Detection of preQ0 deazaguanine modifications in bacteriophage CAjan DNA using Nanopore sequencing reveals same hypermodification at two distinct DNA motifs

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

Detection of preQ0 deazaguanine modifications in bacteriophage CAjan DNA using Nanopore sequencing reveals same hypermodification at two distinct DNA motifs. / Kot, Witold; Olsen, Nikoline S.; Nielsen, Tue K.; Hutinet, Geoffrey; de Crecy-Lagard, Valerie; Cui, Liang; Dedon, Peter C.; Carstens, Alexander B.; Moineau, Sylvain; Swairjo, Manal A.; Hansen, Lars H.

In: Nucleic Acids Symposium Series, Vol. 48, No. 18, 2020, p. 10383-10396.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Kot, W, Olsen, NS, Nielsen, TK, Hutinet, G, de Crecy-Lagard, V, Cui, L, Dedon, PC, Carstens, AB, Moineau, S, Swairjo, MA & Hansen, LH 2020, 'Detection of preQ0 deazaguanine modifications in bacteriophage CAjan DNA using Nanopore sequencing reveals same hypermodification at two distinct DNA motifs', Nucleic Acids Symposium Series, vol. 48, no. 18, pp. 10383-10396. https://doi.org/10.1093/nar/gkaa735

APA

Kot, W., Olsen, N. S., Nielsen, T. K., Hutinet, G., de Crecy-Lagard, V., Cui, L., Dedon, P. C., Carstens, A. B., Moineau, S., Swairjo, M. A., & Hansen, L. H. (2020). Detection of preQ0 deazaguanine modifications in bacteriophage CAjan DNA using Nanopore sequencing reveals same hypermodification at two distinct DNA motifs. Nucleic Acids Symposium Series, 48(18), 10383-10396. https://doi.org/10.1093/nar/gkaa735

Vancouver

Kot W, Olsen NS, Nielsen TK, Hutinet G, de Crecy-Lagard V, Cui L et al. Detection of preQ0 deazaguanine modifications in bacteriophage CAjan DNA using Nanopore sequencing reveals same hypermodification at two distinct DNA motifs. Nucleic Acids Symposium Series. 2020;48(18):10383-10396. https://doi.org/10.1093/nar/gkaa735

Author

Kot, Witold ; Olsen, Nikoline S. ; Nielsen, Tue K. ; Hutinet, Geoffrey ; de Crecy-Lagard, Valerie ; Cui, Liang ; Dedon, Peter C. ; Carstens, Alexander B. ; Moineau, Sylvain ; Swairjo, Manal A. ; Hansen, Lars H. / Detection of preQ0 deazaguanine modifications in bacteriophage CAjan DNA using Nanopore sequencing reveals same hypermodification at two distinct DNA motifs. In: Nucleic Acids Symposium Series. 2020 ; Vol. 48, No. 18. pp. 10383-10396.

Bibtex

@article{ae55dcef29b9407899926f86e8759cd0,
title = "Detection of preQ0 deazaguanine modifications in bacteriophage CAjan DNA using Nanopore sequencing reveals same hypermodification at two distinct DNA motifs",
abstract = "In the constant evolutionary battle against mobile genetic elements (MGEs), bacteria have developed several defense mechanisms, some of which target the incoming, foreign nucleic acids e.g. restriction-modification (R-M) or CRISPR-Cas systems. Some of these MGEs, including bacteriophages, have in turn evolved different strategies to evade these hurdles. It was recently shown that the siphophage CAjan and 180 other viruses use 7-deazaguanine modifications in their DNA to evade bacterial R-M systems. Among others, phage CAjan genome contains a gene coding for a DNA-modifying homolog of a tRNA-deazapurine modification enzyme, together with four 7-cyano-7-deazaguanine synthesis genes. Using the CRISPR-Cas9 genome editing tool combined with the Nanopore Sequencing (ONT) we showed that the 7-deazaguanine modification in the CAjan genome is dependent on phage-encoded genes. The modification is also site-specific and is found mainly in two separate DNA sequence contexts: GA and GGC. Homology modeling of the modifying enzyme DpdA provides insight into its probable DNA binding surface and general mode of DNA recognition.",
keywords = "CRYSTAL-STRUCTURE, REPAIR, BASE",
author = "Witold Kot and Olsen, {Nikoline S.} and Nielsen, {Tue K.} and Geoffrey Hutinet and {de Crecy-Lagard}, Valerie and Liang Cui and Dedon, {Peter C.} and Carstens, {Alexander B.} and Sylvain Moineau and Swairjo, {Manal A.} and Hansen, {Lars H.}",
year = "2020",
doi = "10.1093/nar/gkaa735",
language = "English",
volume = "48",
pages = "10383--10396",
journal = "Nucleic acids symposium series",
issn = "0261-3166",
publisher = "Oxford University Press",
number = "18",

}

RIS

TY - JOUR

T1 - Detection of preQ0 deazaguanine modifications in bacteriophage CAjan DNA using Nanopore sequencing reveals same hypermodification at two distinct DNA motifs

AU - Kot, Witold

AU - Olsen, Nikoline S.

AU - Nielsen, Tue K.

AU - Hutinet, Geoffrey

AU - de Crecy-Lagard, Valerie

AU - Cui, Liang

AU - Dedon, Peter C.

AU - Carstens, Alexander B.

AU - Moineau, Sylvain

AU - Swairjo, Manal A.

AU - Hansen, Lars H.

PY - 2020

Y1 - 2020

N2 - In the constant evolutionary battle against mobile genetic elements (MGEs), bacteria have developed several defense mechanisms, some of which target the incoming, foreign nucleic acids e.g. restriction-modification (R-M) or CRISPR-Cas systems. Some of these MGEs, including bacteriophages, have in turn evolved different strategies to evade these hurdles. It was recently shown that the siphophage CAjan and 180 other viruses use 7-deazaguanine modifications in their DNA to evade bacterial R-M systems. Among others, phage CAjan genome contains a gene coding for a DNA-modifying homolog of a tRNA-deazapurine modification enzyme, together with four 7-cyano-7-deazaguanine synthesis genes. Using the CRISPR-Cas9 genome editing tool combined with the Nanopore Sequencing (ONT) we showed that the 7-deazaguanine modification in the CAjan genome is dependent on phage-encoded genes. The modification is also site-specific and is found mainly in two separate DNA sequence contexts: GA and GGC. Homology modeling of the modifying enzyme DpdA provides insight into its probable DNA binding surface and general mode of DNA recognition.

AB - In the constant evolutionary battle against mobile genetic elements (MGEs), bacteria have developed several defense mechanisms, some of which target the incoming, foreign nucleic acids e.g. restriction-modification (R-M) or CRISPR-Cas systems. Some of these MGEs, including bacteriophages, have in turn evolved different strategies to evade these hurdles. It was recently shown that the siphophage CAjan and 180 other viruses use 7-deazaguanine modifications in their DNA to evade bacterial R-M systems. Among others, phage CAjan genome contains a gene coding for a DNA-modifying homolog of a tRNA-deazapurine modification enzyme, together with four 7-cyano-7-deazaguanine synthesis genes. Using the CRISPR-Cas9 genome editing tool combined with the Nanopore Sequencing (ONT) we showed that the 7-deazaguanine modification in the CAjan genome is dependent on phage-encoded genes. The modification is also site-specific and is found mainly in two separate DNA sequence contexts: GA and GGC. Homology modeling of the modifying enzyme DpdA provides insight into its probable DNA binding surface and general mode of DNA recognition.

KW - CRYSTAL-STRUCTURE

KW - REPAIR

KW - BASE

U2 - 10.1093/nar/gkaa735

DO - 10.1093/nar/gkaa735

M3 - Journal article

C2 - 32941607

VL - 48

SP - 10383

EP - 10396

JO - Nucleic acids symposium series

JF - Nucleic acids symposium series

SN - 0261-3166

IS - 18

ER -

ID: 253732970