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Registro Completo |
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Biblioteca(s): |
Embrapa Soja. |
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Data corrente: |
16/02/2016 |
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Data da última atualização: |
19/06/2017 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
SANTOS, J. V. M. dos; VALLIYODAN, B.; JOSHI, T.; KHAN, S. M.; LIU, YANG.; WANG, J.; VUONG, T. D.; OLIVEIRA, M. F. de; MARCELINO-GUIMARÃES, F. C.; XU, D.; NGUYEN, H. T.; ABDELNOOR, R. V. |
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Afiliação: |
JOÃO VITOR MALDONADO DOS SANTOS, UEL; BABU VALLIYODAN, UNIVERSITY OF MISSOURI; TRUPTI JOSHI, UNIVERSITY OF MISSOURI; SAAD M. KHAN, UNIVERSITY OF MISSOURI; LIU, Y., UNIVERSITY OF MISSOURI; JUEXIN WANG, UNIVERSITY OF MISSOURI; TRI D. VUONG, UNIVERSITY OF MISSOURI; MARCELO FERNANDES DE OLIVEIRA, CNPSO; FRANCISMAR CORREA MARCELINO GUIMARA, CNPSO; DONG XU., UNIVERSITY OF MISSOURI; HENRY T. NGUYEN., UNIVERSITY OF MISSOURI; RICARDO VILELA ABDELNOOR, CNPSO. |
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Título: |
Evaluation of genetic variation among Brazilian soybean cultivars through genome resequencing. |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
BMC Genomics, v. 17, n. 110, 18 p., Feb. 2016. |
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ISSN: |
1471-2164 |
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DOI: |
10.1186/s12864-016-2431-x |
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Idioma: |
Inglês |
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Conteúdo: |
Soybean [Glycine max (L.) Merrill] is one of the most important legumes cultivated worldwide, and Brazil is one of the main producers of this crop. Since the sequencing of its reference genome, interest in structural and allelic variations of cultivated and wild soybean germplasm has grown. To investigate the genetics of the Brazilian soybean germplasm, we selected soybean cultivars based on the year of commercialization, geographical region and maturity group and resequenced their genomes. We resequenced the genomes of 28 Brazilian soybean cultivars with an average genome coverage of 14.8X. A total of 5,835,185 single nucleotide polymorphisms (SNPs) and 1,329,844 InDels were identified across the 20 soybean chromosomes, with 541,762 SNPs, 98,922 InDels and 1,093 CNVs that were exclusive to the 28 Brazilian cultivars. In addition, 668 allelic variations of 327 genes were shared among all of the Brazilian cultivars, including genes related to DNA-dependent transcription-elongation, photosynthesis, ATP synthesis-coupled electron transport, cellular respiration, and precursors of metabolite generation and energy. A very homogeneous structure was also observed for the Brazilian soybean germplasm, and we observed 41 regions putatively influenced by positive selection. Finally, we detected 3,880 regions with copy-number variations (CNVs) that could help to explain the divergence among the accessions evaluated. The large number of allelic and structural variations identified in this study can be used in marker-assisted selection programs to detect unique SNPs for cultivar fingerprinting. The results presented here suggest that despite the diversification of modern Brazilian cultivars, the soybean germplasm remains very narrow because of the large number of genome regions that exhibit low diversity. These results emphasize the need to introduce new alleles to increase the genetic diversity of the Brazilian germplasm. MenosSoybean [Glycine max (L.) Merrill] is one of the most important legumes cultivated worldwide, and Brazil is one of the main producers of this crop. Since the sequencing of its reference genome, interest in structural and allelic variations of cultivated and wild soybean germplasm has grown. To investigate the genetics of the Brazilian soybean germplasm, we selected soybean cultivars based on the year of commercialization, geographical region and maturity group and resequenced their genomes. We resequenced the genomes of 28 Brazilian soybean cultivars with an average genome coverage of 14.8X. A total of 5,835,185 single nucleotide polymorphisms (SNPs) and 1,329,844 InDels were identified across the 20 soybean chromosomes, with 541,762 SNPs, 98,922 InDels and 1,093 CNVs that were exclusive to the 28 Brazilian cultivars. In addition, 668 allelic variations of 327 genes were shared among all of the Brazilian cultivars, including genes related to DNA-dependent transcription-elongation, photosynthesis, ATP synthesis-coupled electron transport, cellular respiration, and precursors of metabolite generation and energy. A very homogeneous structure was also observed for the Brazilian soybean germplasm, and we observed 41 regions putatively influenced by positive selection. Finally, we detected 3,880 regions with copy-number variations (CNVs) that could help to explain the divergence among the accessions evaluated. The large number of allelic and structural variations identified in thi... Mostrar Tudo |
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Thesagro: |
Genoma; Soja; Variação genética; Variedade. |
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Thesaurus Nal: |
Cultivars; Genetic variation; High-throughput nucleotide sequencing; Soybeans. |
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Categoria do assunto: |
G Melhoramento Genético |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/139105/1/Evaluation-of-genetic-variation-among-Brazilian-soybean-cultivars-through-genome-resequencing.pdf
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Marc: |
LEADER 02986naa a2200373 a 4500
001 2037089
005 2017-06-19
008 2016 bl uuuu u00u1 u #d
022 $a1471-2164
024 7 $a10.1186/s12864-016-2431-x$2DOI
100 1 $aSANTOS, J. V. M. dos
245 $aEvaluation of genetic variation among Brazilian soybean cultivars through genome resequencing.$h[electronic resource]
260 $c2016
520 $aSoybean [Glycine max (L.) Merrill] is one of the most important legumes cultivated worldwide, and Brazil is one of the main producers of this crop. Since the sequencing of its reference genome, interest in structural and allelic variations of cultivated and wild soybean germplasm has grown. To investigate the genetics of the Brazilian soybean germplasm, we selected soybean cultivars based on the year of commercialization, geographical region and maturity group and resequenced their genomes. We resequenced the genomes of 28 Brazilian soybean cultivars with an average genome coverage of 14.8X. A total of 5,835,185 single nucleotide polymorphisms (SNPs) and 1,329,844 InDels were identified across the 20 soybean chromosomes, with 541,762 SNPs, 98,922 InDels and 1,093 CNVs that were exclusive to the 28 Brazilian cultivars. In addition, 668 allelic variations of 327 genes were shared among all of the Brazilian cultivars, including genes related to DNA-dependent transcription-elongation, photosynthesis, ATP synthesis-coupled electron transport, cellular respiration, and precursors of metabolite generation and energy. A very homogeneous structure was also observed for the Brazilian soybean germplasm, and we observed 41 regions putatively influenced by positive selection. Finally, we detected 3,880 regions with copy-number variations (CNVs) that could help to explain the divergence among the accessions evaluated. The large number of allelic and structural variations identified in this study can be used in marker-assisted selection programs to detect unique SNPs for cultivar fingerprinting. The results presented here suggest that despite the diversification of modern Brazilian cultivars, the soybean germplasm remains very narrow because of the large number of genome regions that exhibit low diversity. These results emphasize the need to introduce new alleles to increase the genetic diversity of the Brazilian germplasm.
650 $aCultivars
650 $aGenetic variation
650 $aHigh-throughput nucleotide sequencing
650 $aSoybeans
650 $aGenoma
650 $aSoja
650 $aVariação genética
650 $aVariedade
700 1 $aVALLIYODAN, B.
700 1 $aJOSHI, T.
700 1 $aKHAN, S. M.
700 1 $aLIU, YANG.
700 1 $aWANG, J.
700 1 $aVUONG, T. D.
700 1 $aOLIVEIRA, M. F. de
700 1 $aMARCELINO-GUIMARÃES, F. C.
700 1 $aXU, D.
700 1 $aNGUYEN, H. T.
700 1 $aABDELNOOR, R. V.
773 $tBMC Genomics$gv. 17, n. 110, 18 p., Feb. 2016.
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Registro original: |
Embrapa Soja (CNPSO) |
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Biblioteca |
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| Registros recuperados : 8 | |
| 1. |  | TORKAMANEH, D.; LAROCHE, J.; VALLIYODAN, B.; O"DONOUGHUE, L.; COBER, E.; RAJCAN, I.; ABDELNOOR, R. V.; SREEDASYAM, A.; SCHMUTZ, J.; NGUYEN, H. T.; BELZILE, F. Soybean (Glycine max) Haplotype Map (GmHapMap): a universal resource for soybean translational and functional genomics. Plant Biotechnology Journal, v. 19, p. 324-334, 2021. 11 p.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Soja. |
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| 2. | | CHANDNANI, R.; QIN, T.; YE, H.; HU, H.; PANJVANI, K.; TOKIZAWA, M.; MACIAS, J. M.; MEDINA, A. A.; BERNARDINO, K. C.; PRADIER, P.-L.; BANIK, P.; MOONEY, A.; MAGALHAES, J. V. de; NGUYEN, H. T.; KOCHIAN, L. V. Application of an improved 2-dimensional high-throughput soybean root phenotyping platform to identify novel genetic variants regulating root architecture traits. Plant Phenomics, v. 5, article 97, 2023.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Milho e Sorgo. |
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| 3. | | SANTOS, J. V. M.; JOSHI, T.; KHAN, S. M.; LIU, Y.; WANG, J.; VUONG, T. D.; MARCELINO-GUIMARÃES, F. C.; OLIVEIRA, M. F. de; VALLIYODAN, B.; XU, D.; NGUYEN, H. T.; ABDELNOOR, R. V. Copy-number variations reveal divergence among brazilian soybean cultivars. In: CONGRESSO BRASILEIRO DE SOJA, 7.; MERCOSOJA, 2015, Florianópolis. Tecnologia e mercado global: perspectivas para soja: anais. Londrina: Embrapa Soja, 2015. 3 p. 1 CD-ROM.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 4. | | SANTOS, J. V. M. dos; VALLIYODAN, B.; JOSHI, T.; KHAN, S. M.; LIU, YANG.; WANG, J.; VUONG, T. D.; OLIVEIRA, M. F. de; MARCELINO-GUIMARÃES, F. C.; XU, D.; NGUYEN, H. T.; ABDELNOOR, R. V. Evaluation of genetic variation among Brazilian soybean cultivars through genome resequencing. BMC Genomics, v. 17, n. 110, 18 p., Feb. 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Soja. |
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| 5. | | SANTOS, J. V. M. dos; JOSHI, T.; KHAN, S. M.; LIU, Y.; WANG, J.; VUONG, T. D.; MARCELINO-GUIMARÃES, F. C.; OLIVEIRA, M. F. de; VALLIYODAN, B.; XU, D.; NGUYEN, H. T.; ABDELNOOR, R. V. Genomic analysis of soybean accessions for allelic variations identification in brazilian germplasm. In: CONGRESSO BRASILEIRO DE SOJA, 7.; MERCOSOJA, 2015, Florianópolis. Tecnologia e mercado global: perspectivas para soja: anais. Londrina: Embrapa Soja, 2015. 3 p. 1 CD-ROM.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 6. | | MALDONADO DOS SANTOS, J. V.; JOSHI, T.; VALLIYODAN, B.; KHAN, S. M.; LIU, Y.; WANG, J.; VUONG, T. D.; OLIVEIRA, M. F. de; MARCELINO-GUIMARÃES, F. C.; XU, D.; NGUYEN, H. T.; ABDELNOOR, R. V. Identification of allelic variations in RHG1 Loci associated to the resistance to soybean cyst nematode. In: INTERNATIONAL CONGRESS OF PLANT MOLECULAR BIOLOGY, 11., 2015, Iguassu Falls. Abstract... Abstract: 568.pdf. Autoria: MALDONADO DOS SANTOS, J. V. [i.e. SANTOS, J. V. M. dos].| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 7. | | ABDALLA G.; MUSSAGY, C. U.; BRASIL, G. S. P.; SCONTRI, M.; SASAKI, J. C. S.; SU, Y.; BEBBER, C.; ROCHA, R. R.; ABREU, A. P. S.; GONÇALVES, R. P.; BURD, B. S.; PACHECO, M. F.; ROMEIRA, K. M.; PICHELI, F. P.; GUERRA, N. B.; FARHADI, N.; FLORIANO, J. F.; FORSTER, S.; HE, S.; NGUYEN, H. T.; PEIRSMAN, A.; TIRPAKOV, Z.; HUANG, S.; DOKMECIi, M. R.; FERREIRA, E. S.; Santos, L. S. dos; PIAZZA, R. D.; MARQUES, R. F. C.; GOMÉZ, A.; JUCAUD, V.; LI, B.; AZEREDO, H. M. C. de; HERCULANO, R. D. Eco-sustainable coatings based on chitosan, pectin, and lemon essential oil nanoemulsion and their effect on strawberry preservation. International Journal of Biological Macromolecules, v. 249, 126016, 2023. 1 - 15| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Instrumentação. |
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| 8. | | MCCOUCH, S.; NAVABI, Z. K.; ABBERTON, M.; ANGLIN, N. L.; BARBIERI, R. L.; BAUM, M.; BETT, K.; BOOKER, H.; BROWN, G. L.; BRYAN, G. J.; CATTIVELLI, L.; CHAREST, D.; EVERSOLE, K.; FREITAS, M.; GHAMKHAR, K.; GRATTAPAGLIA, D.; HENRY, R.; INGLIS, M. C. V.; ISLAM, T.; KEHEL, Z.; KERSEY, P.; KING, G. J.; KRESOVICH, S.; MARDEN, E.; MAYES, S.; NDJIONDJOP, M. N.; NGUYEN, H. T.; PAIVA, S. R.; PAPA, R.; PHILLIPS, P. W. B.; RASHEED, A.; RICHARDS, C.; ROUARD, M.; SAMPAIO, M. J. A.; SCHOLZ, U.; SHAW, P. D.; SHERMAN, B.; STATON, S. E.; STEIN, N.; SVENSSON, J.; TESTER, M.; VALLS, J. F. M.; VARSHNEY, R.; VISSCHER, S.; WETTBERG, E. von; WAUGH, R.; WENZL, P.; RIESEBERG, L. H. Mobilizing crop biodiversity. Molecular Plant, v. 13, p. 1341-1344, 2020.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| Registros recuperados : 8 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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