Genome-wide systematic identification of methyltransferase recognition and modification patterns

Torbjørn Ølshøj Jensen, Christian Tellgren-Roth, Stephanie Maria Anna Redl, Jérôme Maury, Simo Abdessamad Baallal Jacobsen, Lasse Ebdrup Pedersen, Alex Toftgaard Nielsen*

*Corresponding author for this work

Research output: Contribution to journalJournal articleResearchpeer-review

63 Downloads (Pure)

Abstract

Genome-wide analysis of DNA methylation patterns using single molecule real-time DNA sequencing has boosted the number of publicly available methylomes. However, there is a lack of tools coupling methylation patterns and the corresponding methyltransferase genes. Here we demonstrate a high-throughput method for coupling methyltransferases with their respective motifs, using automated cloning and analysing the methyltransferases in vectors carrying a strain-specific cassette containing all potential target sites. To validate the method, we analyse the genomes of the thermophile Moorella thermoacetica and the mesophile Acetobacterium woodii, two acetogenic bacteria having substantially modified genomes with 12 methylation motifs and a total of 23 methyltransferase genes. Using our method, we characterize the 23 methyltransferases, assign motifs to the respective enzymes and verify activity for 11 of the 12 motifs.
Original languageEnglish
Article number3311
JournalNature Communications
Volume10
Issue number1
ISSN2041-1723
DOIs
Publication statusPublished - 2019

Cite this

@article{41719c381e274086b4d531fb84e17ef7,
title = "Genome-wide systematic identification of methyltransferase recognition and modification patterns",
abstract = "Genome-wide analysis of DNA methylation patterns using single molecule real-time DNA sequencing has boosted the number of publicly available methylomes. However, there is a lack of tools coupling methylation patterns and the corresponding methyltransferase genes. Here we demonstrate a high-throughput method for coupling methyltransferases with their respective motifs, using automated cloning and analysing the methyltransferases in vectors carrying a strain-specific cassette containing all potential target sites. To validate the method, we analyse the genomes of the thermophile Moorella thermoacetica and the mesophile Acetobacterium woodii, two acetogenic bacteria having substantially modified genomes with 12 methylation motifs and a total of 23 methyltransferase genes. Using our method, we characterize the 23 methyltransferases, assign motifs to the respective enzymes and verify activity for 11 of the 12 motifs.",
author = "Jensen, {Torbj{\o}rn {\O}lsh{\o}j} and Christian Tellgren-Roth and Redl, {Stephanie Maria Anna} and J{\'e}r{\^o}me Maury and {Baallal Jacobsen}, {Simo Abdessamad} and Pedersen, {Lasse Ebdrup} and Nielsen, {Alex Toftgaard}",
year = "2019",
doi = "10.1038/s41467-019-11179-9",
language = "English",
volume = "10",
journal = "Nature Communications",
issn = "2041-1723",
publisher = "Nature Publishing Group",
number = "1",

}

Genome-wide systematic identification of methyltransferase recognition and modification patterns. / Jensen, Torbjørn Ølshøj; Tellgren-Roth, Christian; Redl, Stephanie Maria Anna; Maury, Jérôme; Baallal Jacobsen, Simo Abdessamad; Pedersen, Lasse Ebdrup; Nielsen, Alex Toftgaard.

In: Nature Communications, Vol. 10, No. 1, 3311, 2019.

Research output: Contribution to journalJournal articleResearchpeer-review

TY - JOUR

T1 - Genome-wide systematic identification of methyltransferase recognition and modification patterns

AU - Jensen, Torbjørn Ølshøj

AU - Tellgren-Roth, Christian

AU - Redl, Stephanie Maria Anna

AU - Maury, Jérôme

AU - Baallal Jacobsen, Simo Abdessamad

AU - Pedersen, Lasse Ebdrup

AU - Nielsen, Alex Toftgaard

PY - 2019

Y1 - 2019

N2 - Genome-wide analysis of DNA methylation patterns using single molecule real-time DNA sequencing has boosted the number of publicly available methylomes. However, there is a lack of tools coupling methylation patterns and the corresponding methyltransferase genes. Here we demonstrate a high-throughput method for coupling methyltransferases with their respective motifs, using automated cloning and analysing the methyltransferases in vectors carrying a strain-specific cassette containing all potential target sites. To validate the method, we analyse the genomes of the thermophile Moorella thermoacetica and the mesophile Acetobacterium woodii, two acetogenic bacteria having substantially modified genomes with 12 methylation motifs and a total of 23 methyltransferase genes. Using our method, we characterize the 23 methyltransferases, assign motifs to the respective enzymes and verify activity for 11 of the 12 motifs.

AB - Genome-wide analysis of DNA methylation patterns using single molecule real-time DNA sequencing has boosted the number of publicly available methylomes. However, there is a lack of tools coupling methylation patterns and the corresponding methyltransferase genes. Here we demonstrate a high-throughput method for coupling methyltransferases with their respective motifs, using automated cloning and analysing the methyltransferases in vectors carrying a strain-specific cassette containing all potential target sites. To validate the method, we analyse the genomes of the thermophile Moorella thermoacetica and the mesophile Acetobacterium woodii, two acetogenic bacteria having substantially modified genomes with 12 methylation motifs and a total of 23 methyltransferase genes. Using our method, we characterize the 23 methyltransferases, assign motifs to the respective enzymes and verify activity for 11 of the 12 motifs.

U2 - 10.1038/s41467-019-11179-9

DO - 10.1038/s41467-019-11179-9

M3 - Journal article

VL - 10

JO - Nature Communications

JF - Nature Communications

SN - 2041-1723

IS - 1

M1 - 3311

ER -