología Agropecuaria (INTA), Estación Experimental Agropecuaria Anguil, Ruta Nacional 5 Km 580, Anguil, Argentina
| | - María José Beribe
- Instituto Nacional de Tecnología Agropecuaria (INTA), Estación Experimental Agropecuaria Pergamino, Ruta 32 Km 4.5, Pergamino, Argentina
| | - Ariel Fernando Amadio
- Instituto Nacional de Tecnología Agropecuaria (INTA), Estación Experimental Agropecuaria Rafaela, Ruta Nacional 34 Km 227, Rafaela, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Ciudad Autónoma de Buenos Aires, Argentina
| | - Mario Andrés Poli
- Instituto Nacional de Tecnología Agropecuaria (INTA), Centro de Investigación en Ciencias Veterinarias y Agronómicas (CICVyA), Instituto de Genética “Ewald A. Favret”, Nicolás Repetto y de los Reseros s/n, Hurlingham, B1686 Argentina
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9
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Maiztegui B, Borelli MI, Raschia MA, Del Zotto H, Gagliardino JJ. Islet adaptive changes to fructose-induced insulin resistance: beta-cell mass, glucokinase, glucose metabolism, and insulin secretion. J Endocrinol 2009; 200:139-49. [PMID: 19039094 DOI: 10.1677/joe-08-0386] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
Beta-cell mass, hexokinase/glucokinase (HK/GK) activity, glucose metabolism and insulin secretion were studied in the islets of rats with fructose-induced insulin resistance (IR). Normal male Wistar rats were fed a standard commercial diet and water without (control, C) or with 10% fructose-rich diet (FRD) for 3 weeks. Blood glucose (strips), triglyceride (commercial kit), and insulin (RIA) levels were measured at the time of death. Glucose-induced insulin release, glucose metabolism ((14)CO(2) and (3)H(2)O production from D-[U-(14)C]- and D-[5-(3)H]-glucose) and HK/GK activity (G-6-P production), transcription (RT-PCR), protein expression (Western blot), and cellular compartmentalization were measured in isolated islets (collagenase digestion). FRD rats presented normoglycemia but impaired glucose tolerance, hypertriglyceridemia, hyperinsulinemia, and increased HOMA-IR index. In these rats, beta-cell mass decreased significantly by 33%, with a 44% increase in the percentage of apoptotic cells. Glucose-induced insulin release and islet glucose metabolism were higher in FRD rats. While GK activity (total and cytosolic fraction) and protein expression were significantly higher in FRD islets, HK showed no change in any of these parameters. Our results demonstrate that the changes induced by dietary-induced IR upon beta-cell function and mass are strongly conditional on the nutrient model used. In our model (intact animals with impaired glucose tolerance), GK activity increases through mechanisms previously shown only in vitro or under highly hyperglycemic conditions. Such an increase plays a pivotal role in the adaptive increased release of insulin in response to IR, even in the presence of marked beta-cell mass reduction.
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Affiliation(s)
- B Maiztegui
- CENEXA, Centro de Endocrinología Experimental y Aplicada (UNLP-CCT LA PLATA-CONICET, Centro Colaborador OPS/OMS en Diabetes), Facultad de Ciencias Médicas, 60 y 120, 1900 La Plata, Argentina
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