Evolution in action: habitat transition from sediment to the pelagial leads to genome streamlining in Methylophilaceae
Published 2019 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Evolution in action: habitat transition from sediment to the pelagial leads to genome streamlining in Methylophilaceae
Authors
Keywords
-
Journal
ISME Journal
Volume -, Issue -, Pages -
Publisher
Springer Science and Business Media LLC
Online
2019-07-10
DOI
10.1038/s41396-019-0471-3
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Cultivation and genomics of the first freshwater SAR11 (LD12) isolate
- (2018) Michael W. Henson et al. ISME Journal
- Synchrony of Eukaryotic and Prokaryotic Planktonic Communities in Three Seasonally Sampled Austrian Lakes
- (2018) Christina Bock et al. Frontiers in Microbiology
- A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
- (2018) Donovan H Parks et al. NATURE BIOTECHNOLOGY
- Repeated evolutionary transitions of flavobacteria from marine to non-marine habitats
- (2018) Hao Zhang et al. ENVIRONMENTAL MICROBIOLOGY
- Cyanate and urea are substrates for nitrification by Thaumarchaeota in the marine environment
- (2018) Katharina Kitzinger et al. Nature Microbiology
- Microdiversification in genome-streamlined ubiquitous freshwater Actinobacteria
- (2017) Stefan M Neuenschwander et al. ISME Journal
- Uncultivated microbes in need of their own taxonomy
- (2017) Konstantinos T Konstantinidis et al. ISME Journal
- The MetaCyc database of metabolic pathways and enzymes
- (2017) Ron Caspi et al. NUCLEIC ACIDS RESEARCH
- Erratum for Linz et al., “Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes”
- (2017) Alexandra M. Linz et al. mSphere
- The first complete genome sequences of the acI lineage, the most abundant freshwater Actinobacteria, obtained by whole-genome-amplification of dilution-to-extinction cultures
- (2017) Ilnam Kang et al. Scientific Reports
- Isolation and cultivation of planktonic freshwater microbes is essential for a comprehensive understanding of their ecology
- (2016) MM Salcher et al. AQUATIC MICROBIAL ECOLOGY
- Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations
- (2016) Matthew L Bendall et al. ISME Journal
- BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences
- (2016) Minoru Kanehisa et al. JOURNAL OF MOLECULAR BIOLOGY
- Marine Bacterial and Archaeal Ion-Pumping Rhodopsins: Genetic Diversity, Physiology, and Ecology
- (2016) Jarone Pinhassi et al. MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
- Vertical partitioning of freshwater bacterioplankton community in a deep mesotrophic lake with a fully oxygenated hypolimnion (Lake Biwa, Japan)
- (2016) Yusuke Okazaki et al. Environmental Microbiology Reports
- Comprehensive Genomic Analyses of the OM43 Clade, Including a Novel Species from the Red Sea, Indicate Ecotype Differentiation among Marine Methylotrophs
- (2015) Francy Jimenez-Infante et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Chloroflexi CL500-11 Populations That Predominate Deep-Lake Hypolimnion Bacterioplankton Rely on Nitrogen-Rich Dissolved Organic Matter Metabolism and C1Compound Oxidation
- (2015) Vincent J. Denef et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Methylotrophs in natural habitats: current insights through metagenomics
- (2015) Ludmila Chistoserdova APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
- The ecology of pelagic freshwater methylotrophs assessed by a high-resolution monitoring and isolation campaign
- (2015) Michaela M Salcher et al. ISME Journal
- Microbial communities reflect temporal changes in cyanobacterial composition in a shallow ephemeral freshwater lake
- (2015) Jason Nicholas Woodhouse et al. ISME Journal
- Selection Maintains Low Genomic GC Content in Marine SAR11 Lineages
- (2015) Haiwei Luo et al. MOLECULAR BIOLOGY AND EVOLUTION
- 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
- Annual periodicity in planktonic bacterial and archaeal community composition of eutrophic Lake Taihu
- (2015) Junfeng Li et al. Scientific Reports
- XoxF-Type Methanol Dehydrogenase from the Anaerobic Methanotroph “Candidatus Methylomirabilis oxyfera”
- (2014) Ming L. Wu et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Prokka: rapid prokaryotic genome annotation
- (2014) T. Seemann BIOINFORMATICS
- Trimmomatic: a flexible trimmer for Illumina sequence data
- (2014) Anthony M. Bolger et al. BIOINFORMATICS
- RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
- (2014) Alexandros Stamatakis BIOINFORMATICS
- Rhodoluna lacicola gen. nov., sp. nov., a planktonic freshwater bacterium with stream-lined genome
- (2014) M. W. Hahn et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Implications of streamlining theory for microbial ecology
- (2014) Stephen J Giovannoni et al. ISME Journal
- The Expanded Diversity of Methylophilaceae from Lake Washington through Cultivation and Genomic Sequencing of Novel Ecotypes
- (2014) David A. C. Beck et al. PLoS One
- Insights into Denitrification in Methylotenera mobilis from Denitrification Pathway and Methanol Metabolism Mutants
- (2013) I. Mustakhimov et al. JOURNAL OF BACTERIOLOGY
- MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
- (2013) K. Katoh et al. MOLECULAR BIOLOGY AND EVOLUTION
- Metagenomics uncovers a new group of low GC and ultra-small marine Actinobacteria
- (2013) Rohit Ghai et al. Scientific Reports
- Genome Sequence of "Candidatus Aquiluna" sp. Strain IMCC13023, a Marine Member of the Actinobacteria Isolated from an Arctic Fjord
- (2012) I. Kang 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
- Genome sequence of strain HIMB624, a cultured representative from the OM43 clade of marine Betaproteobacteria
- (2012) Megan J. Huggett et al. Standards in Genomic Sciences
- Methylotrophy in a Lake: from Metagenomics to Single-Organism Physiology
- (2011) Ludmila Chistoserdova APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Modularity of methylotrophy, revisited
- (2011) Ludmila Chistoserdova ENVIRONMENTAL MICROBIOLOGY
- Synergistic metabolism of a broad range of C1 compounds in the marine methylotrophic bacterium HTCC2181
- (2011) Kimberly H. Halsey et al. ENVIRONMENTAL MICROBIOLOGY
- Seasonal bloom dynamics and ecophysiology of the freshwater sister clade of SAR11 bacteria ‘that rule the waves’ (LD12)
- (2011) Michaela M Salcher et al. ISME Journal
- Genomes of Three Methylotrophs from a Single Niche Reveal the Genetic and Metabolic Divergence of the Methylophilaceae
- (2011) A. Lapidus et al. JOURNAL OF BACTERIOLOGY
- Vertical and longitudinal distribution patterns of different bacterioplankton populations in a canyon-shaped, deep prealpine lake
- (2011) Michaela M. Salcher et al. LIMNOLOGY AND OCEANOGRAPHY
- A Guide to the Natural History of Freshwater Lake Bacteria
- (2011) R. J. Newton et al. MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
- Energy Starved Candidatus Pelagibacter Ubique Substitutes Light-Mediated ATP Production for Endogenous Carbon Respiration
- (2011) Laura Steindler et al. PLoS One
- One Carbon Metabolism in SAR11 Pelagic Marine Bacteria
- (2011) Jing Sun et al. PLoS One
- Accelerated Profile HMM Searches
- (2011) Sean R. Eddy PLoS Computational Biology
- FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
- (2010) Morgan N. Price et al. PLoS One
- Reconstitution ofGloeobacter violaceusRhodopsin with a Light-Harvesting Carotenoid Antenna
- (2009) Eleonora S. Imasheva et al. BIOCHEMISTRY
- Methylobacterium Genome Sequences: A Reference Blueprint to Investigate Microbial Metabolism of C1 Compounds from Natural and Industrial Sources
- (2009) Stéphane Vuilleumier et al. PLoS One
- Infrequent marine–freshwater transitions in the microbial world
- (2009) Ramiro Logares et al. TRENDS IN MICROBIOLOGY
- Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia
- (2008) Shaobin Hou et al. Biology Direct
- The small genome of an abundant coastal ocean methylotroph
- (2008) Stephen J. Giovannoni et al. ENVIRONMENTAL MICROBIOLOGY
- Characterization of a Novel Methanol Dehydrogenase in Representatives of Burkholderiales: Implications for Environmental Detection of Methylotrophy and Evidence for Convergent Evolution
- (2008) M. G. Kalyuzhnaya et al. JOURNAL OF BACTERIOLOGY
- High-resolution metagenomics targets specific functional types in complex microbial communities
- (2008) Marina G Kalyuzhnaya et al. NATURE BIOTECHNOLOGY
- Crystallographic structure of xanthorhodopsin, the light-driven proton pump with a dual chromophore
- (2008) H. Luecke et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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