Genome and epigenome of a novel marine Thaumarchaeota strain suggest viral infection, phosphorothioation DNA modification and multiple restriction systems
Published 2017 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Genome and epigenome of a novel marine Thaumarchaeota strain suggest viral infection, phosphorothioation DNA modification and multiple restriction systems
Authors
Keywords
-
Journal
ENVIRONMENTAL MICROBIOLOGY
Volume 19, Issue 6, Pages 2434-2452
Publisher
Wiley
Online
2017-04-18
DOI
10.1111/1462-2920.13768
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Contribution of ammonia oxidation to chemoautotrophy in Antarctic coastal waters
- (2016) Bradley B Tolar et al. ISME Journal
- Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses
- (2016) Simon Roux et al. NATURE
- Two distinct pools of B12analogs reveal community interdependencies in the ocean
- (2016) Katherine R. Heal et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Low genome content diversity of marine planktonic Thaumarchaeota
- (2016) Haiwei Luo et al. Environmental Microbiology Reports
- The Epigenomic Landscape of Prokaryotes
- (2016) Matthew J. Blow et al. PLoS Genetics
- The production of nitric oxide by marine ammonia-oxidizing archaea and inhibition of archaeal ammonia oxidation by a nitric oxide scavenger
- (2015) Willm Martens-Habbena et al. ENVIRONMENTAL MICROBIOLOGY
- Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples
- (2015) Alma E. Parada et al. ENVIRONMENTAL MICROBIOLOGY
- Single-cell genomics-based analysis of virus–host interactions in marine surface bacterioplankton
- (2015) Jessica M Labonté et al. ISME Journal
- Physiological and genomic characterization of two novel marine thaumarchaeal strains indicates niche differentiation
- (2015) Barbara Bayer et al. ISME Journal
- Factors influencing nitrification rates and the abundance and transcriptional activity of ammonia-oxidizing microorganisms in the dark northeast Pacific Ocean
- (2015) Jason M. Smith et al. LIMNOLOGY AND OCEANOGRAPHY
- Genomic and proteomic characterization of “CandidatusNitrosopelagicus brevis”: An ammonia-oxidizing archaeon from the open ocean
- (2015) Alyson E. Santoro et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- In vitro analysis of phosphorothioate modification of DNA reveals substrate recognition by a multiprotein complex
- (2015) Bo Cao et al. Scientific Reports
- Meta-omic signatures of microbial metal and nitrogen cycling in marine oxygen minimum zones
- (2015) Jennifer B. Glass et al. Frontiers in Microbiology
- Genome-wide DNA methylation analysis of Haloferax volcanii H26 and identification of DNA methyltransferase related PD-(D/E)XK nuclease family protein HVO_A0006
- (2015) Matthew Ouellette et al. Frontiers in Microbiology
- Combining genomic sequencing methods to explore viral diversity and reveal potential virus-host interactions
- (2015) Cheryl-Emiliane T. Chow et al. Frontiers in Microbiology
- VirSorter: mining viral signal from microbial genomic data
- (2015) Simon Roux et al. PeerJ
- Prokka: rapid prokaryotic genome annotation
- (2014) T. Seemann BIOINFORMATICS
- Characterisation of terrestrial acidophilic archaeal ammonia oxidisers and their inhibition and stimulation by organic compounds
- (2014) Laura E. Lehtovirta-Morley et al. FEMS MICROBIOLOGY ECOLOGY
- Pangenome Evidence for Extensive Interdomain Horizontal Transfer Affecting Lineage Core and Shell Genes in Uncultured Planktonic Thaumarchaeota and Euryarchaeota
- (2014) Philippe Deschamps et al. Genome Biology and Evolution
- Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences
- (2014) A Murat Eren et al. ISME Journal
- Connecting thermal physiology and latitudinal niche partitioning in marine Synechococcus
- (2014) Justine Pittera et al. ISME Journal
- Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years
- (2014) Jacob A Cram et al. ISME Journal
- Aquatic metagenomes implicate Thaumarchaeota in global cobalamin production
- (2014) Andrew C Doxey et al. ISME Journal
- REBASE—a database for DNA restriction and modification: enzymes, genes and genomes
- (2014) Richard J. Roberts et al. NUCLEIC ACIDS RESEARCH
- Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres
- (2014) Brandon K. Swan et al. PLoS One
- Ammonia-oxidizing archaea use the most energy-efficient aerobic pathway for CO2 fixation
- (2014) M. Konneke et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation
- (2014) W. Qin et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Genomic mapping of phosphorothioates reveals partial modification of short consensus sequences
- (2014) Bo Cao et al. Nature Communications
- Archaeal amoA and ureC genes and their transcriptional activity in the Arctic Ocean
- (2014) Estelle Pedneault et al. Scientific Reports
- DNA phosphorothioate modifications influence the global transcriptional response and protect DNA from double-stranded breaks
- (2014) Rui Gan et al. Scientific Reports
- Single-cell genomics shedding light on marine Thaumarchaeota diversification
- (2013) Haiwei Luo et al. ISME Journal
- Diverse Functions of Restriction-Modification Systems in Addition to Cellular Defense
- (2013) K. Vasu et al. MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
- The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology
- (2013) Bonnie L. Hurwitz et al. PLoS One
- Correction: A Filtering Method to Generate High Quality Short Reads Using Illumina Paired-End Technology
- (2013) A. Murat Eren et al. PLoS One
- Genome Sequence of "Candidatus Nitrosopumilus salaria" BD31, an Ammonia-Oxidizing Archaeon from the San Francisco Bay Estuary
- (2012) A. C. Mosier et al. JOURNAL OF BACTERIOLOGY
- SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
- (2012) Anton Bankevich et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies
- (2012) Sajia Akhter et al. NUCLEIC ACIDS RESEARCH
- Role for urea in nitrification by polar marine Archaea
- (2012) L. Alonso-Saez et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Untangling Genomes from Metagenomes: Revealing an Uncultured Class of Marine Euryarchaeota
- (2012) V. Iverson et al. SCIENCE
- Global Biodiversity of Aquatic Ammonia-Oxidizing Archaea is Partitioned by Habitat
- (2012) Steven J. Biller et al. Frontiers in Microbiology
- CRISPR-Cas Systems in Bacteria and Archaea: Versatile Small RNAs for Adaptive Defense and Regulation
- (2011) Devaki Bhaya et al. Annual Review of Genetics
- A thaumarchaeal provirus testifies for an ancient association of tailed viruses with archaea
- (2011) Mart Krupovic et al. BIOCHEMICAL SOCIETY TRANSACTIONS
- Metagenomic analysis of a complex marine planktonic thaumarchaeal community from the Gulf of Maine
- (2011) Benjamin J. Tully et al. ENVIRONMENTAL MICROBIOLOGY
- Using CRISPRs as a metagenomic tool to identify microbial hosts of a diffuse flow hydrothermal vent viral assemblage
- (2011) Rika E. Anderson et al. FEMS MICROBIOLOGY ECOLOGY
- Enrichment and characterization of ammonia-oxidizing archaea from the open ocean: phylogeny, physiology and stable isotope fractionation
- (2011) Alyson E Santoro et al. ISME Journal
- PHAST: A Fast Phage Search Tool
- (2011) Y. Zhou et al. NUCLEIC ACIDS RESEARCH
- DNA phosphorothioation is widespread and quantized in bacterial genomes
- (2011) L. Wang et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and Genome Analyzer systems
- (2011) André E Minoche et al. GENOME BIOLOGY
- Activity, abundance and diversity of nitrifying archaea and bacteria in the central California Current
- (2010) Alyson E. Santoro et al. ENVIRONMENTAL MICROBIOLOGY
- Dur3 is the major urea transporter in Candida albicans and is co-regulated with the urea amidolyase Dur1,2
- (2010) D. H. M. L. P. Navarathna et al. MICROBIOLOGY-SGM
- Direct detection of DNA methylation during single-molecule, real-time sequencing
- (2010) Benjamin A Flusberg et al. NATURE METHODS
- A novel host-specific restriction system associated with DNA backbone S-modification in Salmonella
- (2010) Tiegang Xu et al. NUCLEIC ACIDS RESEARCH
- Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea
- (2010) C. B. Walker et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- DNA phosphorothioation in Streptomyces lividans: mutational analysis of the dnd locus
- (2009) Tiegang Xu et al. BMC MICROBIOLOGY
- Widespread known and novel phosphonate utilization pathways in marine bacteria revealed by functional screening and metagenomic analyses
- (2009) Asuncion Martinez et al. ENVIRONMENTAL MICROBIOLOGY
- Functional analysis ofspfDgene involved in DNA phosphorothioation inPseudomonas fluorescensPf0-1
- (2009) Fen Yao et al. FEBS LETTERS
- Urea distribution and uptake in the Atlantic Ocean between 50°N and 50°S
- (2008) SC Painter et al. MARINE ECOLOGY PROGRESS SERIES
- Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota
- (2008) Céline Brochier-Armanet et al. NATURE REVIEWS MICROBIOLOGY
Create your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create NowAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started