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Ovine mammary morphology and associations with milk production, milkability and animal selection. Small Rumin Res 2020. [DOI: 10.1016/j.smallrumres.2019.10.010] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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Perucho L, Paoli JC, Ligda C, Moulin CH, Hadjigeorgiou I, Lauvie A. Diversity of breeding practices is linked to the use of collective tools for the genetic management of the Corsican sheep breed. ITALIAN JOURNAL OF ANIMAL SCIENCE 2020. [DOI: 10.1080/1828051x.2020.1713027] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- Lola Perucho
- Laboratoire de Recherches sur le Développement de l’Elevage (UR LRDE), INRA, Corte, France
| | - Jean-Christophe Paoli
- Laboratoire de Recherches sur le Développement de l’Elevage (UR LRDE), INRA, Corte, France
| | - Christina Ligda
- Ινστιτούτο Κτηνιατρικών Ερευνών, Hellenic Agricultural Organisation, Θεσσαλονίκη, Greece, Thessaloniki, Greece
| | - Charles-Henri Moulin
- INRA – CIRAD – MontpellierSupAgro, UMR Systèmes d’élevage Méditerranéens et Tropicaux (SELMET), Montpellier, France
| | - Ioannis Hadjigeorgiou
- Τμήμα Επιστήμης Ζωϊκής Παραγωγής και Υδατοκαλλιεργειών, Agricultural University of Athens, Αθήνα, Greece
| | - Anne Lauvie
- INRA – CIRAD – MontpellierSupAgro, UMR Systèmes d’élevage Méditerranéens et Tropicaux (SELMET), Montpellier, France
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Álvarez I, Fernández I, Soudré A, Traoré A, Pérez-Pardal L, Sanou M, Tapsoba SAR, Menéndez-Arias NA, Goyache F. Identification of genomic regions and candidate genes of functional importance for gastrointestinal parasite resistance traits in Djallonké sheep of Burkina Faso. Arch Anim Breed 2019; 62:313-323. [PMID: 31807642 PMCID: PMC6853132 DOI: 10.5194/aab-62-313-2019] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2019] [Accepted: 05/15/2019] [Indexed: 01/29/2023] Open
Abstract
A total of 184 Djallonké lambs from Burkina Faso with phenotypes for packed-cell volume (PCV), log-transformed fecal egg count (lnFEC), and FAffa MAlan CHArt (FAMACHA©) eye scores were typed with the OvineSNP50 BeadChip of Illumina to contribute to the knowledge of the genetic basis of gastrointestinal (GIN) parasite resistance in sheep. Association analysis identified a total of 22 single-nucleotide polymorphisms (SNPs) related with PCV (6 SNPs), lnFEC (7), and FAMACHA scores (9) distributed among 14 Ovis aries chromosomes (OAR). The identified SNPs accounted for 18.76 % of the phenotypic variance for PCV, 21.24 % for lnFEC, and 34.38 % for FAMACHA scores. Analyses pointed out the importance of OAR2 for PCV, OAR3 for FAMACHA scores, and OAR6 for lnFEC. The 125 kb regions surrounding the identified SNPs overlapped with seven previously reported quantitative trait loci (QTLs) for the traits analyzed in the current work. The only chromosome harboring markers associated with the three traits studied was OAR2. In agreement with the literature, two different chromosomal areas on OAR2 can play a major role in the traits studied. Gene-annotation enrichment analysis allowed us to identify a total of 34 potential candidate genes for PCV (6 genes), lnFEC (4), and FAMACHA scores (24). Annotation analysis allowed us to identify one functional term cluster with a significant enrichment score (1.302). The cluster included five genes (TRIB3, CDK4, CSNK2A1, MARK1, and SPATA5) involved in immunity-related and cell-proliferation processes. Furthermore, this research suggests that the MBL2 gene can underlie a previously reported QTL for immunoglobulin A levels on OAR22 and confirms the importance of genes involved in growth and size (such as the ADAMTS17 gene on OAR18) for GIN resistance traits. Since association studies for the ascertainment of the genetic basis of GIN resistance may be affected by genotype-environment interactions, obtaining information from local sheep populations managed in harsh environments contributes to the identification of novel genomic areas of functional importance for GIN resistance for that trait.
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Affiliation(s)
- Isabel Álvarez
- SERIDA Deva., Camino de Rioseco 1225, 33394 Gijón (Asturias), Spain
| | - Iván Fernández
- SERIDA Deva., Camino de Rioseco 1225, 33394 Gijón (Asturias), Spain
| | - Albert Soudré
- Université de Koudougou, BP 376 Koudougou, Burkina Faso, Burkina Faso
| | - Amadou Traoré
- Institut de l'Environnement et Recherches Agricoles (INERA), 04 BP 8645 Ouagadougou 04, Burkina Faso
| | | | - Moumouni Sanou
- Institut de l'Environnement et Recherches Agricoles (INERA), 04 BP 8645 Ouagadougou 04, Burkina Faso
| | - Stephane A R Tapsoba
- Institut de l'Environnement et Recherches Agricoles (INERA), 04 BP 8645 Ouagadougou 04, Burkina Faso
| | | | - Félix Goyache
- SERIDA Deva., Camino de Rioseco 1225, 33394 Gijón (Asturias), Spain
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Gutiérrez-Gil B, Esteban-Blanco C, Suarez-Vega A, Arranz JJ. Detection of quantitative trait loci and putative causal variants affecting somatic cell score in dairy sheep by using a 50K SNP chip and whole-genome sequencing. J Dairy Sci 2018; 101:9072-9088. [PMID: 30100503 DOI: 10.3168/jds.2018-14736] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2018] [Accepted: 06/21/2018] [Indexed: 12/12/2022]
Abstract
This study presents a scan of the ovine genome to identify quantitative trait loci (QTL) influencing the somatic cell score (SCS), a classical indicator of subclinical mastitis in sheep, and a subsequent high-resolution analysis of one of the identified QTL regions based on the analysis of whole-genome sequence data sets. A half-sib commercial population of Churra sheep genotyped with a 50K SNP chip was analyzed using linkage analysis (LA) and combined linkage and linkage disequilibrium analysis (LDLA). By LA, 2 5% chromosome-wide significant QTL on OAR5 and OAR25 and one 5% genome-wide significant QTL on ovine chromosome 20 (OAR20) were detected, whereas 22 significant associations were identified by LDLA. Two of the associations detected by LDLA replicated LA-detected effects (OAR20, OAR25). We compared the detected associations with previously reported QTL in sheep and cattle, and functional candidate genes were identified within the estimated confidence intervals. We then performed a high-resolution analysis of the OAR20 QTL region, the most significant QTL region identified by LA that replicated a QTL previously described in Churra sheep for SCS using microsatellite markers. For that, 2 segregating trios of 2 segregating families for the OAR20 QTL (each including the Qq sire and 2 daughters, QQ and qq) were selected for whole-genome sequencing. The bioinformatic analysis of the 6 sequenced samples performed across the genomic interval considered (14.2-41.7 Mb) identified a total of 227,030 variants commonly identified by 2 independent software packages. For the 3 different concordance tests considered, due to discrepancies regarding the QTL peak in the segregating families, the list of mutations concordant with the QTL segregating pattern was processed to identify the variants identified in immune-related genes that show a moderate/high impact on the encoded protein function. Among a list of 85 missense variants concordant with the QTL segregation pattern that were within candidate immune-related genes, 13 variants distributed across 7 genes [PKHD1, NOTCH4, AGER, ENSOARG00000009395 (HLA-C, Homo sapiens), ENSOARG00000015002 (HLA-B, H. sapiens), MOG, and ENSOARG00000018075 (BoLA, Bos taurus, orthologous to human HLA-A] were predicted to cause deleterious effects on protein function. Future studies should assess the possible associations of the candidate variants identified herein in commercial populations with indicator traits of udder inflammation (SCS, clinical mastitis).
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Affiliation(s)
- B Gutiérrez-Gil
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, Campus de Vegazana s/n, León 24071, Spain.
| | - C Esteban-Blanco
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, Campus de Vegazana s/n, León 24071, Spain
| | - A Suarez-Vega
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, Campus de Vegazana s/n, León 24071, Spain
| | - J J Arranz
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, Campus de Vegazana s/n, León 24071, Spain
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Makovický P, Margetín M, Makovický P. Estimation of Genetic and Phenotypic Parameters for Udder Morphology Traits in Different Dairy Sheep Genotypes. ACTA UNIVERSITATIS AGRICULTURAE ET SILVICULTURAE MENDELIANAE BRUNENSIS 2017. [DOI: 10.11118/actaun201765010105] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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Duchemin S, Colombani C, Legarra A, Baloche G, Larroque H, Astruc JM, Barillet F, Robert-Granié C, Manfredi E. Genomic selection in the French Lacaune dairy sheep breed. J Dairy Sci 2012; 95:2723-33. [DOI: 10.3168/jds.2011-4980] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2011] [Accepted: 01/05/2012] [Indexed: 11/19/2022]
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Gelasakis A, Arsenos G, Valergakis G, Oikonomou G, Kiossis E, Fthenakis G. Study of factors affecting udder traits and assessment of their interrelationships with milking efficiency in Chios breed ewes. Small Rumin Res 2012. [DOI: 10.1016/j.smallrumres.2011.09.045] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Gutiérrez-Gil B, Alvarez L, de la Fuente L, Sanchez J, San Primitivo F, Arranz J. A genome scan for quantitative trait loci affecting body conformation traits in Spanish Churra dairy sheep. J Dairy Sci 2011; 94:4119-28. [DOI: 10.3168/jds.2010-4027] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2010] [Accepted: 04/19/2011] [Indexed: 11/19/2022]
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Carta A, Casu S, Salaris S. Invited review: Current state of genetic improvement in dairy sheep. J Dairy Sci 2009; 92:5814-33. [DOI: 10.3168/jds.2009-2479] [Citation(s) in RCA: 80] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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Gutiérrez-Gil B, Pérez J, Álvarez L, Martínez-Valladares M, de la Fuente LF, Bayón Y, Meana A, Primitivo FS, Rojo-Vázquez FA, Arranz JJ. Quantitative trait loci for resistance to trichostrongylid infection in Spanish Churra sheep. Genet Sel Evol 2009; 41:46. [PMID: 19863786 PMCID: PMC2776584 DOI: 10.1186/1297-9686-41-46] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2009] [Accepted: 10/28/2009] [Indexed: 11/20/2022] Open
Abstract
BACKGROUND For ruminants reared on grazing systems, gastrointestinal nematode (GIN) parasite infections represent the class of diseases with the greatest impact on animal health and productivity. Among the many possible strategies for controlling GIN infection, the enhancement of host resistance through the selection of resistant animals has been suggested by many authors. Because of the difficulty of routinely collecting phenotypic indicators of parasite resistance, information derived from molecular markers may be used to improve the efficiency of classical genetic breeding. METHODS A total of 181 microsatellite markers evenly distributed along the 26 sheep autosomes were used in a genome scan analysis performed in a commercial population of Spanish Churra sheep to detect chromosomal regions associated with parasite resistance. Following a daughter design, we analysed 322 ewes distributed in eight half-sib families. The phenotypes studied included two faecal egg counts (LFEC0 and LFEC1), anti-Teladorsagia circumcincta LIV IgA levels (IgA) and serum pepsinogen levels (Peps). RESULTS The regression analysis revealed one QTL at the 5% genome-wise significance level on chromosome 6 for LFEC1 within the marker interval BM4621-CSN3. This QTL was found to be segregating in three out of the eight families analysed. Four other QTL were identified at the 5% chromosome-wise level on chromosomes 1, 10 and 14. Three of these QTL influenced faecal egg count, and the other one had an effect on IgA levels. CONCLUSION This study has successfully identified segregating QTL for parasite resistance traits in a commercial population. For some of the QTL detected, we have identified interesting coincidences with QTL previously reported in sheep, although most of those studies have been focused on young animals. Some of these coincidences might indicate that some common underlying loci affect parasite resistance traits in different sheep breeds. The identification of new QTL may suggest the existence of complex host-parasite relationships that have unique features depending on the host-parasite combination, perhaps due to the different mechanisms underlying resistance in adult sheep (hypersensitivity reactions) and lambs (immunity). The most significant QTL identified on chromosome 6 for LFEC(1) may be the target for future fine-mapping research efforts.
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Affiliation(s)
- Beatriz Gutiérrez-Gil
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, 24071, León, Spain
| | - Jorge Pérez
- Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad de León, 24071, León, Spain
| | | | - Maria Martínez-Valladares
- Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad de León, 24071, León, Spain
- Instituto de Ganadería de Montaña, Centro Mixto Universidad de León-CSIC Finca Marzanas s/n - CP 24346 - Grulleros, León, Spain
| | | | - Yolanda Bayón
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, 24071, León, Spain
| | - Aranzazu Meana
- Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain
| | - Fermin San Primitivo
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, 24071, León, Spain
| | - Francisco-Antonio Rojo-Vázquez
- Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad de León, 24071, León, Spain
- Instituto de Ganadería de Montaña, Centro Mixto Universidad de León-CSIC Finca Marzanas s/n - CP 24346 - Grulleros, León, Spain
| | - Juan-José Arranz
- Departamento de Producción Animal, Facultad de Veterinaria, Universidad de León, 24071, León, Spain
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Gutiérrez-Gil B, El-Zarei MF, Alvarez L, Bayón Y, de la Fuente LF, San Primitivo F, Arranz JJ. Quantitative trait loci underlying milk production traits in sheep. Anim Genet 2009; 40:423-34. [DOI: 10.1111/j.1365-2052.2009.01856.x] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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