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Biblioteca (s) : |
INIA Treinta y Tres. |
Fecha : |
21/02/2014 |
Actualizado : |
13/09/2018 |
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
Autor : |
NOYES, N.R.; WEINROTH, M.E.; PARKER, J.K.; DEAN, C.J.; LAKIN, S.M.; RAYMOND, R.A.; ROVIRA, P.J.; DOSTER, E.; ABDO, Z.; MARTIN, J.N.; JONES, K.L.; RUIZ, J.; BOUCHER, C.A.; BELK, K.E.; MORLEY, P.S. |
Afiliación : |
NOELLE R. NOYES; MAGGIE E. WEINROTH; JENNIFER K. PARKER; CHRIS J. DEAN; STEVEN M. LAKIN; ROBERT A. RAYMOND; PABLO JUAN ROVIRA SANZ, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; ENRIQUE DOSTER; ZAID ABDO; JENNIFER N. MARTIN; KENNETH L. JONES; JAIME RUIZ; CHRISTINA A. BOUCHER; KEITH E. BELK; PAUL S. MORLEY. |
Título : |
Enrichment allows identification of diverse, rate elements in metagenomic resistome-virulome sequencing. |
Fecha de publicación : |
2017 |
Fuente / Imprenta : |
Microbiome, 2017, 5, p. 142 |
Páginas : |
13 p. |
DOI : |
10.1186/s40168-017-0361-8 |
Idioma : |
Inglés |
Notas : |
Article History: Received: 29 May 2017, Accepted: 5 October 2017, Published: 17 October 2017 |
Contenido : |
Background: Shotgun metagenomic sequencing is increasingly utilized as a tool to evaluate ecological-level dynamics of antimicrobial resistance and virulence, in conjunction with microbiome analysis. Interest in use of this method for environmental surveillance of antimicrobial resistance and pathogenic microorganisms is also increasing. In published metagenomic datasets, the total of all resistance- and virulence-related sequences accounts for < 1% of all sequenced DNA, leading to imitations in detection of low-abundance resistome-virulome elements. This study describes the extent and composition of the low-abundance portion of the resistome-virulome, using a bait-capture and enrichment system that incorporates unique molecular indices to count DNA molecules and correct for enrichment bias.
Results: The use of the bait-capture and enrichment system significantly increased on-target sequencing of the resistome-virulome, enabling detection of an additional 1441 gene accessions and revealing a low-abundance portion of the resistome-virulome that was more diverse and compositionally different than that detected by more traditional
metagenomic assays. The low-abundance portion of the resistome-virulome also contained resistance genes with public health importance, such as extended-spectrum betalactamases, that were not detected using traditional shotgun metagenomic sequencing. In addition, the use of the bait-capture and enrichment system enabled identification of rare resistance gene haplotypes that were used to discriminate between sample origins.
Conclusions: These results demonstrate that the rare resistome-virulome contains valuable and unique information that can be utilized for both surveillance and population genetic investigations of resistance. Access to the rare resistomevirulome using the bait-capture and enrichment system validated in this study can greatly advance our understanding of
microbiome-resistome dynamics. MenosBackground: Shotgun metagenomic sequencing is increasingly utilized as a tool to evaluate ecological-level dynamics of antimicrobial resistance and virulence, in conjunction with microbiome analysis. Interest in use of this method for environmental surveillance of antimicrobial resistance and pathogenic microorganisms is also increasing. In published metagenomic datasets, the total of all resistance- and virulence-related sequences accounts for < 1% of all sequenced DNA, leading to imitations in detection of low-abundance resistome-virulome elements. This study describes the extent and composition of the low-abundance portion of the resistome-virulome, using a bait-capture and enrichment system that incorporates unique molecular indices to count DNA molecules and correct for enrichment bias.
Results: The use of the bait-capture and enrichment system significantly increased on-target sequencing of the resistome-virulome, enabling detection of an additional 1441 gene accessions and revealing a low-abundance portion of the resistome-virulome that was more diverse and compositionally different than that detected by more traditional
metagenomic assays. The low-abundance portion of the resistome-virulome also contained resistance genes with public health importance, such as extended-spectrum betalactamases, that were not detected using traditional shotgun metagenomic sequencing. In addition, the use of the bait-capture and enrichment system enabled identification of rare resistan... Presentar Todo |
Palabras claves : |
ANTIMICROBIAL RESISTANCE; METAGENÓMICA; MICROBIAL ECOLOGY; MOLECULAR ENRICHMENT; RARE MICROBIOME; RESISTOME. |
Thesagro : |
ANALISIS BIOLOGICO; ECOLOGIA MICROBIANA; RESISTENCIA A AGENTES DANINOS. |
Asunto categoría : |
U30 Métodos de investigación |
Marc : |
LEADER 03225naa a2200433 a 4500 001 1032862 005 2018-09-13 008 2017 bl uuuu u00u1 u #d 024 7 $a10.1186/s40168-017-0361-8$2DOI 100 1 $aNOYES, N.R. 245 $aEnrichment allows identification of diverse, rate elements in metagenomic resistome-virulome sequencing.$h[electronic resource] 260 $c2017 300 $a13 p. 500 $aArticle History: Received: 29 May 2017, Accepted: 5 October 2017, Published: 17 October 2017 520 $aBackground: Shotgun metagenomic sequencing is increasingly utilized as a tool to evaluate ecological-level dynamics of antimicrobial resistance and virulence, in conjunction with microbiome analysis. Interest in use of this method for environmental surveillance of antimicrobial resistance and pathogenic microorganisms is also increasing. In published metagenomic datasets, the total of all resistance- and virulence-related sequences accounts for < 1% of all sequenced DNA, leading to imitations in detection of low-abundance resistome-virulome elements. This study describes the extent and composition of the low-abundance portion of the resistome-virulome, using a bait-capture and enrichment system that incorporates unique molecular indices to count DNA molecules and correct for enrichment bias. Results: The use of the bait-capture and enrichment system significantly increased on-target sequencing of the resistome-virulome, enabling detection of an additional 1441 gene accessions and revealing a low-abundance portion of the resistome-virulome that was more diverse and compositionally different than that detected by more traditional metagenomic assays. The low-abundance portion of the resistome-virulome also contained resistance genes with public health importance, such as extended-spectrum betalactamases, that were not detected using traditional shotgun metagenomic sequencing. In addition, the use of the bait-capture and enrichment system enabled identification of rare resistance gene haplotypes that were used to discriminate between sample origins. Conclusions: These results demonstrate that the rare resistome-virulome contains valuable and unique information that can be utilized for both surveillance and population genetic investigations of resistance. Access to the rare resistomevirulome using the bait-capture and enrichment system validated in this study can greatly advance our understanding of microbiome-resistome dynamics. 650 $aANALISIS BIOLOGICO 650 $aECOLOGIA MICROBIANA 650 $aRESISTENCIA A AGENTES DANINOS 653 $aANTIMICROBIAL RESISTANCE 653 $aMETAGENÓMICA 653 $aMICROBIAL ECOLOGY 653 $aMOLECULAR ENRICHMENT 653 $aRARE MICROBIOME 653 $aRESISTOME 700 1 $aWEINROTH, M.E. 700 1 $aPARKER, J.K. 700 1 $aDEAN, C.J. 700 1 $aLAKIN, S.M. 700 1 $aRAYMOND, R.A. 700 1 $aROVIRA, P.J. 700 1 $aDOSTER, E. 700 1 $aABDO, Z. 700 1 $aMARTIN, J.N. 700 1 $aJONES, K.L. 700 1 $aRUIZ, J. 700 1 $aBOUCHER, C.A. 700 1 $aBELK, K.E. 700 1 $aMORLEY, P.S. 773 $tMicrobiome, 2017, 5, p. 142
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Biblioteca (s) : |
INIA Las Brujas. |
Fecha actual : |
30/08/2019 |
Actualizado : |
30/08/2019 |
Tipo de producción científica : |
Abstracts/Resúmenes |
Autor : |
BOSCHI, F.; VILARÓ, F.; GALVÁN, G.; SIRI, M. I.; FERREIRA, V.; MURCHIO, S.; SCHVARTZMAN, C.; DALLA RIZZA, M. |
Afiliación : |
F. BOSCHI, INASE (Instituto Nacional de Semillas).; FRANCISCO LUIS VILARO PAREJA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; GUILLERMO GALVÁN, Centro Regional Sur (CRS), Facultad de Agronomía, UdelaR, Uruguay.; M. I. SIRI, Laboratorio de Microbiología Molecular, DEPBIO, Facultad de Química, UdelaR, Uruguay.; V. FERREIRA, Laboratorio de Microbiología Molecular, DEPBIO, Facultad de Química, UdelaR, Uruguay.; MARIA SARA MURCHIO VIGNOLO, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; CLAUDIA SCHVARTZMAN DISEGNI, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; MARCO DALLA RIZZA VILARO, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
Título : |
Aspectos de bioseguridad en la evaluación de papa modificada genéticamente para el control de Ralstonia solanacearum. [p19]. |
Complemento del título : |
Bloque 2: Mejoramiento por resistencia a enfermedades. |
Fecha de publicación : |
2017 |
Fuente / Imprenta : |
In: Sociedad Uruguaya de Fitopatología Jornada Uruguaya de Fitopatología, 4., Jornada Uruguaya de Protección Vegetal, 2., 1° setiembre, 2017, Montevideo, Uruguay. Libro de resúmenes. Montevideo (UY): Sociedad Uruguay de Fitopatología (SUFIT), 2017. |
Páginas : |
p. 39. |
Idioma : |
Español |
Contenido : |
La marchitez bacteriana causada por Ralstonia solanacearum es la principal enfermedad bacteriana en cultivos de papa (Solanum tuberosum), no existiendo al presente variedades comerciales resistentes. El programa de mejoramiento de papa en INIA ha evaluado el gen efr de Arabidopsis thaliana para el desarrollo de genotipos resistentes a marchitez bacteriana. |
Palabras claves : |
RALSTONIA SOLANACEARUM. |
Thesagro : |
BACTERIOSIS; ENFERMEDADES DE LAS PLANTAS; PAPA. |
Asunto categoría : |
H20 Enfermedades de las plantas |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/13181/1/Vilaro-F.-2017-p19-SUFIT-2017.pdf
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Marc : |
LEADER 01320nam a2200253 a 4500 001 1060079 005 2019-08-30 008 2017 bl uuuu u00u1 u #d 100 1 $aBOSCHI, F. 245 $aAspectos de bioseguridad en la evaluación de papa modificada genéticamente para el control de Ralstonia solanacearum. [p19].$h[electronic resource] 260 $aIn: Sociedad Uruguaya de Fitopatología Jornada Uruguaya de Fitopatología, 4., Jornada Uruguaya de Protección Vegetal, 2., 1° setiembre, 2017, Montevideo, Uruguay. Libro de resúmenes. Montevideo (UY): Sociedad Uruguay de Fitopatología (SUFIT)$c2017 300 $ap. 39. 520 $aLa marchitez bacteriana causada por Ralstonia solanacearum es la principal enfermedad bacteriana en cultivos de papa (Solanum tuberosum), no existiendo al presente variedades comerciales resistentes. El programa de mejoramiento de papa en INIA ha evaluado el gen efr de Arabidopsis thaliana para el desarrollo de genotipos resistentes a marchitez bacteriana. 650 $aBACTERIOSIS 650 $aENFERMEDADES DE LAS PLANTAS 650 $aPAPA 653 $aRALSTONIA SOLANACEARUM 700 1 $aVILARÓ, F. 700 1 $aGALVÁN, G. 700 1 $aSIRI, M. I. 700 1 $aFERREIRA, V. 700 1 $aMURCHIO, S. 700 1 $aSCHVARTZMAN, C. 700 1 $aDALLA RIZZA, M.
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