Published in Mol Biol Evol on June 25, 2010
Genomics of bacterial and archaeal viruses: dynamics within the prokaryotic virosphere. Microbiol Mol Biol Rev (2011) 1.78
Affinity purification of an archaeal DNA replication protein network. MBio (2010) 1.35
Order to the viral universe. J Virol (2010) 1.30
Reconstructing viral genomes from the environment using fosmid clones: the case of haloviruses. PLoS One (2012) 1.10
Global phylogenomic analysis disentangles the complex evolutionary history of DNA replication in archaea. Genome Biol Evol (2014) 1.03
Thermococcus kodakarensis encodes three MCM homologs but only one is essential. Nucleic Acids Res (2011) 1.02
Insights into dynamics of mobile genetic elements in hyperthermophilic environments from five new Thermococcus plasmids. PLoS One (2013) 1.01
The CMG (CDC45/RecJ, MCM, GINS) complex is a conserved component of the DNA replication system in all archaea and eukaryotes. Biol Direct (2012) 1.00
Archaeology of eukaryotic DNA replication. Cold Spring Harb Perspect Biol (2013) 0.98
Provirus induction in hyperthermophilic archaea: characterization of Aeropyrum pernix spindle-shaped virus 1 and Aeropyrum pernix ovoid virus 1. J Bacteriol (2011) 0.96
The common ancestor of archaea and eukarya was not an archaeon. Archaea (2013) 0.95
Dark matter in archaeal genomes: a rich source of novel mobile elements, defense systems and secretory complexes. Extremophiles (2014) 0.92
Evolution of replicative DNA polymerases in archaea and their contributions to the eukaryotic replication machinery. Front Microbiol (2014) 0.90
Darwin's goldmine is still open: variation and selection run the world. Front Cell Infect Microbiol (2012) 0.88
The universal tree of life: an update. Front Microbiol (2015) 0.86
PH1: an archaeovirus of Haloarcula hispanica related to SH1 and HHIV-2. Archaea (2013) 0.85
Bipartite Network Analysis of the Archaeal Virosphere: Evolutionary Connections between Viruses and Capsidless Mobile Elements. J Virol (2016) 0.83
The logic of DNA replication in double-stranded DNA viruses: insights from global analysis of viral genomes. Nucleic Acids Res (2016) 0.81
Living side by side with a virus: characterization of two novel plasmids from Thermococcus prieurii, a host for the spindle-shaped virus TPV1. Appl Environ Microbiol (2013) 0.81
Protein-protein interactions leading to recruitment of the host DNA sliding clamp by the hyperthermophilic Sulfolobus islandicus rod-shaped virus 2. J Virol (2014) 0.80
DNA topoisomerase VIII: a novel subfamily of type IIB topoisomerases encoded by free or integrated plasmids in Archaea and Bacteria. Nucleic Acids Res (2014) 0.78
Diversity of the DNA replication system in the Archaea domain. Archaea (2014) 0.78
High-temperature single-molecule kinetic analysis of thermophilic archaeal MCM helicases. Nucleic Acids Res (2016) 0.75
Diversity of DNA Replication in the Archaea. Genes (Basel) (2017) 0.75
Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota. Nat Rev Microbiol (2008) 5.31
The virophage as a unique parasite of the giant mimivirus. Nature (2008) 4.09
An alternative flavin-dependent mechanism for thymidylate synthesis. Science (2002) 3.82
Redefining viruses: lessons from Mimivirus. Nat Rev Microbiol (2008) 3.27
An integrated analysis of the genome of the hyperthermophilic archaeon Pyrococcus abyssi. Mol Microbiol (2003) 2.75
Time for order in microbial systematics. Trends Microbiol (2012) 2.70
Viruses of the Archaea: a unifying view. Nat Rev Microbiol (2006) 2.61
BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments. BMC Evol Biol (2010) 2.58
Does common architecture reveal a viral lineage spanning all three domains of life? Mol Cell (2004) 2.52
Cellular RNA-dependent RNA polymerase involved in posttranscriptional gene silencing has two distinct activity modes. Mol Cell (2002) 2.47
Insights into assembly from structural analysis of bacteriophage PRD1. Nature (2004) 2.47
Virus evolution: how far does the double beta-barrel viral lineage extend? Nat Rev Microbiol (2008) 2.11
qiRNA is a new type of small interfering RNA induced by DNA damage. Nature (2009) 2.06
The structure of an RNAi polymerase links RNA silencing and transcription. PLoS Biol (2006) 1.96
Origin and evolution of DNA topoisomerases. Biochimie (2007) 1.94
Archaeal phylogeny based on ribosomal proteins. Mol Biol Evol (2002) 1.92
Evolution of DNA polymerase families: evidences for multiple gene exchange between cellular and viral proteins. J Mol Evol (2002) 1.91
Atomic snapshots of an RNA packaging motor reveal conformational changes linking ATP hydrolysis to RNA translocation. Cell (2004) 1.86
Genomics of bacterial and archaeal viruses: dynamics within the prokaryotic virosphere. Microbiol Mol Biol Rev (2011) 1.78
Archaeal phylogeny based on proteins of the transcription and translation machineries: tackling the Methanopyrus kandleri paradox. Genome Biol (2004) 1.71
Genome analysis and genome-wide proteomics of Thermococcus gammatolerans, the most radioresistant organism known amongst the Archaea. Genome Biol (2009) 1.69
Phylogeny and evolution of the Archaea: one hundred genomes later. Curr Opin Microbiol (2011) 1.68
Highly plastic genome of Microcystis aeruginosa PCC 7806, a ubiquitous toxic freshwater cyanobacterium. BMC Genomics (2008) 1.66
The archeoviruses. FEMS Microbiol Rev (2011) 1.62
Nanoarchaea: representatives of a novel archaeal phylum or a fast-evolving euryarchaeal lineage related to Thermococcales? Genome Biol (2005) 1.60
Mechanism of membranous tunnelling nanotube formation in viral genome delivery. PLoS Biol (2013) 1.58
Structure unifies the viral universe. Annu Rev Biochem (2012) 1.58
Pyrococcus genome comparison evidences chromosome shuffling-driven evolution. Nucleic Acids Res (2002) 1.58
Structure of the bacteriophage phi6 nucleocapsid suggests a mechanism for sequential RNA packaging. Structure (2006) 1.56
Initiation of viral RNA-dependent RNA polymerization. J Gen Virol (2004) 1.54
Membrane structure and interactions with protein and DNA in bacteriophage PRD1. Nature (2004) 1.53
The receptor binding protein P2 of PRD1, a virus targeting antibiotic-resistant bacteria, has a novel fold suggesting multiple functions. Structure (2003) 1.52
A unique virus release mechanism in the Archaea. Proc Natl Acad Sci U S A (2009) 1.47
The role played by viruses in the evolution of their hosts: a view based on informational protein phylogenies. Res Microbiol (2003) 1.43
An emerging phylogenetic core of Archaea: phylogenies of transcription and translation machineries converge following addition of new genome sequences. BMC Evol Biol (2005) 1.42
Phylogenomics of type II DNA topoisomerases. Bioessays (2003) 1.42
A hidden reservoir of integrative elements is the major source of recently acquired foreign genes and ORFans in archaeal and bacterial genomes. Genome Biol (2009) 1.41
The origin of eukaryotes and their relationship with the Archaea: are we at a phylogenomic impasse? Nat Rev Microbiol (2010) 1.40
Identification of short 'eukaryotic' Okazaki fragments synthesized from a prokaryotic replication origin. EMBO Rep (2003) 1.39
Insights into virus evolution and membrane biogenesis from the structure of the marine lipid-containing bacteriophage PM2. Mol Cell (2008) 1.37
An archaeal orthologue of the universal protein Kae1 is an iron metalloprotein which exhibits atypical DNA-binding properties and apurinic-endonuclease activity in vitro. Nucleic Acids Res (2007) 1.36
Phylogenomic data support a seventh order of Methylotrophic methanogens and provide insights into the evolution of Methanogenesis. Genome Biol Evol (2013) 1.33
Order to the viral universe. J Virol (2010) 1.30
Four newly isolated fuselloviruses from extreme geothermal environments reveal unusual morphologies and a possible interviral recombination mechanism. Environ Microbiol (2009) 1.27
Minor proteins, mobile arms and membrane-capsid interactions in the bacteriophage PRD1 capsid. Nat Struct Biol (2002) 1.27
Large-scale phylogenomic analyses indicate a deep origin of primary plastids within cyanobacteria. Mol Biol Evol (2011) 1.26
Construction of a shuttle vector for, and spheroplast transformation of, the hyperthermophilic archaeon Pyrococcus abyssi. Appl Environ Microbiol (2002) 1.26
NurA, a novel 5'-3' nuclease gene linked to rad50 and mre11 homologs of thermophilic Archaea. EMBO Rep (2002) 1.25
Casposons: a new superfamily of self-synthesizing DNA transposons at the origin of prokaryotic CRISPR-Cas immunity. BMC Biol (2014) 1.25
Structure and host-cell interaction of SH1, a membrane-containing, halophilic euryarchaeal virus. Proc Natl Acad Sci U S A (2008) 1.25
The structural basis for RNA specificity and Ca2+ inhibition of an RNA-dependent RNA polymerase. Structure (2004) 1.25
Genome sequence of "Candidatus Methanomethylophilus alvus" Mx1201, a methanogenic archaeon from the human gut belonging to a seventh order of methanogens. J Bacteriol (2012) 1.24
Geminiviruses: a tale of a plasmid becoming a virus. BMC Evol Biol (2009) 1.23
Phylogenomics of sterol synthesis: insights into the origin, evolution, and diversity of a key eukaryotic feature. Genome Biol Evol (2009) 1.22
Structure of the archaeal Kae1/Bud32 fusion protein MJ1130: a model for the eukaryotic EKC/KEOPS subcomplex. EMBO J (2008) 1.21
Double-stranded DNA viruses: 20 families and only five different architectural principles for virion assembly. Curr Opin Virol (2011) 1.20
An ssDNA virus infecting archaea: a new lineage of viruses with a membrane envelope. Mol Microbiol (2009) 1.20
Widespread distribution of archaeal reverse gyrase in thermophilic bacteria suggests a complex history of vertical inheritance and lateral gene transfers. Archaea (2007) 1.19
Sequential model of phage PRD1 DNA delivery: active involvement of the viral membrane. Mol Microbiol (2002) 1.19
Microviridae goes temperate: microvirus-related proviruses reside in the genomes of Bacteroidetes. PLoS One (2011) 1.18
Comparative genomics highlights the unique biology of Methanomassiliicoccales, a Thermoplasmatales-related seventh order of methanogenic archaea that encodes pyrrolysine. BMC Genomics (2014) 1.18
Global network of specific virus-host interactions in hypersaline environments. Environ Microbiol (2011) 1.18
Comparative analysis of bacterial viruses Bam35, infecting a gram-positive host, and PRD1, infecting gram-negative hosts, demonstrates a viral lineage. Virology (2003) 1.17
Qri7/OSGEPL, the mitochondrial version of the universal Kae1/YgjD protein, is essential for mitochondrial genome maintenance. Nucleic Acids Res (2009) 1.17
The tailless icosahedral membrane virus PRD1 localizes the proteins involved in genome packaging and injection at a unique vertex. J Virol (2003) 1.17
Geographic structuring of the Plasmodium falciparum sarco(endo)plasmic reticulum Ca2+ ATPase (PfSERCA) gene diversity. PLoS One (2010) 1.17
On the last common ancestor and early evolution of eukaryotes: reconstructing the history of mitochondrial ribosomes. Res Microbiol (2010) 1.16
The Bacillus thuringiensis linear double-stranded DNA phage Bam35, which is highly similar to the Bacillus cereus linear plasmid pBClin15, has a prophage state. J Bacteriol (2003) 1.15
SH1: A novel, spherical halovirus isolated from an Australian hypersaline lake. Virology (2005) 1.15
DNA bending, compaction and negative supercoiling by the architectural protein Sso7d of Sulfolobus solfataricus. Nucleic Acids Res (2002) 1.14
Common principles in viral entry. Annu Rev Microbiol (2002) 1.14
Global changes in cellular gene expression during bacteriophage PRD1 infection. J Virol (2006) 1.13
The Sulfolobus rod-shaped virus 2 encodes a prominent structural component of the unique virion release system in Archaea. Virology (2010) 1.13
In vitro DNA packaging of PRD1: a common mechanism for internal-membrane viruses. J Mol Biol (2005) 1.13
A DNA topoisomerase IB in Thaumarchaeota testifies for the presence of this enzyme in the last common ancestor of Archaea and Eucarya. Biol Direct (2008) 1.13
Diversity of virus-host systems in hypersaline Lake Retba, Senegal. Environ Microbiol (2010) 1.12
The PM2 virion has a novel organization with an internal membrane and pentameric receptor binding spikes. Nat Struct Mol Biol (2004) 1.12
Virus-like vesicles and extracellular DNA produced by hyperthermophilic archaea of the order Thermococcales. Res Microbiol (2008) 1.12
Comparative analysis of the mosaic genomes of tailed archaeal viruses and proviruses suggests common themes for virion architecture and assembly with tailed viruses of bacteria. J Mol Biol (2010) 1.12
RNA packaging device of double-stranded RNA bacteriophages, possibly as simple as hexamer of P4 protein. J Biol Chem (2003) 1.10
Conservation of major and minor jelly-roll capsid proteins in Polinton (Maverick) transposons suggests that they are bona fide viruses. Biol Direct (2014) 1.10
The Mre11 protein interacts with both Rad50 and the HerA bipolar helicase and is recruited to DNA following gamma irradiation in the archaeon Sulfolobus acidocaldarius. BMC Mol Biol (2008) 1.10
Archaeal proviruses TKV4 and MVV extend the PRD1-adenovirus lineage to the phylum Euryarchaeota. Virology (2008) 1.09
The DNA/RNA-dependent RNA polymerase QDE-1 generates aberrant RNA and dsRNA for RNAi in a process requiring replication protein A and a DNA helicase. PLoS Biol (2010) 1.09
Ribonucleotide reduction - horizontal transfer of a required function spans all three domains. BMC Evol Biol (2010) 1.09
Thermococcus gammatolerans sp. nov., a hyperthermophilic archaeon from a deep-sea hydrothermal vent that resists ionizing radiation. Int J Syst Evol Microbiol (2003) 1.07
Conserved intermediates on the assembly pathway of double-stranded RNA bacteriophages. J Mol Biol (2003) 1.07
The multiple evolutionary histories of dioxygen reductases: Implications for the origin and evolution of aerobic respiration. Mol Biol Evol (2008) 1.07
The closest relatives of icosahedral viruses of thermophilic bacteria are among viruses and plasmids of the halophilic archaea. J Virol (2009) 1.07
Virus-host interactions in environments with a wide range of ionic strengths. Environ Microbiol Rep (2009) 1.07