Published in Mol Biol Evol on May 07, 2007
Phylogenomics reshuffles the eukaryotic supergroups. PLoS One (2007) 2.67
Chlamydiae has contributed at least 55 genes to Plantae with predominantly plastid functions. PLoS One (2008) 1.38
Are algal genes in nonphotosynthetic protists evidence of historical plastid endosymbioses? BMC Genomics (2009) 1.32
Chlamydial genes shed light on the evolution of photoautotrophic eukaryotes. BMC Evol Biol (2008) 1.31
The eukaryotic tree of life from a global phylogenomic perspective. Cold Spring Harb Perspect Biol (2014) 1.20
Do red and green make brown?: perspectives on plastid acquisitions within chromalveolates. Eukaryot Cell (2011) 1.09
Experimental design and statistical rigor in phylogenomics of horizontal and endosymbiotic gene transfer. BMC Evol Biol (2011) 1.05
The origin of plastids. Philos Trans R Soc Lond B Biol Sci (2008) 1.00
Plastid origin and evolution: new models provide insights into old problems. Plant Physiol (2011) 0.93
Possible import routes of proteins into the cyanobacterial endosymbionts/plastids of Paulinella chromatophora. Theory Biosci (2011) 0.90
Cyanobacterial contribution to the genomes of the plastid-lacking protists. BMC Evol Biol (2009) 0.90
Molecular Data are Transforming Hypotheses on the Origin and Diversification of Eukaryotes. Bioscience (2009) 0.89
Origins of a cyanobacterial 6-phosphogluconate dehydrogenase in plastid-lacking eukaryotes. BMC Evol Biol (2008) 0.82
An extended phylogenetic analysis reveals ancient origin of "non-green" phosphoribulokinase genes from two lineages of "green" secondary photosynthetic eukaryotes: Euglenophyta and Chlorarachniophyta. BMC Res Notes (2011) 0.81
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res (2002) 47.62
Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus. Proc Natl Acad Sci U S A (2002) 5.48
Defensin-like polypeptide LUREs are pollen tube attractants secreted from synergid cells. Nature (2009) 2.96
Phylogenomic datasets provide both precision and accuracy in estimating the timescale of placental mammal phylogeny. Proc Biol Sci (2012) 2.68
The yak genome and adaptation to life at high altitude. Nat Genet (2012) 2.34
Fast manipulation of cellular cAMP level by light in vivo. Nat Methods (2006) 2.15
Archaeal-type rhodopsins in Chlamydomonas: model structure and intracellular localization. Biochem Biophys Res Commun (2003) 2.09
Divergent selection on opsins drives incipient speciation in Lake Victoria cichlids. PLoS Biol (2006) 2.08
A blue-light-activated adenylyl cyclase mediates photoavoidance in Euglena gracilis. Nature (2002) 2.06
Why green fluorescent fusion proteins have not been observed in the vacuoles of higher plants. Plant J (2003) 1.99
Architectural role of mitochondrial transcription factor A in maintenance of human mitochondrial DNA. Mol Cell Biol (2004) 1.97
Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions. Proc Natl Acad Sci U S A (2006) 1.95
Involvement of Delta/Notch signaling in zebrafish adult pigment stripe patterning. Development (2013) 1.79
Pigment pattern in jaguar/obelix zebrafish is caused by a Kir7.1 mutation: implications for the regulation of melanosome movement. PLoS Genet (2006) 1.53
UVA1 genotoxicity is mediated not by oxidative damage but by cyclobutane pyrimidine dimers in normal mouse skin. J Invest Dermatol (2008) 1.53
Establishment of a humanized model of liver using NOD/Shi-scid IL2Rgnull mice. Biochem Biophys Res Commun (2008) 1.50
Two-step mechanism of photodamage to photosystem II: step 1 occurs at the oxygen-evolving complex and step 2 occurs at the photochemical reaction center. Biochemistry (2005) 1.50
Action spectrum analysis of UVR genotoxicity for skin: the border wavelengths between UVA and UVB can bring serious mutation loads to skin. J Invest Dermatol (2013) 1.47
Stability of mitochondrial membrane proteins in terrestrial vertebrates predicts aerobic capacity and longevity. Genome Biol Evol (2011) 1.46
Mitochondrial phylogenetics and evolution of mysticete whales. Syst Biol (2005) 1.44
Live-cell imaging reveals the dynamics of two sperm cells during double fertilization in Arabidopsis thaliana. Curr Biol (2011) 1.39
Estimation of effective population size of HIV-1 within a host: a pseudomaximum-likelihood approach. Genetics (2002) 1.38
Rooting the eutherian tree: the power and pitfalls of phylogenomics. Genome Biol (2007) 1.31
Molecular systematics of Volvocales (Chlorophyceae, Chlorophyta) based on exhaustive 18S rRNA phylogenetic analyses. Mol Phylogenet Evol (2008) 1.30
Relationships between BK virus lineages and human populations. Microbes Infect (2006) 1.30
Antitumor activity of the selective ALK inhibitor alectinib in models of intracranial metastases. Cancer Chemother Pharmacol (2014) 1.30
The position of gnetales among seed plants: overcoming pitfalls of chloroplast phylogenomics. Mol Biol Evol (2010) 1.24
Chlorophyll d in an epiphytic cyanobacterium of red algae. Science (2004) 1.23
A viral sampling design for testing the molecular clock and for estimating evolutionary rates and divergence times. Bioinformatics (2002) 1.21
Root of the Eukaryota tree as inferred from combined maximum likelihood analyses of multiple molecular sequence data. Mol Biol Evol (2004) 1.19
UV tolerance in the two-spotted spider mite, Tetranychus urticae. J Insect Physiol (2009) 1.19
Biochemical and functional characterization of BLUF-type flavin-binding proteins of two species of cyanobacteria. J Biochem (2005) 1.18
Comment on "Nuclear genomic sequences reveal that polar bears are an old and distinct bear lineage". Science (2013) 1.17
Afrotherian phylogeny as inferred from complete mitochondrial genomes. Mol Phylogenet Evol (2003) 1.16
Radiation and speciation of pelagic organisms during periods of global warming: the case of the common minke whale, Balaenoptera acutorostrata. Mol Ecol (2007) 1.16
Topological incongruence between nuclear and chloroplast DNA trees suggesting hybridization in the urophyllum group of the genus Fagopyrum (Polygonaceae). Genes Genet Syst (2003) 1.14
A branch-and-bound algorithm for the inference of ancestral amino-acid sequences when the replacement rate varies among sites: Application to the evolution of five gene families. Bioinformatics (2002) 1.11
Phylogeny, recombination, and mechanisms of stepwise mitochondrial genome reorganization in mantellid frogs from Madagascar. Mol Biol Evol (2008) 1.11
Phylogenetic positions of Glaucophyta, green plants (Archaeplastida) and Haptophyta (Chromalveolata) as deduced from slowly evolving nuclear genes. Mol Phylogenet Evol (2009) 1.08
Melanophore migration and survival during zebrafish adult pigment stripe development require the immunoglobulin superfamily adhesion molecule Igsf11. PLoS Genet (2012) 1.08
B chromosomes have a functional effect on female sex determination in Lake Victoria cichlid fishes. PLoS Genet (2011) 1.08
Detection and localization of a chloroplast-encoded HU-like protein that organizes chloroplast nucleoids. Plant Cell (2002) 1.07
Ultrastructure of the dermal chromatophores in a lizard (Scincidae: Plestiodon latiscutatus) with conspicuous body and tail coloration. Zoolog Sci (2006) 1.07
Species preferentiality of the pollen tube attractant derived from the synergid cell of Torenia fournieri. Plant Physiol (2006) 1.07
Novel photosensory two-component system (PixA-NixB-NixC) involved in the regulation of positive and negative phototaxis of cyanobacterium Synechocystis sp. PCC 6803. Plant Cell Physiol (2011) 1.06
Molecular phylogeny and evolution of prosimians based on complete sequences of mitochondrial DNAs. Gene (2008) 1.05
Photoactivated adenylyl cyclase controls phototaxis in the flagellate Euglena gracilis. Plant Physiol (2003) 1.04
Crystal structure of archaeosine tRNA-guanine transglycosylase. J Mol Biol (2002) 1.03
Episodic evolution and adaptation of chloroplast genomes in ancestral grasses. PLoS One (2009) 1.03
The phylogenetic position of red algae revealed by multiple nuclear genes from mitochondria-containing eukaryotes and an alternative hypothesis on the origin of plastids. J Mol Evol (2003) 1.03
Mitochondrial phylogeny of hedgehogs and monophyly of Eulipotyphla. Mol Phylogenet Evol (2003) 1.01
Evolution of BK virus based on complete genome data. J Mol Evol (2006) 1.01
Dynamics of nucleoid structure regulated by mitochondrial fission contributes to cristae reformation and release of cytochrome c. Proc Natl Acad Sci U S A (2013) 1.00
Adaptive evolution of rbcL in Conocephalum (Hepaticae, bryophytes). Gene (2008) 1.00
Balaenoptera omurai is a newly discovered baleen whale that represents an ancient evolutionary lineage. Mol Phylogenet Evol (2006) 1.00
Combining multiple data sets in a likelihood analysis: which models are the best? Mol Biol Evol (2002) 1.00
Extensive mitochondrial gene arrangements in coleoid Cephalopoda and their phylogenetic implications. Mol Phylogenet Evol (2006) 0.99
The monophyletic origin of sea lions and fur seals (Carnivora; Otariidae) in the Southern Hemisphere. Gene (2009) 0.99
The Plasmodium apicoplast genome: conserved structure and close relationship of P. ovale to rodent malaria parasites. Mol Biol Evol (2012) 0.99
Mitochondrial nucleoid and transcription factor A. Ann N Y Acad Sci (2004) 0.98
A monochromatic action spectrum for the photoinduction of the UV-absorbing mycosporine-like amino acid shinorine in the red alga Chondrus crispus. Photochem Photobiol (2004) 0.94
Evolution of human Polyomavirus JC: implications for the population history of humans. J Mol Evol (2002) 0.91
Was the universal common ancestry proved? Nature (2010) 0.90
Phylogenetic position of Blastocystis hominis and of stramenopiles inferred from multiple molecular sequence data. J Eukaryot Microbiol (2002) 0.90
Cyanobacterial contribution to the genomes of the plastid-lacking protists. BMC Evol Biol (2009) 0.90
Domestication relaxed selective constraints on the yak mitochondrial genome. Mol Biol Evol (2010) 0.89
Why does the giant panda eat bamboo? A comparative analysis of appetite-reward-related genes among mammals. PLoS One (2011) 0.89
Identification and characterization of TcCRP1, a pollen tube attractant from Torenia concolor. Ann Bot (2011) 0.89
Metabolic and morphological changes of an oil accumulating trebouxiophycean alga in nitrogen-deficient conditions. Metabolomics (2012) 0.89
cimp1, a novel astacin family metalloproteinase gene from East African cichlids, is differentially expressed between species during growth. Mol Biol Evol (2005) 0.88
Intra- and interfamily relationships of Vespertilionidae inferred by various molecular markers including SINE insertion data. J Mol Evol (2002) 0.88
Acquisition of LURE-binding activity at the pollen tube tip of Torenia fournieri. Mol Plant (2013) 0.87
New "missing link" genus of the colonial volvocine green algae gives insights into the evolution of oogamy. BMC Evol Biol (2014) 0.86
Molecular phylogenetic study on the origin and evolution of Mustelidae. Gene (2007) 0.86
Functional transplant of photoactivated adenylyl cyclase (PAC) into Aplysia sensory neurons. Neurosci Res (2007) 0.85
Detecting excess radical replacements in phylogenetic trees. Gene (2003) 0.85
Phylogenetic relationships among JC virus strains in Japanese/Koreans and Native Americans speaking Amerind or Na-Dene. J Mol Evol (2003) 0.85
Adaptive threonine increase in transmembrane regions of mitochondrial proteins in higher primates. PLoS One (2008) 0.84
DNA packaging proteins Glom and Glom2 coordinately organize the mitochondrial nucleoid of Physarum polycephalum. Mitochondrion (2011) 0.84
High altitude adaptation of the schizothoracine fishes (Cyprinidae) revealed by the mitochondrial genome analyses. Gene (2013) 0.84
Structural and enzymatic characterization of physarolisin (formerly physaropepsin) proves that it is a unique serine-carboxyl proteinase. Biochem Biophys Res Commun (2003) 0.84
Kinetic analysis of the activation of photoactivated adenylyl cyclase (PAC), a blue-light receptor for photomovements of Euglena. Photochem Photobiol Sci (2005) 0.84
The status of the Japanese and East Asian bats of the genus Myotis (Vespertilionidae) based on mitochondrial sequences. Mol Phylogenet Evol (2003) 0.84
Chemical visualization of an attractant peptide, LURE. Plant Cell Physiol (2010) 0.84
Flagellar motions in phototactic steering in a brown algal swarmer. Photochem Photobiol (2009) 0.84
Action spectrum for expression of the high intensity light-inducible Lhc-like gene Lhl4 in the green alga Chlamydomonas reinhardtii. Plant Cell Physiol (2006) 0.83
New candidate species most closely related to penguins. Gene (2006) 0.83
magp4 gene may contribute to the diversification of cichlid morphs and their speciation. Gene (2006) 0.83
Photocycle features of heterologously expressed and assembled eukaryotic flavin-binding BLUF domains of photoactivated adenylyl cyclase (PAC), a blue-light receptor in Euglena gracilis. Photochem Photobiol Sci (2005) 0.83
Cholesteryl glucoside-induced protection against gastric ulcer. Cell Struct Funct (2003) 0.83
STAT3 and PKC differentially regulate telomerase activity during megakaryocytic differentiation of K562 cells. Cell Cycle (2007) 0.83
UV radiation elevates arylalkylamine N-acetyltransferase activity and melatonin content in the two-spotted spider mite, Tetranychus urticae. J Insect Physiol (2008) 0.83