DPS - a rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque

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Standard

DPS - a rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque. / Kot, Witold Piotr; Vogensen, Finn Kvist; Sørensen, Søren Johannes; Hansen, Lars H.

I: Journal of Virological Methods, Bind 196, 2014, s. 152-156.

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt

Harvard

Kot, WP, Vogensen, FK, Sørensen, SJ & Hansen, LH 2014, 'DPS - a rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque', Journal of Virological Methods, bind 196, s. 152-156. https://doi.org/10.1016/j.jviromet.2013.10.040

APA

Kot, W. P., Vogensen, F. K., Sørensen, S. J., & Hansen, L. H. (2014). DPS - a rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque. Journal of Virological Methods, 196, 152-156. https://doi.org/10.1016/j.jviromet.2013.10.040

Vancouver

Kot WP, Vogensen FK, Sørensen SJ, Hansen LH. DPS - a rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque. Journal of Virological Methods. 2014;196:152-156. https://doi.org/10.1016/j.jviromet.2013.10.040

Author

Kot, Witold Piotr ; Vogensen, Finn Kvist ; Sørensen, Søren Johannes ; Hansen, Lars H. / DPS - a rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque. I: Journal of Virological Methods. 2014 ; Bind 196. s. 152-156.

Bibtex

@article{325e9ecf9f654cc6abf36ad2f28f1089,
title = "DPS - a rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque",
abstract = "Bacteriophages (phages) coexist with bacteria in all environments and influence microbial diversity, evolution and industrial production processes. As a result of this major impact of phages on microbes, tools that allow rapid characterization of phages are needed. Today, one of the most powerful methods for characterization of phages is determination of the whole genome using high throughput sequencing approaches. Here a direct plaque sequencing (DPS) is described, which is a rapid method that allows easy full genome sequencing of DNA-containing phages using the Nextera XT{\texttrademark} kit. A combination of host-DNA removal followed by purification and concentration of the viral DNA, allowed the construction of Illumina-compatible sequencing libraries using the Nextera{\texttrademark} XT technology directly from single phage plaques without any whole genome amplification step. This method was tested on three Caudovirales phages; ϕ29 Podoviridae, P113g Siphoviridae and T4 Myovirdae, which are representative of >96% of all known phages, and were sequenced using the Illumina MiSeq platform. Successful de novo assembly of the viral genomes was possible.",
author = "Kot, {Witold Piotr} and Vogensen, {Finn Kvist} and S{\o}rensen, {S{\o}ren Johannes} and Hansen, {Lars H.}",
note = "Copyright {\textcopyright} 2013 Elsevier B.V. All rights reserved.",
year = "2014",
doi = "10.1016/j.jviromet.2013.10.040",
language = "English",
volume = "196",
pages = "152--156",
journal = "Journal of Virological Methods",
issn = "0166-0934",
publisher = "Elsevier",

}

RIS

TY - JOUR

T1 - DPS - a rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque

AU - Kot, Witold Piotr

AU - Vogensen, Finn Kvist

AU - Sørensen, Søren Johannes

AU - Hansen, Lars H.

N1 - Copyright © 2013 Elsevier B.V. All rights reserved.

PY - 2014

Y1 - 2014

N2 - Bacteriophages (phages) coexist with bacteria in all environments and influence microbial diversity, evolution and industrial production processes. As a result of this major impact of phages on microbes, tools that allow rapid characterization of phages are needed. Today, one of the most powerful methods for characterization of phages is determination of the whole genome using high throughput sequencing approaches. Here a direct plaque sequencing (DPS) is described, which is a rapid method that allows easy full genome sequencing of DNA-containing phages using the Nextera XT™ kit. A combination of host-DNA removal followed by purification and concentration of the viral DNA, allowed the construction of Illumina-compatible sequencing libraries using the Nextera™ XT technology directly from single phage plaques without any whole genome amplification step. This method was tested on three Caudovirales phages; ϕ29 Podoviridae, P113g Siphoviridae and T4 Myovirdae, which are representative of >96% of all known phages, and were sequenced using the Illumina MiSeq platform. Successful de novo assembly of the viral genomes was possible.

AB - Bacteriophages (phages) coexist with bacteria in all environments and influence microbial diversity, evolution and industrial production processes. As a result of this major impact of phages on microbes, tools that allow rapid characterization of phages are needed. Today, one of the most powerful methods for characterization of phages is determination of the whole genome using high throughput sequencing approaches. Here a direct plaque sequencing (DPS) is described, which is a rapid method that allows easy full genome sequencing of DNA-containing phages using the Nextera XT™ kit. A combination of host-DNA removal followed by purification and concentration of the viral DNA, allowed the construction of Illumina-compatible sequencing libraries using the Nextera™ XT technology directly from single phage plaques without any whole genome amplification step. This method was tested on three Caudovirales phages; ϕ29 Podoviridae, P113g Siphoviridae and T4 Myovirdae, which are representative of >96% of all known phages, and were sequenced using the Illumina MiSeq platform. Successful de novo assembly of the viral genomes was possible.

U2 - 10.1016/j.jviromet.2013.10.040

DO - 10.1016/j.jviromet.2013.10.040

M3 - Journal article

C2 - 24239631

VL - 196

SP - 152

EP - 156

JO - Journal of Virological Methods

JF - Journal of Virological Methods

SN - 0166-0934

ER -

ID: 101291913