Estimates of genomic heritability and genome-wide association study for fatty acids profile in Santa Inês sheep

Rovadoscki, Gregori Alberto; Pértile, Simone Fernanda Nedel; Alvarenga, Amanda Botelho; Cesar, Aline Silva Mello; Pértille, Fábio; Petrini, Juliana; Franzo, Vamilton; Soares, Weber Vilas Boas; Morota, Gota; Spangler, Matthew L; Pinto, Luís Fernando Batista; Carvalho, Gleidson Giordano Pinto de; Lanna, Dante Pazzanese Duarte; Mourão, Gérson Barreto

doi:10.1186/s12864-018-4777-8

Cited by 39 publications

(40 citation statements)

References 98 publications

(110 reference statements)

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“…The ME1 gene encodes a cytosolic, NADP-dependent enzyme that produces NADPH for fatty acid biosynthesis [124]. Likewise, the ME1 gene has been implicated in PUFA biosynthesis [136][137][138]. Furthermore, in animal models, the ME1 gene expression is strongly regulated by the dietary fat content [125,139].…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Association Study for Serum Omega-3 and Omega-6 Polyunsaturated Fatty Acids: Exploratory Analysis of the Sex-Specific Effects and Dietary Modulation in Mediterranean Subjects with Metabolic Syndrome

et al. 2020

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Many early studies presented beneficial effects of polyunsaturated fatty acids (PUFA) on cardiovascular risk factors and disease. However, results from recent meta-analyses indicate that this effect would be very low or nil. One of the factors that may contribute to the inconsistency of the results is that, in most studies, genetic factors have not been taken into consideration. It is known that fatty acid desaturase (FADS) gene cluster in chromosome 11 is a very important determinant of plasma PUFA, and that the prevalence of the single nucleotide polymorphisms (SNPs) varies greatly between populations and may constitute a bias in meta-analyses. Previous genome-wide association studies (GWAS) have been carried out in other populations and none of them have investigated sex and Mediterranean dietary pattern interactions at the genome-wide level. Our aims were to undertake a GWAS to discover the genes most associated with serum PUFA concentrations (omega-3, omega-6, and some fatty acids) in a scarcely studied Mediterranean population with metabolic syndrome, and to explore sex and adherence to Mediterranean diet (MedDiet) interactions at the genome-wide level. Serum PUFA were determined by NMR spectroscopy. We found strong robust associations between various SNPs in the FADS cluster and omega-3 concentrations (top-ranked in the adjusted model: FADS1-rs174547, p = 3.34 × 10−14; FADS1-rs174550, p = 5.35 × 10−14; FADS2-rs1535, p = 5.85 × 10−14; FADS1-rs174546, p = 6.72 × 10−14; FADS2-rs174546, p = 9.75 × 10−14; FADS2-rs174576, p = 1.17 × 10−13; FADS2-rs174577, p = 1.12 × 10−12, among others). We also detected a genome-wide significant association with other genes in chromosome 11: MYRF (myelin regulatory factor)-rs174535, p = 1.49 × 10−12; TMEM258 (transmembrane protein 258)-rs102275, p = 2.43 × 10−12; FEN1 (flap structure-specific endonuclease 1)-rs174538, p = 1.96 × 10−11). Similar genome-wide statistically significant results were found for docosahexaenoic fatty acid (DHA). However, no such associations were detected for omega-6 PUFAs or linoleic acid (LA). For total PUFA, we observed a consistent gene*sex interaction with the DNTTIP2 (deoxynucleotidyl transferase terminal interacting protein 2)-rs3747965 p = 1.36 × 10−8. For adherence to MedDiet, we obtained a relevant interaction with the ME1 (malic enzyme 1) gene (a gene strongly regulated by fat) in determining serum omega-3. The top-ranked SNP for this interaction was ME1-rs3798890 (p = 2.15 × 10−7). In the regional-wide association study, specifically focused on the FADS1/FASD2/FADS3 and ELOVL (fatty acid elongase) 2/ELOVL 5 regions, we detected several statistically significant associations at p < 0.05. In conclusion, our results confirm a robust role of the FADS cluster on serum PUFA in this population, but the associations vary depending on the PUFA. Moreover, the detection of some sex and diet interactions underlines the need for these associations/interactions to be studied in all specific populations so as to better understand the complex metabolism of PUFA.

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Section: Discussionmentioning

confidence: 99%

Genome-Wide Association Study for Serum Omega-3 and Omega-6 Polyunsaturated Fatty Acids: Exploratory Analysis of the Sex-Specific Effects and Dietary Modulation in Mediterranean Subjects with Metabolic Syndrome

et al. 2020

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“…In dairy sheep, the molecular basis of FA has been investigated by candidate gene (Crisà et al, 2010;Moioli et al, 2012), and QTL detection approaches. Genomic selection studies for FA compositions are limited to beef cattle (Uemoto et al, 2011;Chen et al, 2015;Zhu et al, 2017) and meat sheep (Rovadoscki et al, 2018). One of the main advantages of GS over traditional selection is that, once a reference population with both phenotypic and genotypic records has been settled, breeding values of animals without their own phenotypes can be predicted with a reasonable accuracy (Meuwissen et al, 2001;Hayes et al, 2009).…”

Section: Introductionmentioning

confidence: 99%

Genomic selection of milk fatty acid composition in Sarda dairy sheep: Effect of different phenotypes and relationship matrices on heritability and breeding value accuracy

Cesarani

Gaspa

Correddu

et al. 2019

Journal of Dairy Science

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Fatty acid (FA) composition is one of the most important aspects of milk nutritional quality. However, the inclusion of this trait as a breeding goal for dairy species is hampered by the logistics and high costs of phenotype recording. Fourier-transform infrared spectroscopy (FTIR) is a valid and cheap alternative to laboratory gas chromatography (GC) for predicting milk FA composition. Moreover, as for other novel phenotypes, the efficiency of selection for these traits can be enhanced by using genomic data. The objective of this research was to compare traditional versus genomic selection approaches for estimating genetic parameters and breeding values of milk fatty acid composition in dairy sheep using either GC-measured or FTIR-predicted FA as phenotypes. Milk FA profiles were available for a total of 923 Sarda breed ewes. The youngest 100 had their own phenotype masked to mimic selection candidates. Pedigree relationship information and genotypes were available for 923 and 769 ewes, respectively. Three statistical approaches were used: the classical-pedigree-based BLUP, the genomic BLUP that considers the genomic relationship matrix G, and the single-step genomic BLUP (ssGBLUP) where pedigree and genomic relationship matrices are blended into a single H matrix. Heritability estimates using pedigree were lower than ssGBLUP, and very similar between GC and FTIR regarding the statistical approach used. For some FA, mostly associated with animal diet (i.e., C18: 2n -6, C18: 3n -3), random effect of combination of flock and test date explained a relevant quota of total variance, reducing the heritability estimates accordingly. Genomic approaches (genomic BLUP and ssGBLUP) outperformed the traditional pedigree method both for GC and FTIR FA. Prediction accuracies in the older cohort were larger than the young cohort. Genomic prediction accuracies (obtained using either G or H relationship matrix) in the young cohort of animals, where their own phenotypes were masked, were similar for GC and FTIR. Multiple-trait analysis slightly affected genomic breeding value accuracies. These results suggest that FTIR-predicted milk FA composition could represent a valid option for inclusion in breeding programs.of Georgia, Athens) for her useful suggestions on implementing genomic models.

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“…Finalmente, los sistemas semi-extensivos poseen características tanto de los sistemas intensivos y extensivos; los animales pastorean y a la vez son suplementados con forrajes, concentrados o bancos de proteína alternos, en este sistema generalmente se crían animales de doble propósito, ya sea para producir carne y leche o carne y lana, los parámetros productivos son mejores que los del sistema extensivo (12) . Los principales ecotipos criollos utilizados en los sistemas semi-extensivos y extensivos de América Latina son: Morada nova y Santa Inés en Brasil (28)(29)(30) , Pantaneira en Argentina y Brasil, Junin, Piura, Criollo de la Sierra y Criollo de Arequipa en Perú (31) , Pelibuey en Cuba y México (32,33) , Etíope y Sudan en Colombia (34)(35)(36) , Ovino Criollo Uruguayo en Uruguay (37) , Ovino Criollo Araucano en Chile (38) , entre otros.…”

Section: Estado Actual De Los Ovinos En América Latinaunclassified

“…Los reportes de GWAS en ovinos son pocos si se comparan con los realizados en bovinos y cerdos, encontrándose que la mayoría de los estudios en ovejas corresponden a Brasil (29,30,62) , Colombia (23,34,63) , Chile (38,64) y Uruguay (65) . Estos estudios se han centrado en encontrar genes relacionados con el crecimiento, característica importante que se asocia con la producción de carne y por ende presenta una repercusión económica para el productor y la industria.…”

Section: Estudios De Gwas En Ovinos De América Latinaunclassified

“…Rovadoscki junto a otros investigadores indagaron acerca de la arquitectura genética de la composición de ácidos grasos en el músculo Longissimus dorsi en ovinos Santa Inés, encontrando que existe variación genética para los rasgos evaluados, por lo tanto, es posible alterar los perfiles de ácidos grasos a través de la selección (30) . Del GWAS obtuvieron diez SNP asociados con veintisiete regiones genómicas que influyen en la composición de ácidos grasos estos se ubicaron en los cromosomas 1, 2, 3, 5, 8, 12, 14, 15, 16, 17 y 18; estas regiones corresponden a 23 genes, entre los cuales se encuentran DGAT2, TRHDE, TPH2, ME1, C6, C7, UBE3D, PARP14 y MRPS30 (Cuadro 2).…”

Section: Estudios De Gwas En Ovinos De América Latinaunclassified

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Estudios de asociación genómica en ovinos de América Latina. Revisión

Tobar

Álvarez

Franco

2020

Rev. Mex. Cienc. Pecu.

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Los ovinos, son una de las especies domésticas más importantes a nivel mundial, debido al potencial productivo y reproductivo que poseen. En este sentido, identificar los mejores animales para características productivas de interés económico, es el objetivo principal en los programas de selección y mejoramiento genético de los rebaños. Sin embargo, en la mayoría de los países de América Latina la selección de los animales no es eficiente, debido a la elección subjetiva de los mismos y a la naturaleza compleja de estas características, ya que, al ser de carácter cuantitativo, su expresión involucra la interacción de múltiples genes con el ambiente. En la actualidad, gracias a los avances en las tecnologías de nueva secuenciación, genotipado y análisis de asociación genómica (GWAS), se han podido identificar numerosas variaciones en el ADN de los animales, principalmente polimorfismos de nucleótido simple (SNP) que pueden encontrarse en genes que afectan la expresión de rasgos económicos de interés. Esta revisión presenta los avances de la implementación de los análisis de asociación genómica (GWAS), en América Latina, su aplicación en los sistemas productivos de ovinos y los resultados que se han obtenido al indagar en características de tipo productivo, reproductivo, funcional o de calidad.

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Estimates of genomic heritability and genome-wide association study for fatty acids profile in Santa Inês sheep

Cited by 39 publications

References 98 publications

Genome-Wide Association Study for Serum Omega-3 and Omega-6 Polyunsaturated Fatty Acids: Exploratory Analysis of the Sex-Specific Effects and Dietary Modulation in Mediterranean Subjects with Metabolic Syndrome

Genome-Wide Association Study for Serum Omega-3 and Omega-6 Polyunsaturated Fatty Acids: Exploratory Analysis of the Sex-Specific Effects and Dietary Modulation in Mediterranean Subjects with Metabolic Syndrome

Genomic selection of milk fatty acid composition in Sarda dairy sheep: Effect of different phenotypes and relationship matrices on heritability and breeding value accuracy

Estudios de asociación genómica en ovinos de América Latina. Revisión

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