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 | Acesso ao texto completo restrito à biblioteca da Embrapa Hortaliças. Para informações adicionais entre em contato com cnph.biblioteca@embrapa.br. |
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Registro Completo |
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Biblioteca(s): |
Embrapa Hortaliças. |
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Data corrente: |
03/11/2015 |
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Data da última atualização: |
04/02/2016 |
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Tipo da produção científica: |
Capítulo em Livro Técnico-Científico |
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Autoria: |
GRÜNEBERG, W. J.; MA. D.; MWANGA, R. O. M.; CAREY, E. E.; HUAMANI, F.; DIAZ, F.; EYZAGUIRRE, R.; GUAF, M.; JUSUF, M.; SONG, Y.-S.; KARUNIAWAN, A.; TJINTOKOHADI, K.; ANIL, S. R.; SHOFIUR RAHAMAN, E. H. M.; HOSSAIN, M.; ATTALURI, S.; SOME, K.; AFUAPE, S.; ADOFO, K.; LUKONGE, E.; KARANJA, L.; NDIRIGWE, J.; SSEMAKULA, G.; AGILI, S.; RANDRIANAIVOARIVONY, J. M.; CHIONA, M.; CHIPUNGU, F.; LAURIE, S.; RICARDO, J.; ANDRADE, M.; FERNANDES, F. R.; MELLO, A. F. S.; KHAN, A.; LABONTE, D. R.; YENCHO, G. C. |
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Afiliação: |
W. J. GRÜNEBERG., INTERNATIONAL POTATO CENTER, LIMA, PERU.; D. MA., XSPRC, XUZHOU SWEETPOTATO RESEARCH CENTER, CHINA.; R. O. M. MWANGA., INTERNATIONAL POTATO CENTER; E. E. CAREY, INTERNATIONAL POTATO CENTER - CIP-SSA; F. HUAMANI., INTERNATIONAL POTATO CENTER; F. DIAZ., INTERNATIONAL POTATO CENTER; R. EYZAGUIRRE., INTERNATIONAL POTATO CENTER; M. GUAF., PAPUA NEW GUINEA NATIONAL AGRICULTURAL RESEARCH INSTITUTE.; M. JUSUF., INDONESIAN LEGUMES AND TUBER CROPS RESEARCH INSTITUTE, JAVA INDONESIA.; Y. -S. SONG, RURAL DEVELOPMENT ADMINISTRATION REPUBLIC OF KOREA; A. KARUNIAWAN., UNPAD, PADJADJARAN UNIVERSITY BANDUNG, JAVA, INDONESIA.; K. TJINTOKOHADI., INTERNATIONAL POTATO CENTER - CIP-ESEAP; S. R. ANIL., CENTRAL TUBER CROPS RESEARCH INSTITUTE, THIRUVANANTHAPURAM, KERLA, INDIA.; E. H. M. SHOFIUR RAHAMAN, INWE - INSTITUT DE L'ENVIRONNEMENT ET DE RECHERCHES AGRICOLES, BURKINA FASO.; M. HOSSAIN., TCRC - BANGLADESH AGRICULTURE RESEARCH INSTITUTE.; S. ATTALURI., INSTITUT DE L'EVIRONNEMENT ET DE RECHERCHES AGRICOLES, BURKINA FASO.; K. SOME., INSTITUT DE L'ENVIRONNEMENT ET DE RECHERCHES AGRICOLES BURKINA FASO.; S. AFUAPE., NATIONAL ROOT CROPS RESEARCH INSTITUTE, NIGÉRIA.; K. ADOFO., COUNCIL FOR SCIENTIFIC AND INDUSTRIAL RESEARCH -CROPS RESEARCH INSTITUTE, GHANA.; E. LUKONGE., AGRICULTURE RESEARCH INTITUTE UKIRIGURU, TANZANIA.; L. KARANJA., KENYA AGRICULTURAL RESEARCH INSTITUTE, NIORO, KENYA.; J. NDIRIGWE., RWANDA AGRICULTURE BOARD, RWANDA.; G. SSEMAKULA., NATIONAL CROPS RESOURCES RESEARCH INSTITUTE, UGANDA.; S. AGILI., CIP-SSA.; J. -M. RANDRIANAIVOARIVONY., FIOMPIANA FAMBOLENA MALAGASY NORVEZIANA, MADAGASCAR.; M. CHIONA., ZAMBIA AGRICULURE RESEARCH INSTITUTE, ZAMBIA.; F. CHIPUNGU., DEPARTMENT OF AGRICULTURAL RESEARCH SERVICES, MALAWI.; S. LAURIE, AGRICULTURAL RESEARCH COUNCIL REPUBLIC OF SOUTH AFRICA.; J. RICARDO., MOZAMBIQUE INSTITUTE OF AGRICULTURAL RESEARCH.; M. ANDRADE., CIP-SSA.; FERNANDA RAUSCH FERNANDES, CNPH; ALEXANDRE FURTADO SILVEIRA MELLO, CNPH; A. KHAN., INTERNATIONAL POTATO CENTER; D. R. LABONTE., LOUSINA STATE UNIVERSITY AGCENTER.; G. C. YENCHO., DEPARTMENT OF HORTICULTURAL SCIENCE, NORTH CAROLINA STATE UNIVERSITY, RALEIGHA. |
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Título: |
Advances in sweetpotato breeding from 1993 to 2012. |
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Ano de publicação: |
2015 |
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Fonte/Imprenta: |
In: LOW, J.; NYONGESA, M.; QUINN, S.; PARKER, M. (Ed.). Potato and sweetpotato in Africa: transforming the value chains for food and nutrition security. Wallingford: Cabi, 2015. |
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Páginas: |
p. 1-77. |
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ISBN: |
978-1780644202 |
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Idioma: |
Inglês |
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Conteúdo: |
There are five objectives of this review. The first is to briefly describe recent production and utilization trends by region; the second is to review knowledge about origin and the genetic nature of sweetpotato. The third objective is to review selected breeding objectives. The fourth is to review advances in understanding of breeding methods, including (a) generation of seed through polycross nurseries and controlled cross breeding, (b) a description of a new accelerated breeding approach, (c) recent efforts to systematically exploit heterosis and (d) new approaches of genomic selection. The fifth objective is to provide information about variety releases during the past 20 years in West, East and Southern Africa, South Asia, East and South East Asia, China and the Pacific. |
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Thesagro: |
Batata doce; Ipomoea Batatas. |
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Thesaurus Nal: |
Sweet potatoes. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 02403naa a2200589 a 4500
001 2027738
005 2016-02-04
008 2015 bl uuuu u00u1 u #d
020 $a978-1780644202
100 1 $aGRÜNEBERG, W. J.
245 $aAdvances in sweetpotato breeding from 1993 to 2012.$h[electronic resource]
260 $c2015
300 $ap. 1-77.
520 $aThere are five objectives of this review. The first is to briefly describe recent production and utilization trends by region; the second is to review knowledge about origin and the genetic nature of sweetpotato. The third objective is to review selected breeding objectives. The fourth is to review advances in understanding of breeding methods, including (a) generation of seed through polycross nurseries and controlled cross breeding, (b) a description of a new accelerated breeding approach, (c) recent efforts to systematically exploit heterosis and (d) new approaches of genomic selection. The fifth objective is to provide information about variety releases during the past 20 years in West, East and Southern Africa, South Asia, East and South East Asia, China and the Pacific.
650 $aSweet potatoes
650 $aBatata doce
650 $aIpomoea Batatas
700 1 $aMA. D.
700 1 $aMWANGA, R. O. M.
700 1 $aCAREY, E. E.
700 1 $aHUAMANI, F.
700 1 $aDIAZ, F.
700 1 $aEYZAGUIRRE, R.
700 1 $aGUAF, M.
700 1 $aJUSUF, M.
700 1 $aSONG, Y.-S.
700 1 $aKARUNIAWAN, A.
700 1 $aTJINTOKOHADI, K.
700 1 $aANIL, S. R.
700 1 $aSHOFIUR RAHAMAN, E. H. M.
700 1 $aHOSSAIN, M.
700 1 $aATTALURI, S.
700 1 $aSOME, K.
700 1 $aAFUAPE, S.
700 1 $aADOFO, K.
700 1 $aLUKONGE, E.
700 1 $aKARANJA, L.
700 1 $aNDIRIGWE, J.
700 1 $aSSEMAKULA, G.
700 1 $aAGILI, S.
700 1 $aRANDRIANAIVOARIVONY, J. M.
700 1 $aCHIONA, M.
700 1 $aCHIPUNGU, F.
700 1 $aLAURIE, S.
700 1 $aRICARDO, J.
700 1 $aANDRADE, M.
700 1 $aFERNANDES, F. R.
700 1 $aMELLO, A. F. S.
700 1 $aKHAN, A.
700 1 $aLABONTE, D. R.
700 1 $aYENCHO, G. C.
773 $tIn: LOW, J.; NYONGESA, M.; QUINN, S.; PARKER, M. (Ed.). Potato and sweetpotato in Africa: transforming the value chains for food and nutrition security. Wallingford: Cabi, 2015.
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Registro original: |
Embrapa Hortaliças (CNPH) |
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Registro Completo
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Biblioteca(s): |
Embrapa Agricultura Digital; Embrapa Pecuária Sudeste. |
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Data corrente: |
04/11/2022 |
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Data da última atualização: |
07/11/2022 |
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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: |
BRUSCADIN, J. J.; CARDOSO, T. F.; DINIZ, W. J. da S.; AFONSO, J.; SOUZA, M. M. de; PETRINI, J.; ANDRADE, B. G. N.; SILVA, V. H. da; FERRAZ, J. B. S.; ZERLOTINI NETO, A.; MOURÃO, G. B.; COUTINHO, L. L.; REGITANO, L. C. de A. |
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Afiliação: |
JENNIFER JESSICA BRUSCADIN, UNIVERSIDADE FEDERAL DE SÃO CARLOS; TAINÃ FIGUEIREDO CARDOSO; WELLISON JARLES DA SILVA DINIZ, AUBURN UNIVERSITY; JULIANA AFONSO; MARCELA MARIA DE SOUZA, IOWA STATE UNIVERSITY; JULIANA PETRINI, AUBURN UNIVERSITY; BRUNO GABRIEL NASCIMENTO ANDRADE, MUNSTER TECHNOLOGICAL UNIVERSITY; VINICIUS HENRIQUE DA SILVA, UNIVERSIDADE DE SÃO PAULO; JOSÉ BENTO STERMAN FERRAZ, UNIVERSIDADE DE SÃO PAULO; ADHEMAR ZERLOTINI NETO, CNPTIA; GERSON BARRETO MOURÃO, UNIVERSIDADE DE SÃO PAULO; LUIZ LEHMANN COUTINHO, UNIVERSIDADE DE SÃO PAULO; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE. |
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Título: |
Allele-specific expression reveals functional SNPs affecting muscle-related genes in bovine. |
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Ano de publicação: |
2022 |
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Fonte/Imprenta: |
Biochimica et Biophysica Acta. Gene Regulatory Mechanisms, v. 1865, n. 8, 194886, Nov. 2022. |
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DOI: |
https://doi.org/10.1016/j.bbagrm.2022.194886 |
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Idioma: |
Inglês |
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Conteúdo: |
Single nucleotide polymorphisms showing allele-specific expression (ASE SNPs) are useful for cis-regulatory variants discovery. Despite this potential, there are expensive costs involved in genome-level ASE analysis for large sample sizes. If different data resolutions are available, genotype imputation can be used to mitigate this limitation. Aiming to increase the power to detect regulatory variants, we used a large dataset (>4 million) of imputed SNP genotypes and RNA-Seq data from 190 Nelore steers. Differences between major and minor allele expressions in muscle were tested with a Binomial Test. We identified 38,177 ASE SNPs (FDR ≤ 0.05) within 7304 linkage disequilibrium blocks. After that, we searched for aseQTLs (i.e., neighboring SNPs potentially regulating the ASE SNPs' allelic expression) by comparing the ASE of heterozygous to homozygous sample groups under a Wilcoxon Rank Sum test. We identified 21,543 aseQTLs potentially regulating 430 ASE SNPs (FDR ≤ 0.05). A total of 3333 cis-eQTLs (being 2098 ASE SNPs and 1075 aseQTLs) were associated with the expression of 758 transcripts (FDR ≤ 0.05), demonstrating the cis-regulatory effect of these ASE SNPs and aseQTLs. Data integration showed reproducibility with previous studies in bovine ASE and genomic imprinting. Furthermore, we identified 36,756 novel ASE regions due to the imputation approach. Comparisons with epigenetics data from Functional Annotation of Animal Genomes (FAANG) suggest a regulatory potential of the ASE-related SNPs. The affected genes were enriched in metabolic pathways essential for muscle homeostasis. These findings reinforce the potential of using ASE for discovering cis-regulatory SNPs that may affect muscle-related traits. MenosSingle nucleotide polymorphisms showing allele-specific expression (ASE SNPs) are useful for cis-regulatory variants discovery. Despite this potential, there are expensive costs involved in genome-level ASE analysis for large sample sizes. If different data resolutions are available, genotype imputation can be used to mitigate this limitation. Aiming to increase the power to detect regulatory variants, we used a large dataset (>4 million) of imputed SNP genotypes and RNA-Seq data from 190 Nelore steers. Differences between major and minor allele expressions in muscle were tested with a Binomial Test. We identified 38,177 ASE SNPs (FDR ≤ 0.05) within 7304 linkage disequilibrium blocks. After that, we searched for aseQTLs (i.e., neighboring SNPs potentially regulating the ASE SNPs' allelic expression) by comparing the ASE of heterozygous to homozygous sample groups under a Wilcoxon Rank Sum test. We identified 21,543 aseQTLs potentially regulating 430 ASE SNPs (FDR ≤ 0.05). A total of 3333 cis-eQTLs (being 2098 ASE SNPs and 1075 aseQTLs) were associated with the expression of 758 transcripts (FDR ≤ 0.05), demonstrating the cis-regulatory effect of these ASE SNPs and aseQTLs. Data integration showed reproducibility with previous studies in bovine ASE and genomic imprinting. Furthermore, we identified 36,756 novel ASE regions due to the imputation approach. Comparisons with epigenetics data from Functional Annotation of Animal Genomes (FAANG) suggest a regulato... Mostrar Tudo |
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Palavras-Chave: |
Cis-regulação; Cis-regulation; Data integration; Epigenética; Expressão gênica; Genômica; Integração de dados; Polimorfismos de nucleotídeo único. |
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Thesagro: |
Gado. |
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Thesaurus NAL: |
Cattle; Epigenetics; Genomics; Single nucleotide polymorphism. |
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Categoria do assunto: |
--
G Melhoramento Genético |
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Marc: |
LEADER 03063naa a2200433 a 4500
001 2148053
005 2022-11-07
008 2022 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1016/j.bbagrm.2022.194886$2DOI
100 1 $aBRUSCADIN, J. J.
245 $aAllele-specific expression reveals functional SNPs affecting muscle-related genes in bovine.$h[electronic resource]
260 $c2022
520 $aSingle nucleotide polymorphisms showing allele-specific expression (ASE SNPs) are useful for cis-regulatory variants discovery. Despite this potential, there are expensive costs involved in genome-level ASE analysis for large sample sizes. If different data resolutions are available, genotype imputation can be used to mitigate this limitation. Aiming to increase the power to detect regulatory variants, we used a large dataset (>4 million) of imputed SNP genotypes and RNA-Seq data from 190 Nelore steers. Differences between major and minor allele expressions in muscle were tested with a Binomial Test. We identified 38,177 ASE SNPs (FDR ≤ 0.05) within 7304 linkage disequilibrium blocks. After that, we searched for aseQTLs (i.e., neighboring SNPs potentially regulating the ASE SNPs' allelic expression) by comparing the ASE of heterozygous to homozygous sample groups under a Wilcoxon Rank Sum test. We identified 21,543 aseQTLs potentially regulating 430 ASE SNPs (FDR ≤ 0.05). A total of 3333 cis-eQTLs (being 2098 ASE SNPs and 1075 aseQTLs) were associated with the expression of 758 transcripts (FDR ≤ 0.05), demonstrating the cis-regulatory effect of these ASE SNPs and aseQTLs. Data integration showed reproducibility with previous studies in bovine ASE and genomic imprinting. Furthermore, we identified 36,756 novel ASE regions due to the imputation approach. Comparisons with epigenetics data from Functional Annotation of Animal Genomes (FAANG) suggest a regulatory potential of the ASE-related SNPs. The affected genes were enriched in metabolic pathways essential for muscle homeostasis. These findings reinforce the potential of using ASE for discovering cis-regulatory SNPs that may affect muscle-related traits.
650 $aCattle
650 $aEpigenetics
650 $aGenomics
650 $aSingle nucleotide polymorphism
650 $aGado
653 $aCis-regulação
653 $aCis-regulation
653 $aData integration
653 $aEpigenética
653 $aExpressão gênica
653 $aGenômica
653 $aIntegração de dados
653 $aPolimorfismos de nucleotídeo único
700 1 $aCARDOSO, T. F.
700 1 $aDINIZ, W. J. da S.
700 1 $aAFONSO, J.
700 1 $aSOUZA, M. M. de
700 1 $aPETRINI, J.
700 1 $aANDRADE, B. G. N.
700 1 $aSILVA, V. H. da
700 1 $aFERRAZ, J. B. S.
700 1 $aZERLOTINI NETO, A.
700 1 $aMOURÃO, G. B.
700 1 $aCOUTINHO, L. L.
700 1 $aREGITANO, L. C. de A.
773 $tBiochimica et Biophysica Acta. Gene Regulatory Mechanisms$gv. 1865, n. 8, 194886, Nov. 2022.
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Embrapa Agricultura Digital (CNPTIA) |
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