相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
Alexandros Stamatakis
BIOINFORMATICS (2014)
Genome Degeneration and Adaptation in a Nascent Stage of Symbiosis
Kelly F. Oakeson et al.
GENOME BIOLOGY AND EVOLUTION (2014)
The Transporter Classification Database
Milton H. Saier et al.
NUCLEIC ACIDS RESEARCH (2014)
MEROPS: the database of proteolytic enzymes, their substrates and inhibitors
Neil D. Rawlings et al.
NUCLEIC ACIDS RESEARCH (2014)
Global Patterns of Abundance, Diversity and Community Structure of the Aminicenantes (Candidate Phylum OP8)
Ibrahim F. Farag et al.
PLOS ONE (2014)
Cell Size Distributions of Soil Bacterial and Archaeal Taxa
Maria C. Portillo et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2013)
The Genome of the Anaerobic Fungus Orpinomyces sp Strain C1A Reveals the Unique Evolutionary History of a Remarkable Plant Biomass Degrader
Noha H. Youssef et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2013)
Heavy Metal Resistance Strategies of Acidophilic Bacteria and Their Acquisition: Importance for Biomining and Bioremediation
Claudio A. Navarro et al.
BIOLOGICAL RESEARCH (2013)
Insights into archaeal evolution and symbiosis from the genomes of a nanoarchaeon and its inferred crenarchaeal host from Obsidian Pool, Yellowstone National Park
Mircea Podar et al.
BIOLOGY DIRECT (2013)
Adaptation through horizontal gene transfer in the cryptoendolithic red alga Galdieria phlegrea
Huan Qiu et al.
CURRENT BIOLOGY (2013)
Spatio-temporal changes in the structure of archaeal communities in two deep freshwater lakes
Lyria Berdjeb et al.
FEMS MICROBIOLOGY ECOLOGY (2013)
pH dominates variation in tropical soil archaeal diversity and community structure
Binu M. Tripathi et al.
FEMS MICROBIOLOGY ECOLOGY (2013)
Bacterial and archaeal community structure in the surface microlayer of high mountain lakes examined under two atmospheric aerosol loading scenarios
Maria Vila-Costa et al.
FEMS MICROBIOLOGY ECOLOGY (2013)
Halarchaeum nitratireducens sp nov., a moderately acidophilic haloarchaeon isolated from commercial sea salt
Hiroaki Minegishi et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2013)
Insights into the phylogeny and coding potential of microbial dark matter
Christian Rinke et al.
NATURE (2013)
Predominant archaea in marine sediments degrade detrital proteins
Karen G. Lloyd et al.
NATURE (2013)
Microbial Communities Involved in Biological Ammonium Removal from Coal Combustion Wastewaters
Tatiana A. Vishnivetskaya et al.
MICROBIAL ECOLOGY (2013)
Tropical Aquatic Archaea Show Environment-Specific Community Composition
Cynthia B. Silveira et al.
PLOS ONE (2013)
Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum
Jeffrey S. McLean et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
Prevalent genome streamlining and latitudinal divergence of planktonic bacteria in the surface ocean
Brandon K. Swan et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
Gene Transfer from Bacteria and Archaea Facilitated Evolution of an Extremophilic Eukaryote
Gerald Schoenknecht et al.
SCIENCE (2013)
Pyrosequencing assessment of prokaryotic and eukaryotic diversity in biofilm communities from a French river
Genevieve Bricheux et al.
MICROBIOLOGYOPEN (2013)
Next-Generation Sequencing of Microbial Communities in the Athabasca River and Its Tributaries in Relation to Oil Sands Mining Activities
Etienne Yergeau et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2012)
De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities
Priya Narasingarao et al.
ISME JOURNAL (2012)
Spatial and temporal dynamics of the microbial community in the Hanford unconfined aquifer
Xueju Lin et al.
ISME JOURNAL (2012)
Enzymatic Characterization of AMP Phosphorylase and Ribose-1,5-Bisphosphate Isomerase Functioning in an Archaeal AMP Metabolic Pathway
Riku Aono et al.
JOURNAL OF BACTERIOLOGY (2012)
Acquisition of 1,000 eubacterial genes physiologically transformed a methanogen at the origin of Haloarchaea
Shijulal Nelson-Sathi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
A congruent phylogenomic signal places eukaryotes within the Archaea
Tom A. Williams et al.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2012)
Fermentation, Hydrogen, and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla
Kelly C. Wrighton et al.
SCIENCE (2012)
Streamlining and Core Genome Conservation among Highly Divergent Members of the SAR11 Clade
Jana Grote et al.
MBIO (2012)
Niche Partitioning of Marine Group I Crenarchaeota in the Euphotic and Upper Mesopelagic Zones of the East China Sea
Anyi Hu et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2011)
The Microbial Carbon Pump: from Genes to Ecosystems
Nianzhi Jiao et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2011)
Osmoadaptive Strategies of the Archaeon Halococcus hamelinensis Isolated from a Hypersaline Stromatolite Environment
Falicia Goh et al.
ASTROBIOLOGY (2011)
Reductive Evolution of Bacterial Genome in Insect Gut Environment
Naruo Nikoh et al.
GENOME BIOLOGY AND EVOLUTION (2011)
Halomarina oriensis gen. nov., sp. nov., a halophilic archaeon isolated from a seawater aquarium
Kentaro Inoue et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2011)
Examining the global distribution of dominant archaeal populations in soil
Scott T. Bates et al.
ISME JOURNAL (2011)
Insights into the evolution of Archaea and eukaryotic protein modifier systems revealed by the genome of a novel archaeal group
Takuro Nunoura et al.
NUCLEIC ACIDS RESEARCH (2011)
The Sequence Read Archive
Rasko Leinonen et al.
NUCLEIC ACIDS RESEARCH (2011)
CDD: a Conserved Domain Database for the functional annotation of proteins
Aron Marchler-Bauer et al.
NUCLEIC ACIDS RESEARCH (2011)
The archaeal 'TACK' superphylum and the origin of eukaryotes
Lionel Guy et al.
TRENDS IN MICROBIOLOGY (2011)
New Abundant Microbial Groups in Aquatic Hypersaline Environments
Rohit Ghai et al.
SCIENTIFIC REPORTS (2011)
Multilevel populations and the evolution of antibiotic resistance through horizontal gene transfer
Cheryl P. Andam et al.
FEMS MICROBIOLOGY REVIEWS (2011)
PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes
Nancy Y. Yu et al.
BIOINFORMATICS (2010)
Halogranum rubrum gen. nov., sp nov., a halophilic archaeon isolated from a marine solar saltern
Heng-Lin Cui et al.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2010)
Enigmatic, ultrasmall, uncultivated Archaea
Brett J. Baker et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)
Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea
C. B. Walker et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)
The genomic basis of trophic strategy in marine bacteria
Federico M. Lauro et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Community-wide analysis of microbial genome sequence signatures
Gregory J. Dick et al.
GENOME BIOLOGY (2009)
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes
F. Meyer et al.
BMC BIOINFORMATICS (2008)
Learning how to live together: genomic insights into prokaryote-animal symbioses
Andres Moya et al.
NATURE REVIEWS GENETICS (2008)
Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota
Celine Brochier-Armanet et al.
NATURE REVIEWS MICROBIOLOGY (2008)
A korarchaeal genome reveals insights into the evolution of the Archaea
James G. Elkins et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)
Clustal W and clustal X version 2.0
M. A. Larkin et al.
BIOINFORMATICS (2007)
Isolation of key methanogens for global methane emission from rice paddy fields: a novel isolate affiliated with the clone cluster rice cluster I
Sanae Sakai et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2007)
COBALT: constraint-based alignment tool for multiple protein sequences
Jason S. Papadopoulos et al.
BIOINFORMATICS (2007)
Archaeal diversity along a soil salinity gradient prone to disturbance
DA Walsh et al.
ENVIRONMENTAL MICROBIOLOGY (2005)
Isolation of an autotrophic ammonia-oxidizing marine archaeon
M Könneke et al.
NATURE (2005)
Genome streamlining in a cosmopolitan oceanic bacterium
SJ Giovannoni et al.
SCIENCE (2005)
Characterization of Ferroplasma isolates and Ferroplasma acidarmanus sp nov., extreme acidophiles from acid mine drainage and industrial bioleaching environments
M Dopson et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2004)
Reverse methanogenesis: Testing the hypothesis with environmental genomics
SJ Hallam et al.
SCIENCE (2004)
Review and re-analysis of domain-specific 16S primers
GC Baker et al.
JOURNAL OF MICROBIOLOGICAL METHODS (2003)
A genomic perspective on nutrient provisioning by bacterial symbionts of insects
NA Moran et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)
The genome of Nanoarchaeum equitans:: Insights into early archaeal evolution and derived parasitism
E Waters et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)
Geographic barriers isolate endemic populations of hyperthermophilic archaea
RJ Whitaker et al.
SCIENCE (2003)
Mfold web server for nucleic acid folding and hybridization prediction
M Zuker
NUCLEIC ACIDS RESEARCH (2003)
Isolation of a methanogen from deep marine sediments that contain methane hydrates, and description of Methanoculleus submarinus sp nov.
JA Mikucki et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2003)
Microbial communities in acid mine drainage
BJ Baker et al.
FEMS MICROBIOLOGY ECOLOGY (2003)
Matrix metalloproteinases and tissue inhibitors of metalloproteinases - Structure, function, and biochemistry
R Visse et al.
CIRCULATION RESEARCH (2003)
Genome evolution in bacterial endosymbionts of insects
JJ Wernegreen
NATURE REVIEWS GENETICS (2002)
Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia
L Akman et al.
NATURE GENETICS (2002)
50 million years of genomic stasis in endosymbiotic bacteria
I Tamas et al.
SCIENCE (2002)
Prokaryotic genetic diversity throughout the salinity gradient of a coastal solar saltern
S Benlloch et al.
ENVIRONMENTAL MICROBIOLOGY (2002)
The MetaCyc database
PD Karp et al.
NUCLEIC ACIDS RESEARCH (2002)
Archaeal diversity in waters from deep South African gold mines
K Takai et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2001)
Deletional bias and the evolution of bacterial genomes
A Mira et al.
TRENDS IN GENETICS (2001)
Archaeal dominance in the mesopelagic zone of the Pacific Ocean
MB Karner et al.
NATURE (2001)
Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp APS
S Shigenobu et al.
NATURE (2000)
Phylogeny of microorganisms populating a thick, subaerial, predominantly lithotrophic biofilm at an extreme acid mine drainage site
PL Bond et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)
Lifestyle evolution in symbiotic bacteria: insights from genomics
NA Moran et al.
TRENDS IN ECOLOGY & EVOLUTION (2000)
An archaeal iron-oxidizing extreme acidophile important in acid mine drainage
KJ Edwards et al.
SCIENCE (2000)
Culture-dependent and culture-independent characterization of microbial assemblages associated with high-temperature petroleum reservoirs
VJ Orphan et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)
The COG database: a tool for genome-scale analysis of protein functions and evolution
RL Tatusov et al.
NUCLEIC ACIDS RESEARCH (2000)