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Registro Completo |
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Biblioteca(s): |
Embrapa Pecuária Sul. |
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Data corrente: |
07/12/2020 |
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Data da última atualização: |
07/12/2020 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
JUNQUEIRA, V. S.; LOPES, P. S.; LOURENCO, D.; SILVA, F. F. e; CARDOSO, F. F. |
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Afiliação: |
Vinícius Silva Junqueira, UFV; Paulo Sávio Lopes, UFV; Daniela Lourenco, University of Georgia; Fabyano Fonseca e Silva, UFV; FERNANDO FLORES CARDOSO, CPPSUL. |
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Título: |
Applying the metafounders approach for genomic evaluation in a multibreed beef cattle population. |
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Ano de publicação: |
2020 |
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Fonte/Imprenta: |
Frontiers in Genetics, v. 11, 556399, Dec. 2020. |
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Idioma: |
Inglês |
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Notas: |
Article 556399. |
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Conteúdo: |
Pedigree information is incomplete by nature and commonly not well-established because many of the genetic ties are not known a priori or can be wrong. The genomic era brought new opportunities to assess relationships between individuals. However, when pedigree and genomic information are used simultaneously, which is the case of single-step genomic BLUP (ssGBLUP), defining the genetic base is still a challenge. One alternative to overcome this challenge is to use metafounders, which are pseudo-individuals that describe the genetic relationship between the base population individuals. The purpose of this study was to evaluate the impact of metafounders on the estimation of breeding values for tick resistance under ssGBLUP for a multibreed population composed by Hereford, Braford, and Zebu animals. Three different scenarios were studied: pedigree-based model (BLUP), ssGBLUP, and ssGBLUP with metafounders (ssGBLUPm). In ssGBLUPm, a total of four different metafounders based on breed of origin (i.e., Hereford, Braford, Zebu, and unknown) were included for the animals with missing parents. The relationship coefficient between metafounders was in average 0.54 (ranging from 0.34 to 0.96) suggesting an overlap between ancestor populations. The estimates of metafounder relationships indicate that Hereford and Zebu breeds have a possible common ancestral relationship. Inbreeding coefficients calculated following the metafounder approach had less negative values, suggesting that ancestral populations were large enough and that gametes inherited from the historical population were not identical. Variance components were estimated based on ssGBLUPm, ssGBLUP, and BLUP, but the values from ssGBLUPm were scaled to provide a fair comparison with estimates from the other two models. In general, additive, residual, and phenotypic variance components in the Hereford population were smaller than in Braford across different models. The addition of genomic information increased heritability for Hereford, possibly because of improved genetic relationships. As expected, genomic models had greater predictive ability, with an additional gain for ssGBLUPm over ssGBLUP. The increase in predictive ability was greater for Herefords. Our results show the potential of using metafounders to increase accuracy of GEBV, and therefore, the rate of genetic gain in beef cattle populations with partial levels of missing pedigree information. Keywords: unknown parent group, founder, genomic selection, missing pedigree, breeding values MenosPedigree information is incomplete by nature and commonly not well-established because many of the genetic ties are not known a priori or can be wrong. The genomic era brought new opportunities to assess relationships between individuals. However, when pedigree and genomic information are used simultaneously, which is the case of single-step genomic BLUP (ssGBLUP), defining the genetic base is still a challenge. One alternative to overcome this challenge is to use metafounders, which are pseudo-individuals that describe the genetic relationship between the base population individuals. The purpose of this study was to evaluate the impact of metafounders on the estimation of breeding values for tick resistance under ssGBLUP for a multibreed population composed by Hereford, Braford, and Zebu animals. Three different scenarios were studied: pedigree-based model (BLUP), ssGBLUP, and ssGBLUP with metafounders (ssGBLUPm). In ssGBLUPm, a total of four different metafounders based on breed of origin (i.e., Hereford, Braford, Zebu, and unknown) were included for the animals with missing parents. The relationship coefficient between metafounders was in average 0.54 (ranging from 0.34 to 0.96) suggesting an overlap between ancestor populations. The estimates of metafounder relationships indicate that Hereford and Zebu breeds have a possible common ancestral relationship. Inbreeding coefficients calculated following the metafounder approach had less negative values, suggesting that ances... Mostrar Tudo |
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Thesagro: |
Bovino; Seleção Genótipa. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/218811/1/fgene.pdf
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Marc: |
LEADER 03145naa a2200205 a 4500
001 2127712
005 2020-12-07
008 2020 bl uuuu u00u1 u #d
100 1 $aJUNQUEIRA, V. S.
245 $aApplying the metafounders approach for genomic evaluation in a multibreed beef cattle population.$h[electronic resource]
260 $c2020
500 $aArticle 556399.
520 $aPedigree information is incomplete by nature and commonly not well-established because many of the genetic ties are not known a priori or can be wrong. The genomic era brought new opportunities to assess relationships between individuals. However, when pedigree and genomic information are used simultaneously, which is the case of single-step genomic BLUP (ssGBLUP), defining the genetic base is still a challenge. One alternative to overcome this challenge is to use metafounders, which are pseudo-individuals that describe the genetic relationship between the base population individuals. The purpose of this study was to evaluate the impact of metafounders on the estimation of breeding values for tick resistance under ssGBLUP for a multibreed population composed by Hereford, Braford, and Zebu animals. Three different scenarios were studied: pedigree-based model (BLUP), ssGBLUP, and ssGBLUP with metafounders (ssGBLUPm). In ssGBLUPm, a total of four different metafounders based on breed of origin (i.e., Hereford, Braford, Zebu, and unknown) were included for the animals with missing parents. The relationship coefficient between metafounders was in average 0.54 (ranging from 0.34 to 0.96) suggesting an overlap between ancestor populations. The estimates of metafounder relationships indicate that Hereford and Zebu breeds have a possible common ancestral relationship. Inbreeding coefficients calculated following the metafounder approach had less negative values, suggesting that ancestral populations were large enough and that gametes inherited from the historical population were not identical. Variance components were estimated based on ssGBLUPm, ssGBLUP, and BLUP, but the values from ssGBLUPm were scaled to provide a fair comparison with estimates from the other two models. In general, additive, residual, and phenotypic variance components in the Hereford population were smaller than in Braford across different models. The addition of genomic information increased heritability for Hereford, possibly because of improved genetic relationships. As expected, genomic models had greater predictive ability, with an additional gain for ssGBLUPm over ssGBLUP. The increase in predictive ability was greater for Herefords. Our results show the potential of using metafounders to increase accuracy of GEBV, and therefore, the rate of genetic gain in beef cattle populations with partial levels of missing pedigree information. Keywords: unknown parent group, founder, genomic selection, missing pedigree, breeding values
650 $aBovino
650 $aSeleção Genótipa
700 1 $aLOPES, P. S.
700 1 $aLOURENCO, D.
700 1 $aSILVA, F. F. e
700 1 $aCARDOSO, F. F.
773 $tFrontiers in Genetics$gv. 11, 556399, Dec. 2020.
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Registro original: |
Embrapa Pecuária Sul (CPPSUL) |
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Biblioteca(s): |
Embrapa Gado de Leite. |
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Data corrente: |
21/05/2014 |
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Data da última atualização: |
05/02/2024 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
A - 1 |
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Autoria: |
BUSTAMANTE, F. O.; ROCHA, L. C.; TORRES, G. A.; DAVIDE, L. C.; MITTELMANN, A.; TECHIO, V. H. |
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Afiliação: |
FERNANDA O. BUSTAMANTE, UFLA; LAIANE C. ROCHA, UFLA; GIOVANA A. TORRES, UFLA; LISETE C. DAVIDE, UFLA; ANDREA MITTELMANN, CNPGL; VÂNIA H. TECHIO, UFLA. |
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Título: |
Distribution of rDNA in Diploid and Polyploid Lolium multiflorum Lam. and Fragile Sites in 45S rDNA Regions. |
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Ano de publicação: |
2014 |
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Fonte/Imprenta: |
Crop Science, v. 54, n. 2, p. 617-625 2014. |
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DOI: |
https://doi.org/10.2135/cropsci2013.05.0325 |
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Idioma: |
Inglês |
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Conteúdo: |
The distribution, number, and location of ribosome DNA (rDNA) regions on chromosomes were evaluated, and transcriptional activity was described in genotypes of Italian ryegrass (Lolium multiflorum Lam.), as well as in an offspring resulting from interbreeding. Nucleoli and nucleolar organizer regions were labeled with silver nitrate and fluorescent in situ hybridization (FISH) was performed with 5S and 45S rDNA as probes. Hybridization procedures were performed on slides previously stained with the Ag-NOR method. The 5S rDNA sites were highly conserved, while 45S rDNA sites had wide variability, even showing more than one site on the same chromosome. One of the genotypes had more than expected 45S rDNA sites. Approximately 95% of the cells at metaphases had at least one chromosome break/gap in the 45S rDNA site, resulting in chromosome fragmentation. Thus, 45S rDNA correspond to fragile sites in L. multiflorum. These events can affect genome organization and cause new chromosomal rearrangements which, along with some other factors, might be responsible for microevolutionary changes involved in differentiation and speciation. Not all 45S rDNA sites are transcriptionally active. Variation in both the number and size of nucleoli and mechanisms of nucleolar fusion were observed in L. multiflorum. |
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Palavras-Chave: |
Italian ryegrass. |
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Thesagro: |
DNA. |
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Categoria do assunto: |
G Melhoramento Genético |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/97916/1/atigo-publicado.pdf
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Marc: |
LEADER 01983naa a2200217 a 4500
001 1986699
005 2024-02-05
008 2014 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.2135/cropsci2013.05.0325$2DOI
100 1 $aBUSTAMANTE, F. O.
245 $aDistribution of rDNA in Diploid and Polyploid Lolium multiflorum Lam. and Fragile Sites in 45S rDNA Regions.$h[electronic resource]
260 $c2014
520 $aThe distribution, number, and location of ribosome DNA (rDNA) regions on chromosomes were evaluated, and transcriptional activity was described in genotypes of Italian ryegrass (Lolium multiflorum Lam.), as well as in an offspring resulting from interbreeding. Nucleoli and nucleolar organizer regions were labeled with silver nitrate and fluorescent in situ hybridization (FISH) was performed with 5S and 45S rDNA as probes. Hybridization procedures were performed on slides previously stained with the Ag-NOR method. The 5S rDNA sites were highly conserved, while 45S rDNA sites had wide variability, even showing more than one site on the same chromosome. One of the genotypes had more than expected 45S rDNA sites. Approximately 95% of the cells at metaphases had at least one chromosome break/gap in the 45S rDNA site, resulting in chromosome fragmentation. Thus, 45S rDNA correspond to fragile sites in L. multiflorum. These events can affect genome organization and cause new chromosomal rearrangements which, along with some other factors, might be responsible for microevolutionary changes involved in differentiation and speciation. Not all 45S rDNA sites are transcriptionally active. Variation in both the number and size of nucleoli and mechanisms of nucleolar fusion were observed in L. multiflorum.
650 $aDNA
653 $aItalian ryegrass
700 1 $aROCHA, L. C.
700 1 $aTORRES, G. A.
700 1 $aDAVIDE, L. C.
700 1 $aMITTELMANN, A.
700 1 $aTECHIO, V. H.
773 $tCrop Science$gv. 54, n. 2, p. 617-625 2014.
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Embrapa Gado de Leite (CNPGL) |
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