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| Acceso al texto completo restringido a Biblioteca INIA Treinta y Tres. Por información adicional contacte bibliott@inia.org.uy. |
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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| Acceso al texto completo restringido a Biblioteca INIA Las Brujas. Por información adicional contacte bibliolb@inia.org.uy. |
Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
Fecha actual : |
21/02/2014 |
Actualizado : |
23/10/2019 |
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
Circulación / Nivel : |
Internacional - -- |
Autor : |
SANDERS, D.C.; CURE, J.D.; SPERRY, W.J.; GILSANZ, J.C.; PRINCE, C.A.; BANDELE, O. |
Afiliación : |
DOUGLAS C. SANDERS, Universidad de North Carolina State (NCSU); J.D. CURE, Universidad de North Carolina State (NCSU); Universidad de Tennesse; JUAN CARLOS GILSANZ MARTINEZ, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
Título : |
Long-term effects of rows per bed and in-row spacing on yield and spear size of asparagus |
Fecha de publicación : |
1998 |
Fuente / Imprenta : |
HortScience, 1998, 33 (4): 652-654 |
DOI : |
10.21273/HORTSCI.33.4.652 |
Idioma : |
Inglés |
Notas : |
Article history: Received for publication 4 June 1997 / Accepted for publication 28 Oct. 1997 / Print Publication Date: 01 Jul 1998 / Online Publication Date: Jul 1998 |
Contenido : |
ABSTRACT.
Three studies were conducted at Clinton, N.C., to investigate the relationship between number of rows per bed, in-row spacing, and spear yield of asparagus (Asparagus officinalis
L. ) over 11to 13years. In the first study, increasing plant densities from 21,550 to 43,100 plants/ha by doubling the number of rows/bed increased the cumulative yield from 64% to 80% for three hybrid lines ('UC 157', 'WSU 1', and 'WSU 2') but only 6% for 'Rutgers Beacon '.The effects of doubling the plant density were still apparent 13years later. In the second study, yields of 'Princeville' ('Mary Washington' selection) crowns, grown at densities from 14,000 to 86,000 plants/ha, were also increased for 8 years by doubling rows at various in-row spacings. In a third study, in which densities ranged from 21,000 to 387,900 plants/ha, the magnitude of the response to rows/bed was dependent on in-row spacing. Efficient use of bed space and the avoidance of crowding exerted a larger influence on productivity than did average planting density. The yield response to rows/ bed was greater and more persistent through the years for wider in-row spacings. Spear size was only marginally responsive to rows per bed and in-row spacing. |
Thesagro : |
ASPARAGUS OFFICINALIS; ESPARRAGO. |
Asunto categoría : |
-- |
Marc : |
LEADER 02014naa a2200229 a 4500 001 1012858 005 2019-10-23 008 1998 bl uuuu u00u1 u #d 024 7 $a10.21273/HORTSCI.33.4.652$2DOI 100 1 $aSANDERS, D.C. 245 $aLong-term effects of rows per bed and in-row spacing on yield and spear size of asparagus 260 $c1998 500 $aArticle history: Received for publication 4 June 1997 / Accepted for publication 28 Oct. 1997 / Print Publication Date: 01 Jul 1998 / Online Publication Date: Jul 1998 520 $aABSTRACT. Three studies were conducted at Clinton, N.C., to investigate the relationship between number of rows per bed, in-row spacing, and spear yield of asparagus (Asparagus officinalis L. ) over 11to 13years. In the first study, increasing plant densities from 21,550 to 43,100 plants/ha by doubling the number of rows/bed increased the cumulative yield from 64% to 80% for three hybrid lines ('UC 157', 'WSU 1', and 'WSU 2') but only 6% for 'Rutgers Beacon '.The effects of doubling the plant density were still apparent 13years later. In the second study, yields of 'Princeville' ('Mary Washington' selection) crowns, grown at densities from 14,000 to 86,000 plants/ha, were also increased for 8 years by doubling rows at various in-row spacings. In a third study, in which densities ranged from 21,000 to 387,900 plants/ha, the magnitude of the response to rows/bed was dependent on in-row spacing. Efficient use of bed space and the avoidance of crowding exerted a larger influence on productivity than did average planting density. The yield response to rows/ bed was greater and more persistent through the years for wider in-row spacings. Spear size was only marginally responsive to rows per bed and in-row spacing. 650 $aASPARAGUS OFFICINALIS 650 $aESPARRAGO 700 1 $aCURE, J.D. 700 1 $aSPERRY, W.J. 700 1 $aGILSANZ, J.C. 700 1 $aPRINCE, C.A. 700 1 $aBANDELE, O. 773 $tHortScience, 1998, 33 (4): 652-654
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