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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 Treinta y Tres. |
Fecha actual : |
27/08/2018 |
Actualizado : |
05/07/2019 |
Tipo de producción científica : |
Capítulo en Libro Técnico-Científico |
Autor : |
MACEDO, I.; OXLEY, A.; ROEL, A. |
Afiliación : |
IGNACIO MACEDO YAPOR, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; ALBERTO MATIAS OXLEY BARRIOS, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; ALVARO ROEL DELLAZOPPA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
Título : |
Principales requerimientos climáticos: ¿Cambió algo con 21 años más de datos? |
Fecha de publicación : |
2018 |
Fuente / Imprenta : |
In: Zorrilla, G.; Martínez, S.; Terra, J. A. Saravia, H. (Eds.) Arroz 2018. Montevideo (UY): INIA, 2018. |
Páginas : |
p. 3-5. |
Serie : |
(INIA Serie Técnica; 246) |
ISBN : |
978-9974-38-404-0 |
ISSN : |
1688-9266 |
DOI : |
http://doi.org/10.35676/INIA/ST.246 |
Idioma : |
Español |
Thesagro : |
ARROZ; CAMBIO CLIMÁTICO; CLIMA; URUGUAY. |
Asunto categoría : |
F01 Cultivo |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/11114/1/Macedo-ST-246-p.3-5.pdf
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Marc : |
LEADER 00751naa a2200241 a 4500 001 1058948 005 2019-07-05 008 2018 bl uuuu u00u1 u #d 020 $a978-9974-38-404-0 022 $a1688-9266 024 7 $ahttp://doi.org/10.35676/INIA/ST.246$2DOI 100 1 $aMACEDO, I. 245 $aPrincipales requerimientos climáticos$b¿Cambió algo con 21 años más de datos?$h[electronic resource] 260 $c2018 300 $ap. 3-5. 490 $a(INIA Serie Técnica; 246) 650 $aARROZ 650 $aCAMBIO CLIMÁTICO 650 $aCLIMA 650 $aURUGUAY 700 1 $aOXLEY, A. 700 1 $aROEL, A. 773 $tIn: Zorrilla, G.; Martínez, S.; Terra, J. A. Saravia, H. (Eds.) Arroz 2018. Montevideo (UY): INIA, 2018.
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