|
|
Registro Completo |
Biblioteca(s): |
Embrapa Recursos Genéticos e Biotecnologia. |
Data corrente: |
26/03/2019 |
Data da última atualização: |
21/06/2022 |
Tipo da produção científica: |
Resumo em Anais de Congresso |
Autoria: |
PESSOA FILHO, M. A. C. de P.; SOUZA SOBRINHO, F. de; FRAGOSO, R. da R.; SILVA JUNIOR, O. B. da; FERREIRA, M. E. |
Afiliação: |
MARCO AURELIO CALDAS DE PINHO PESSO, CPAC; FAUSTO DE SOUZA SOBRINHO, CNPGL; RODRIGO DA ROCHA FRAGOSO, CPAC; ORZENIL BONFIM DA SILVA JUNIOR, Cenargen; MARCIO ELIAS FERREIRA, Cenargen. |
Título: |
A phased diploid genome assembly for the forage grass urochloa ruziziensis based on single-molecule real-time sequencing. |
Ano de publicação: |
2019 |
Fonte/Imprenta: |
In: PLANT AND ANIMAL GENOME CONFERENCE, 27., 2019, San Diego. Proceedings... Livingston, NJ: Scherago, 2019 |
Idioma: |
Inglês |
Notas: |
Plant and Animal Genome XXVII Conference (PAG). |
Conteúdo: |
Ruzigrass (Urochloa ruziziensis) is a diploid, tropical forage grass native to Africa, widely planted in Brazil, known for its high nutritional quality. It is closely related to important forage species of Urochloa, and plays a crucial role in the breeding program of brachiaria grasses, mostly focused on inter-specific hybirds. Previous studies from our group based on shallow Illumina sequencing resulted in the development of the first molecular markers for the species (Silva et al., 2013), as well as in assessments of germplasm diversity and structure (Pessoa-Filho et al., 2015). Assembly and analysis of complete plastid genomes for four Urochloa species allowed the characterization of their phylogenetic divergence (Pessoa-Filho et al., 2017). Here, we present a near-complete phased diploid genome assembly of the heterozygous ruzigrass clone C69. We used PacBio Sequel to generate over 13.3 million long reads (mean size 6.5 kbp), adding up to 87.5 Gbp of raw data (~142x coverage). The current diploid assembly using FALCON-Unzip contains ~603 Mbp in 3,539 primary contigs, with NG50 of 286 kbp, and covers 98.2% of the estimated haploid genome size of 615 Mbp for ruzigrass. In addition, 82% of the assembly could be phased as separate haplotypes, with ~500 Mbp resolved as haplotigs. Assessment of assembly completeness showed 95.2% BUSCO matches as complete, and 83.3% as complete single-copy. Ongoing research includes transcriptome assembly to aid gene prediction and annotation, anchoring of contigs in linkage maps, and Hi-C scaffolding. A high-quality, chromosome-scale genome assembly for ruzigrass will aid research groups in the development and application of genomic tools in breeding and genetics of brachiaria grasses. MenosRuzigrass (Urochloa ruziziensis) is a diploid, tropical forage grass native to Africa, widely planted in Brazil, known for its high nutritional quality. It is closely related to important forage species of Urochloa, and plays a crucial role in the breeding program of brachiaria grasses, mostly focused on inter-specific hybirds. Previous studies from our group based on shallow Illumina sequencing resulted in the development of the first molecular markers for the species (Silva et al., 2013), as well as in assessments of germplasm diversity and structure (Pessoa-Filho et al., 2015). Assembly and analysis of complete plastid genomes for four Urochloa species allowed the characterization of their phylogenetic divergence (Pessoa-Filho et al., 2017). Here, we present a near-complete phased diploid genome assembly of the heterozygous ruzigrass clone C69. We used PacBio Sequel to generate over 13.3 million long reads (mean size 6.5 kbp), adding up to 87.5 Gbp of raw data (~142x coverage). The current diploid assembly using FALCON-Unzip contains ~603 Mbp in 3,539 primary contigs, with NG50 of 286 kbp, and covers 98.2% of the estimated haploid genome size of 615 Mbp for ruzigrass. In addition, 82% of the assembly could be phased as separate haplotypes, with ~500 Mbp resolved as haplotigs. Assessment of assembly completeness showed 95.2% BUSCO matches as complete, and 83.3% as complete single-copy. Ongoing research includes transcriptome assembly to aid gene prediction and annotation, ... Mostrar Tudo |
Palavras-Chave: |
Brasil. |
Thesagro: |
Capim Urochloa; Genoma. |
Categoria do assunto: |
K Ciência Florestal e Produtos de Origem Vegetal |
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/194810/1/abstract-PAG-XXVII.pdf
|
Marc: |
LEADER 02499nam a2200205 a 4500 001 2107476 005 2022-06-21 008 2019 bl uuuu u01u1 u #d 100 1 $aPESSOA FILHO, M. A. C. de P. 245 $aA phased diploid genome assembly for the forage grass urochloa ruziziensis based on single-molecule real-time sequencing.$h[electronic resource] 260 $aIn: PLANT AND ANIMAL GENOME CONFERENCE, 27., 2019, San Diego. Proceedings... Livingston, NJ: Scherago$c2019 500 $aPlant and Animal Genome XXVII Conference (PAG). 520 $aRuzigrass (Urochloa ruziziensis) is a diploid, tropical forage grass native to Africa, widely planted in Brazil, known for its high nutritional quality. It is closely related to important forage species of Urochloa, and plays a crucial role in the breeding program of brachiaria grasses, mostly focused on inter-specific hybirds. Previous studies from our group based on shallow Illumina sequencing resulted in the development of the first molecular markers for the species (Silva et al., 2013), as well as in assessments of germplasm diversity and structure (Pessoa-Filho et al., 2015). Assembly and analysis of complete plastid genomes for four Urochloa species allowed the characterization of their phylogenetic divergence (Pessoa-Filho et al., 2017). Here, we present a near-complete phased diploid genome assembly of the heterozygous ruzigrass clone C69. We used PacBio Sequel to generate over 13.3 million long reads (mean size 6.5 kbp), adding up to 87.5 Gbp of raw data (~142x coverage). The current diploid assembly using FALCON-Unzip contains ~603 Mbp in 3,539 primary contigs, with NG50 of 286 kbp, and covers 98.2% of the estimated haploid genome size of 615 Mbp for ruzigrass. In addition, 82% of the assembly could be phased as separate haplotypes, with ~500 Mbp resolved as haplotigs. Assessment of assembly completeness showed 95.2% BUSCO matches as complete, and 83.3% as complete single-copy. Ongoing research includes transcriptome assembly to aid gene prediction and annotation, anchoring of contigs in linkage maps, and Hi-C scaffolding. A high-quality, chromosome-scale genome assembly for ruzigrass will aid research groups in the development and application of genomic tools in breeding and genetics of brachiaria grasses. 650 $aCapim Urochloa 650 $aGenoma 653 $aBrasil 700 1 $aSOUZA SOBRINHO, F. de 700 1 $aFRAGOSO, R. da R. 700 1 $aSILVA JUNIOR, O. B. da 700 1 $aFERREIRA, M. E.
Download
Esconder MarcMostrar Marc Completo |
Registro original: |
Embrapa Recursos Genéticos e Biotecnologia (CENARGEN) |
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
URL |
Voltar
|
|
Registro Completo
Biblioteca(s): |
Embrapa Amazônia Oriental. |
Data corrente: |
27/07/1998 |
Data da última atualização: |
24/08/2012 |
Autoria: |
HÜHN, S.; DANTAS, R. B.; MORAES, C. A. C.; FREITAS, I. M. de; BRITO, M. J. B.; MEDEIROS, N. L. |
Afiliação: |
SEBASTIÃO H¨HN, CPATU; RAIMUNDO BRITO DANTAS, DFAARA-PA; CARLOS ALBERTO C. MORAES, DFAARA-PA; IVALDO MAGALHÃES DE FREITAS, EMATER-PA; MARIA JOANA BAIA BRITO, DFAARA-PA; NILCE LIMEIRA MEDEIROS, DFAARA-PA. |
Título: |
Detecção de Salmonella em pimenta-do-reino e métodos para descontaminação. |
Ano de publicação: |
1997 |
Fonte/Imprenta: |
In: SEMINÁRIO INTERNACIONAL SOBRE PIMENTA-DO-REINO E CUPUAÇU, 1996, Belém, PA. Anais... Belém, PA: EMBRAPA-CPATU: JICA, 1997. |
Páginas: |
p. 423-427. |
Série: |
(EMBRAPA-CPATU. Documentos, 89). |
Idioma: |
Português |
Palavras-Chave: |
Biological contamination; Contaminação biológica; Desinfectants; Etileno de amino-tetra-acetico; Food hygiene; Hipoclorito de sodio; Pimenta-do-reino. |
Thesagro: |
Controle Químico; Desinfecção; Higiene de Alimento; Piper Nigrum; Salmonella; Salmonelose. |
Thesaurus NAL: |
chelating agents; chemical control; chlorine; disinfection. |
Categoria do assunto: |
-- |
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/64933/1/Doc89-p423.pdf
|
Marc: |
LEADER 01190nam a2200385 a 4500 001 1394596 005 2012-08-24 008 1997 bl uuuu u00u1 u #d 100 1 $aHÜHN, S. 245 $aDetecção de Salmonella em pimenta-do-reino e métodos para descontaminação. 260 $aIn: SEMINÁRIO INTERNACIONAL SOBRE PIMENTA-DO-REINO E CUPUAÇU, 1996, Belém, PA. Anais... Belém, PA: EMBRAPA-CPATU: JICA$c1997 300 $ap. 423-427. 490 $a(EMBRAPA-CPATU. Documentos, 89). 650 $achelating agents 650 $achemical control 650 $achlorine 650 $adisinfection 650 $aControle Químico 650 $aDesinfecção 650 $aHigiene de Alimento 650 $aPiper Nigrum 650 $aSalmonella 650 $aSalmonelose 653 $aBiological contamination 653 $aContaminação biológica 653 $aDesinfectants 653 $aEtileno de amino-tetra-acetico 653 $aFood hygiene 653 $aHipoclorito de sodio 653 $aPimenta-do-reino 700 1 $aDANTAS, R. B. 700 1 $aMORAES, C. A. C. 700 1 $aFREITAS, I. M. de 700 1 $aBRITO, M. J. B. 700 1 $aMEDEIROS, N. L.
Download
Esconder MarcMostrar Marc Completo |
Registro original: |
Embrapa Amazônia Oriental (CPATU) |
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
Fechar
|
Nenhum registro encontrado para a expressão de busca informada. |
|
|