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Registro completo
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Biblioteca (s) : |
INIA Treinta y Tres. |
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Fecha : |
21/02/2014 |
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Actualizado : |
13/09/2018 |
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Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
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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. |
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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. |
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Título : |
Enrichment allows identification of diverse, rate elements in metagenomic resistome-virulome sequencing. |
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Fecha de publicación : |
2017 |
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Fuente / Imprenta : |
Microbiome, 2017, 5, p. 142 |
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Páginas : |
13 p. |
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DOI : |
10.1186/s40168-017-0361-8 |
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Idioma : |
Inglés |
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Notas : |
Article History: Received: 29 May 2017, Accepted: 5 October 2017, Published: 17 October 2017 |
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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 |
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Palabras claves : |
ANTIMICROBIAL RESISTANCE; METAGENÓMICA; MICROBIAL ECOLOGY; MOLECULAR ENRICHMENT; RARE MICROBIOME; RESISTOME. |
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Thesagro : |
ANALISIS BIOLOGICO; ECOLOGIA MICROBIANA; RESISTENCIA A AGENTES DANINOS. |
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Asunto categoría : |
U30 Métodos de investigación |
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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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Registro original : |
INIA Treinta y Tres (TT) |
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Registro completo
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Biblioteca (s) : |
INIA Las Brujas; INIA Tacuarembó; INIA Treinta y Tres. |
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Fecha actual : |
21/02/2014 |
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Actualizado : |
03/02/2018 |
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Tipo de producción científica : |
Capítulo en Libro Técnico-Científico |
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Autor : |
AYALA, W.; BERMÚDEZ, R. |
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Afiliación : |
WALTER FELIZARDO AYALA SILVERA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; RAÚL ENRIQUE BERMÚDEZ COQUARD, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
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Título : |
Fertilización fosfatada sobre mejoramiento de campo con Lotus CV. El Rincón y Lotus CV. Maku en suelos superficiales |
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Fecha de publicación : |
2008 |
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Fuente / Imprenta : |
In: Bermúdez, R.; Ayala, W. (Ed.). Seminario de actualización técnica: fertilización fosfatada de pasturas en la Región Este. Montevideo (Uruguay): INIA, 2008. |
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Páginas : |
p. 51-61 |
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Serie : |
(INIA Serie Técnica ; 172) |
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ISBN : |
978-9974-38-253-4 |
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ISSN : |
1688-9266 |
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Idioma : |
Español |
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Notas : |
El presente artículo tiene ampliaciones respecto al publicado en la Serie Actividades de Difusión N° 324 de INIA Treinta y Tres (2003). |
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Thesagro : |
ABONOS FOSFATADOS; ANALISIS DEL SUELO; LOTUS. |
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Asunto categoría : |
--
F04 Fertilización |
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URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/7770/1/st-172-2008-p.51-61.pdf
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Marc : |
LEADER 00890naa a2200217 a 4500
001 1008157
005 2018-02-03
008 2008 bl uuuu u00u1 u #d
020 $a978-9974-38-253-4
022 $a1688-9266
100 1 $aAYALA, W.
245 $aFertilización fosfatada sobre mejoramiento de campo con Lotus CV. El Rincón y Lotus CV. Maku en suelos superficiales
260 $c2008
300 $ap. 51-61
490 $a(INIA Serie Técnica ; 172)
500 $aEl presente artículo tiene ampliaciones respecto al publicado en la Serie Actividades de Difusión N° 324 de INIA Treinta y Tres (2003).
650 $aABONOS FOSFATADOS
650 $aANALISIS DEL SUELO
650 $aLOTUS
700 1 $aBERMÚDEZ, R.
773 $tIn: Bermúdez, R.; Ayala, W. (Ed.). Seminario de actualización técnica: fertilización fosfatada de pasturas en la Región Este. Montevideo (Uruguay): INIA, 2008.
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