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Blondeau Da Silva S, Mwacharo JM, Li M, Ahbara A, Muchadeyi FC, Dzomba EF, Lenstra JA, Da Silva A. IBD sharing patterns as intra-breed admixture indicators in small ruminants. Heredity (Edinb) 2024; 132:30-42. [PMID: 37919398 PMCID: PMC10799084 DOI: 10.1038/s41437-023-00658-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2022] [Revised: 10/18/2023] [Accepted: 10/18/2023] [Indexed: 11/04/2023] Open
Abstract
In this study, we investigated how IBD patterns shared between individuals of the same breed could be informative of its admixture level, with the underlying assumption that the most admixed breeds, i.e. the least genetically isolated, should have a much more fragmented genome. We considered 111 goat breeds (i.e. 2501 individuals) and 156 sheep breeds (i.e. 3304 individuals) from Europe, Africa and Asia, for which beadchip SNP genotypes had been performed. We inferred the breed's level of admixture from: (i) the proportion of the genome shared by breed's members (i.e. "genetic integrity level" assessed from ADMIXTURE software analyses), and (ii) the "AV index" (calculated from Reynolds' genetic distances), used as a proxy for the "genetic distinctiveness". In both goat and sheep datasets, the statistical analyses (comparison of means, Spearman correlations, LM and GAM models) revealed that the most genetically isolated breeds, also showed IBD profiles made up of more shared IBD segments, which were also longer. These results pave the way for further research that could lead to the development of admixture indicators, based on the characterization of intra-breed shared IBD segments, particularly effective as they would be independent of the knowledge of the whole genetic landscape in which the breeds evolve. Finally, by highlighting the fragmentation experienced by the genomes subjected to crossbreeding carried out over the last few generations, the study reminds us of the need to preserve local breeds and the integrity of their adaptive architectures that have been shaped over the centuries.
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Affiliation(s)
| | - Joram M Mwacharo
- Animal and Veterinary Sciences, Scotlands Rural College (SRUC) and Centre for Tropical Livestock Genetics and Health (CTLGH), The Roslin Institute Building, EH25 9RG, Midlothian, UK
- Small Ruminant Genomics, International Centre for Agricultural Research in the Dry Areas (ICARDA), P.O. Box 5689, Addis Ababa, Ethiopia
| | - Menghua Li
- College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China
| | - Abulgasim Ahbara
- Animal and Veterinary Sciences, Scotlands Rural College (SRUC) and Centre for Tropical Livestock Genetics and Health (CTLGH), The Roslin Institute Building, EH25 9RG, Midlothian, UK
- Department of Zoology, Faculty of Sciences, Misurata University, Misurata, Libya
| | | | - Edgar Farai Dzomba
- Discipline of Genetics, School of Life Sciences, University of KwaZulu-Natal, Private Bag X01, Scottsville, 3209, South Africa
| | - Johannes A Lenstra
- Faculty of Veterinary Medicine, Utrecht University, Utrecht, Netherlands
| | - Anne Da Silva
- Faculté des Sciences et Techniques de Limoges, E2LIM, 87000, Limoges, France.
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Guerrero A, Ferrero S, Barahona M, Boito B, Lisbinski E, Maggi F, Sañudo C. Effects of active edible coating based on thyme and garlic essential oils on lamb meat shelf life after long-term frozen storage. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2020; 100:656-664. [PMID: 31577841 DOI: 10.1002/jsfa.10061] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2019] [Revised: 09/16/2019] [Accepted: 09/17/2019] [Indexed: 05/27/2023]
Abstract
BACKGROUND The frozen preservation of lamb meat could be crucial for successful international trade. The shelf life of thawed meat is shorter than that of fresh meat, so techniques or procedures are required to improve post-thawing meat quality attributes. This study investigated the effect of alginate-based edible coatings after the incorporation of essential oils of thyme (Thymus vulgaris L.) and garlic (Allium sativum L.) on thawed lamb meat (longissimus thoracis et lumborum muscle) quality after long-term frozen storage. Meat samples came from ten light lambs and the evolution of attributes related to shelf life, such as water-holding capacity, color stability, and lipid oxidation, was monitored during display (1, 4 and 7 days). Four meat treatments were evaluated: control (CON, uncoated meat), edible coat of alginate meat (ECA), and ECA with thyme or garlic essential oils (0.05%) (THY and GAR). RESULTS The alginate-based edible coatings decreased exudative losses (P < 0.001) and modified color characteristics, especially increasing yellowness (P < 0.001) and chrome (P < 0.001). GAR decreased redness (P < 0.001) and the oxy/met ratio [R (630/580) wavelength light reflectance] or discoloration [R (630-580)]. THY was the treatment that best retained color during display and also showed a significantly lower lipid oxidation (P < 0.05) than CON and ECA, whereas GAR presented intermediate values. CONCLUSION The addition of bioactive essential oils to alginate-based edible coatings improved preservation and shelf life of lamb meat after thawing. © 2019 Society of Chemical Industry.
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Affiliation(s)
- Ana Guerrero
- Department of Animal Production and Food Science, Instituto Agroalimentario de Aragón- IA2 - (Universidad de Zaragoza-CITA), Zaragoza, Spain
| | - Sofía Ferrero
- Department of Animal Production and Food Science, Instituto Agroalimentario de Aragón- IA2 - (Universidad de Zaragoza-CITA), Zaragoza, Spain
| | - Marta Barahona
- Department of Animal Production and Food Science, Instituto Agroalimentario de Aragón- IA2 - (Universidad de Zaragoza-CITA), Zaragoza, Spain
| | - Bruna Boito
- Department of Animal Production and Food Science, Instituto Agroalimentario de Aragón- IA2 - (Universidad de Zaragoza-CITA), Zaragoza, Spain
| | - Eduardo Lisbinski
- Department of Animal Production and Food Science, Instituto Agroalimentario de Aragón- IA2 - (Universidad de Zaragoza-CITA), Zaragoza, Spain
| | - Filippo Maggi
- School of Pharmacy, University of Camerino, Camerino, Italy
| | - Carlos Sañudo
- Department of Animal Production and Food Science, Instituto Agroalimentario de Aragón- IA2 - (Universidad de Zaragoza-CITA), Zaragoza, Spain
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