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Registro completo
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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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INIA Treinta y Tres (TT) |
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Biblioteca (s) : |
INIA Tacuarembó. |
Fecha actual : |
11/03/2015 |
Actualizado : |
04/09/2018 |
Tipo de producción científica : |
Documentos |
Autor : |
CARRACELAS, G.; RICCETTO, S.; HUERTAS, R.; VERGER, M. |
Afiliación : |
JULIO GONZALO CARRACELAS GARRIDO, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; SARA MAGDALENA RICCETTO AGUIRREZABALA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; R. HUERTAS, LATU; M. VERGER, latu. |
Título : |
Niveles de arsénico asociado a distintos manejos de riego en diversos cultivares de arroz. |
Fecha de publicación : |
2015 |
Fuente / Imprenta : |
In: Día de campo: arroz. Zafra 2014-2015. Guía de la actividad. Evaluación Nacional de cultivares de arroz. Paso Farías. Artigas, 5 de febrero. Montevideo: INIA, 2015. |
Páginas : |
p. 13-14 |
Idioma : |
Español |
Contenido : |
En el marco del proyecto ?Sustentabilidad ambiental del arroz determinada por el monitoreo de residuos de agroquímicos en suelo, agua y grano y por la aplicación de la Guía de Buenas Prácticas Agrícolas? financiado por la ANII, las instituciones INIA y LATU conjuntamente investigan alternativas a los sistemas de riego tradicionales que contribuyen a disminuir los niveles de arsénico en grano. Por otra parte dado que las distintas variedades de Arroz tienen susceptibilidad diferencial a la acumulación de arsénico en grano, se estudia como los cultivares más tradicionales en el país reaccionan a la modificación del período de anaerobiosis y a la presencia de arsénico en el medio arrocero. |
Thesagro : |
ARROZ; ARSENICO; RIEGO. |
Asunto categoría : |
-- |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/4207/1/Dia-de-Campo-Arroz-Paso-Farias-Febrero-2015.pdf
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Marc : |
LEADER 01351nam a2200193 a 4500 001 1052366 005 2018-09-04 008 2015 bl uuuu u0uu1 u #d 100 1 $aCARRACELAS, G. 245 $aNiveles de arsénico asociado a distintos manejos de riego en diversos cultivares de arroz. 260 $aIn: Día de campo: arroz. Zafra 2014-2015. Guía de la actividad. Evaluación Nacional de cultivares de arroz. Paso Farías. Artigas, 5 de febrero. Montevideo: INIA$c2015 300 $ap. 13-14 520 $aEn el marco del proyecto ?Sustentabilidad ambiental del arroz determinada por el monitoreo de residuos de agroquímicos en suelo, agua y grano y por la aplicación de la Guía de Buenas Prácticas Agrícolas? financiado por la ANII, las instituciones INIA y LATU conjuntamente investigan alternativas a los sistemas de riego tradicionales que contribuyen a disminuir los niveles de arsénico en grano. Por otra parte dado que las distintas variedades de Arroz tienen susceptibilidad diferencial a la acumulación de arsénico en grano, se estudia como los cultivares más tradicionales en el país reaccionan a la modificación del período de anaerobiosis y a la presencia de arsénico en el medio arrocero. 650 $aARROZ 650 $aARSENICO 650 $aRIEGO 700 1 $aRICCETTO, S. 700 1 $aHUERTAS, R. 700 1 $aVERGER, M.
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