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Biblioteca (s) : |
INIA Las Brujas. |
Fecha : |
13/11/2015 |
Actualizado : |
08/02/2023 |
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
Autor : |
LEGARRA, A.; CHRISTENSEN, O.F.; VITEZICA, Z.G.; AGUILAR, I.; MISZTAL, I. |
Afiliación : |
IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
Título : |
Ancestral relationships using metafounders: Finite ancestral populations and across population relationships. |
Fecha de publicación : |
2015 |
Fuente / Imprenta : |
Genetics, 2015, v.200, no.2, p. 455-468. OPEN ACCESS. doi: https://doi.org/10.1534/genetics.115.177014 |
ISSN : |
0016-6731 |
DOI : |
10.1534/genetics.115.177014 |
Idioma : |
Inglés |
Notas : |
Article history: Received 12 February 2015; Accepted 03 April 2015; Published 14 April 2015. -- |
Contenido : |
ABSTRACT.
Recent use of genomic (marker-based) relationships shows that relationships exist within and across base population (breeds or lines). However, current treatment of pedigree relationships is unable to consider relationships within or across base populations, although such relationships must exist due to finite size of the ancestral population and connections between populations. This complicates the conciliation of both approaches and, in particular, combining pedigree with genomic relationships. We present a coherent theoretical framework to consider base population in pedigree relationships. We suggest a conceptual framework that considers each ancestral population as a finite-sized pool of gametes. This generates across-individual relationships and contrasts with the classical view which each population is considered as an infinite, unrelated pool. Several ancestral populations may be connected and therefore related. Each ancestral population can be represented as a ?metafounder,? a pseudo-individual included as founder of the pedigree and similar to an ?unknown parent group.? Metafounders have self- and across relationships according to a set of parameters, which measure ancestral relationships, i.e., homozygozities within populations and relationships across populations. These parameters can be estimated from existing pedigree and marker genotypes using maximum likelihood or a method based on summary statistics, for arbitrarily complex pedigrees. Equivalences of genetic variance and variance components between the classical and this new parameterization are shown. Segregation variance on crosses of populations is modeled. Efficient algorithms for computation of relationship matrices, their inverses, and inbreeding coefficients are presented. Use of metafounders leads to compatibility of genomic and pedigree relationship matrices and to simple computing algorithms. Examples and code are given.
© 2015 by the Genetics Society of America. MenosABSTRACT.
Recent use of genomic (marker-based) relationships shows that relationships exist within and across base population (breeds or lines). However, current treatment of pedigree relationships is unable to consider relationships within or across base populations, although such relationships must exist due to finite size of the ancestral population and connections between populations. This complicates the conciliation of both approaches and, in particular, combining pedigree with genomic relationships. We present a coherent theoretical framework to consider base population in pedigree relationships. We suggest a conceptual framework that considers each ancestral population as a finite-sized pool of gametes. This generates across-individual relationships and contrasts with the classical view which each population is considered as an infinite, unrelated pool. Several ancestral populations may be connected and therefore related. Each ancestral population can be represented as a ?metafounder,? a pseudo-individual included as founder of the pedigree and similar to an ?unknown parent group.? Metafounders have self- and across relationships according to a set of parameters, which measure ancestral relationships, i.e., homozygozities within populations and relationships across populations. These parameters can be estimated from existing pedigree and marker genotypes using maximum likelihood or a method based on summary statistics, for arbitrarily complex pedigrees. Equivalences... Presentar Todo |
Palabras claves : |
Base populations; Genetic drift; GenPred; Marker genotypes; Pedigree; Relationships; Shared data resource. |
Thesagro : |
GENOMICA; GENOTIPOS; MARCADORES MOLECULARES. |
Asunto categoría : |
L10 Genética y mejoramiento animal |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/5186/1/Aguilar-I.-2015.-Genetics.pdf
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Marc : |
LEADER 03053naa a2200325 a 4500 001 1053877 005 2023-02-08 008 2015 bl uuuu u00u1 u #d 022 $a0016-6731 024 7 $a10.1534/genetics.115.177014$2DOI 100 1 $aLEGARRA, A. 245 $aAncestral relationships using metafounders$bFinite ancestral populations and across population relationships.$h[electronic resource] 260 $c2015 500 $aArticle history: Received 12 February 2015; Accepted 03 April 2015; Published 14 April 2015. -- 520 $aABSTRACT. Recent use of genomic (marker-based) relationships shows that relationships exist within and across base population (breeds or lines). However, current treatment of pedigree relationships is unable to consider relationships within or across base populations, although such relationships must exist due to finite size of the ancestral population and connections between populations. This complicates the conciliation of both approaches and, in particular, combining pedigree with genomic relationships. We present a coherent theoretical framework to consider base population in pedigree relationships. We suggest a conceptual framework that considers each ancestral population as a finite-sized pool of gametes. This generates across-individual relationships and contrasts with the classical view which each population is considered as an infinite, unrelated pool. Several ancestral populations may be connected and therefore related. Each ancestral population can be represented as a ?metafounder,? a pseudo-individual included as founder of the pedigree and similar to an ?unknown parent group.? Metafounders have self- and across relationships according to a set of parameters, which measure ancestral relationships, i.e., homozygozities within populations and relationships across populations. These parameters can be estimated from existing pedigree and marker genotypes using maximum likelihood or a method based on summary statistics, for arbitrarily complex pedigrees. Equivalences of genetic variance and variance components between the classical and this new parameterization are shown. Segregation variance on crosses of populations is modeled. Efficient algorithms for computation of relationship matrices, their inverses, and inbreeding coefficients are presented. Use of metafounders leads to compatibility of genomic and pedigree relationship matrices and to simple computing algorithms. Examples and code are given. © 2015 by the Genetics Society of America. 650 $aGENOMICA 650 $aGENOTIPOS 650 $aMARCADORES MOLECULARES 653 $aBase populations 653 $aGenetic drift 653 $aGenPred 653 $aMarker genotypes 653 $aPedigree 653 $aRelationships 653 $aShared data resource 700 1 $aCHRISTENSEN, O.F. 700 1 $aVITEZICA, Z.G. 700 1 $aAGUILAR, I. 700 1 $aMISZTAL, I. 773 $tGenetics, 2015$gv.200, no.2, p. 455-468. OPEN ACCESS. doi: https://doi.org/10.1534/genetics.115.177014
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INIA Las Brujas (LB) |
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Registro completo
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Biblioteca (s) : |
INIA Las Brujas; INIA Tacuarembó. |
Fecha actual : |
15/07/2015 |
Actualizado : |
15/10/2019 |
Tipo de producción científica : |
Revista INIA |
Autor : |
INIA (INSTITUTO NACIONAL DE INVESTIGACIÓN AGROPECUARIA) |
Título : |
Revista INIA Uruguay. (No.19, Setiembre 2009). |
Fecha de publicación : |
2009 |
Fuente / Imprenta : |
Montevideo (Uruguay): INIA, 2009. |
Páginas : |
87 p. |
Serie : |
(Revista INIA; 19) |
ISSN : |
1510-9011 |
Idioma : |
Español |
Thesagro : |
ARROZ; BIOTECNOLOGIA; BOVINOS DE CARNE; CAMBIO CLIMÁTICO; CIENCIA; CITRUS; CLIMA; CLIMATOLOGIA; COMUNICACIÓN; CONTOL DE ENFERMEDADES; CULTIVOS DE GRANO; CULTIVOS DE SECANO; ENTOMOLOGIA; ESPECIES FORRAJERAS; EUCALYPTUS; EXPLOTACION AGRICOLA FAMILIAR; FITOPATOLOGÍA; FORESTALES; FORRAJES; FRUTALES; FRUTICULTURA; GANADO BOVINO; GRANOS; GRAS; HORTALIZAS; HORTICULTURA; INIA; INNOVACION; INVESTIGACIÓN; LECHERÍA; LEGUMINOSAS FORRAJERAS; MANEJO DEL CULTIVO; MEJORAMIENTO ANIMAL; METEOROLOGIA; MICROBIOLOGÍA; OVINOS; PASTURAS; PRODUCCIÓN ANIMAL; PRODUCCION DE LANA; PRODUCCION DE LECHE; PRODUCCION LECHERA; REVISTA INIA 2009; SEMILLAS; SOJA; SUELOS; SUINOS; SUSTENTABILIDAD AMBIENTAL; TECNOLOGÍA; TRANSFERENCIA DE TECNOLOGIA; VARIEDADES; VITICULTURA. |
Asunto categoría : |
A50 Investigación agraria |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/4828/1/revista-INIA-19.pdf
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Marc : |
LEADER 01908nam a2200745 a 4500 001 1053078 005 2019-10-15 008 2009 bl uuuu u00u1 u #d 022 $a1510-9011 100 1 $aINIA (INSTITUTO NACIONAL DE INVESTIGACIÓN AGROPECUARIA) 245 $aRevista INIA Uruguay. (No.19, Setiembre 2009). 260 $aMontevideo (Uruguay): INIA$c2009 300 $a87 p. 490 $a(Revista INIA; 19) 650 $aARROZ 650 $aBIOTECNOLOGIA 650 $aBOVINOS DE CARNE 650 $aCAMBIO CLIMÁTICO 650 $aCIENCIA 650 $aCITRUS 650 $aCLIMA 650 $aCLIMATOLOGIA 650 $aCOMUNICACIÓN 650 $aCONTOL DE ENFERMEDADES 650 $aCULTIVOS DE GRANO 650 $aCULTIVOS DE SECANO 650 $aENTOMOLOGIA 650 $aESPECIES FORRAJERAS 650 $aEUCALYPTUS 650 $aEXPLOTACION AGRICOLA FAMILIAR 650 $aFITOPATOLOGÍA 650 $aFORESTALES 650 $aFORRAJES 650 $aFRUTALES 650 $aFRUTICULTURA 650 $aGANADO BOVINO 650 $aGRANOS 650 $aGRAS 650 $aHORTALIZAS 650 $aHORTICULTURA 650 $aINIA 650 $aINNOVACION 650 $aINVESTIGACIÓN 650 $aLECHERÍA 650 $aLEGUMINOSAS FORRAJERAS 650 $aMANEJO DEL CULTIVO 650 $aMEJORAMIENTO ANIMAL 650 $aMETEOROLOGIA 650 $aMICROBIOLOGÍA 650 $aOVINOS 650 $aPASTURAS 650 $aPRODUCCIÓN ANIMAL 650 $aPRODUCCION DE LANA 650 $aPRODUCCION DE LECHE 650 $aPRODUCCION LECHERA 650 $aREVISTA INIA 2009 650 $aSEMILLAS 650 $aSOJA 650 $aSUELOS 650 $aSUINOS 650 $aSUSTENTABILIDAD AMBIENTAL 650 $aTECNOLOGÍA 650 $aTRANSFERENCIA DE TECNOLOGIA 650 $aVARIEDADES 650 $aVITICULTURA
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