Published in Nucleic Acids Res on January 01, 2003
Quantification of mesocosm fish and amphibian species diversity via environmental DNA metabarcoding. Mol Ecol Resour (2015) 1.80
Mamit-tRNA, a database of mammalian mitochondrial tRNA primary and secondary structures. RNA (2007) 1.72
An integrated pipeline for next-generation sequencing and annotation of mitochondrial genomes. Nucleic Acids Res (2009) 1.37
Complete mitochondrial DNA sequence of the eastern oyster Crassostrea virginica. Mar Biotechnol (NY) (2005) 1.26
The relationship between the rate of molecular evolution and the rate of genome rearrangement in animal mitochondrial genomes. J Mol Evol (2006) 1.18
Mitochondrial genome sequence and gene order of Sipunculus nudus give additional support for an inclusion of Sipuncula into Annelida. BMC Genomics (2009) 1.17
Complete mitochondrial DNA sequence of oyster Crassostrea hongkongensis-a case of "Tandem duplication-random loss" for genome rearrangement in Crassostrea? BMC Genomics (2008) 1.13
Bears in a forest of gene trees: phylogenetic inference is complicated by incomplete lineage sorting and gene flow. Mol Biol Evol (2014) 1.10
Mitochondrial phylogenomics of the Bivalvia (Mollusca): searching for the origin and mitogenomic correlates of doubly uniparental inheritance of mtDNA. BMC Evol Biol (2010) 1.05
The mitochondrial genome structure of Xenoturbella bocki (phylum Xenoturbellida) is ancestral within the deuterostomes. BMC Evol Biol (2009) 1.03
Mitome: dynamic and interactive database for comparative mitochondrial genomics in metazoan animals. Nucleic Acids Res (2007) 1.02
MitoZoa 2.0: a database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa. Nucleic Acids Res (2011) 1.00
Tunicate mitogenomics and phylogenetics: peculiarities of the Herdmania momus mitochondrial genome and support for the new chordate phylogeny. BMC Genomics (2009) 0.94
The complete mitochondrial genome of the sea spider Nymphon gracile (Arthropoda: Pycnogonida). BMC Genomics (2006) 0.94
On the phylogenetic position of Myzostomida: can 77 genes get it wrong? BMC Evol Biol (2009) 0.94
The response of amino acid frequencies to directional mutation pressure in mitochondrial genome sequences is related to the physical properties of the amino acids and to the structure of the genetic code. J Mol Evol (2006) 0.93
The complete mitochondrial genome of the entomopathogenic nematode Steinernema carpocapsae: insights into nematode mitochondrial DNA evolution and phylogeny. J Mol Evol (2006) 0.92
LCGbase: A Comprehensive Database for Lineage-Based Co-regulated Genes. Evol Bioinform Online (2011) 0.91
The evolution of tRNA-Leu genes in animal mitochondrial genomes. J Mol Evol (2003) 0.90
Afrobatrachian mitochondrial genomes: genome reorganization, gene rearrangement mechanisms, and evolutionary trends of duplicated and rearranged genes. BMC Genomics (2013) 0.89
Mitochondrial genome sequence of Unionicola foili (Acari: Unionicolidae): a unique gene order with implications for phylogenetic inference. Exp Appl Acarol (2009) 0.87
The phylogenetic position of Acoela as revealed by the complete mitochondrial genome of Symsagittifera roscoffensis. BMC Evol Biol (2010) 0.87
IMGD: an integrated platform supporting comparative genomics and phylogenetics of insect mitochondrial genomes. BMC Genomics (2009) 0.84
The mitochondrial genome of Protostrongylus rufescens - implications for population and systematic studies. Parasit Vectors (2013) 0.82
Analyses of mitochondrial amino acid sequence datasets support the proposal that specimens of Hypodontus macropi from three species of macropodid hosts represent distinct species. BMC Evol Biol (2013) 0.81
Annotated mitochondrial genome with Nanopore R9 signal for Nippostrongylus brasiliensis. F1000Res (2017) 0.79
Mitochondrial genome sequence of Unionicola parkeri (Acari: Trombidiformes: Unionicolidae): molecular synapomorphies between closely-related Unionicola gill mites. Exp Appl Acarol (2011) 0.77
Burrowers from the past: mitochondrial signatures of Ordovician bivalve infaunalization. Genome Biol Evol (2017) 0.75
The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BMC Bioinformatics (2002) 29.41
Mitochondrial genome variation and the origin of modern humans. Nature (2000) 11.92
Codon usage tabulated from international DNA sequence databases: status for the year 2000. Nucleic Acids Res (2000) 7.88
Animal mitochondrial genomes. Nucleic Acids Res (1999) 7.75
Genome-scale evolution: reconstructing gene orders in the ancestral species. Genome Res (2002) 5.19
Evolutionary genomics in Metazoa: the mitochondrial DNA as a model system. Gene (1999) 4.67
Mammalian mitogenomic relationships and the root of the eutherian tree. Proc Natl Acad Sci U S A (2002) 3.38
Search for characteristic structural features of mammalian mitochondrial tRNAs. RNA (2000) 2.84
Genome structure and gene content in protist mitochondrial DNAs. Nucleic Acids Res (1998) 2.57
Big trees from little genomes: mitochondrial gene order as a phylogenetic tool. Curr Opin Genet Dev (1998) 2.52
Evolution of organellar genomes. Curr Opin Genet Dev (1999) 2.17
Asymmetrical directional mutation pressure in the mitochondrial genome of mammals. Mol Biol Evol (1998) 2.06
Compositional bias may affect both DNA-based and protein-based phylogenetic reconstructions. J Mol Evol (1999) 2.03
RNA secondary structure: physical and computational aspects. Q Rev Biophys (2000) 1.98
Gene order breakpoint evidence in animal mitochondrial phylogeny. J Mol Evol (1999) 1.88
A comparative genomics approach to the evolution of eukaryotes and their mitochondria. J Eukaryot Microbiol (1999) 1.61
Interordinal relationships of birds and other reptiles based on whole mitochondrial genomes. Syst Biol (1999) 1.57
RNA sequence evolution with secondary structure constraints: comparison of substitution rate models using maximum-likelihood methods. Genetics (2001) 1.53
GOBASE: the organelle genome database. Nucleic Acids Res (2001) 1.30
Interordinal relationships and timescale of eutherian evolution as inferred from mitochondrial genome data. Gene (2000) 1.30
Bayesian phylogenetics using an RNA substitution model applied to early mammalian evolution. Mol Biol Evol (2002) 1.27
Structural rules and conformational compensations in the tRNA L-form. J Mol Biol (1997) 1.26
Mitochondrial DNA in metazoa: degree of freedom in a frozen event. Gene (2002) 1.19
A mitogenomic perspective on the basal teleostean phylogeny: resolving higher-level relationships with longer DNA sequences. Mol Phylogenet Evol (2001) 1.17
Analysis of the complete mitochondrial DNA sequence of the brachiopod terebratulina retusa places Brachiopoda within the protostomes. Proc Biol Sci (1999) 1.13
Mitogenomic exploration of higher teleostean phylogenies: a case study for moderate-scale evolutionary genomics with 38 newly determined complete mitochondrial DNA sequences. Mol Biol Evol (2001) 1.09
The complete mitochondrial sequence of Tarsius bancanus: evidence for an extensive nucleotide compositional plasticity of primate mitochondrial DNA. Mol Biol Evol (2002) 1.07
Phylogenetic invariants for genome rearrangements. J Comput Biol (1999) 0.97
Novel rearrangements of arthropod mitochondrial DNA detected with long-PCR: applications to arthropod phylogeny and evolution. Mol Biol Evol (2002) 0.88
Update of AMmtDB: a database of multi-aligned Metazoa mitochondrial DNA sequences. Nucleic Acids Res (2002) 0.79
A promoter-level mammalian expression atlas. Nature (2014) 6.25
A comprehensive analysis of mammalian mitochondrial genome base composition and improved phylogenetic methods. Mol Biol Evol (2004) 1.39
RNA-based phylogenetic methods: application to mammalian mitochondrial RNA sequences. Mol Phylogenet Evol (2003) 1.38
The mechanisms of codon reassignments in mitochondrial genetic codes. J Mol Evol (2007) 1.25
Codon usage in mitochondrial genomes: distinguishing context-dependent mutation from translational selection. Mol Biol Evol (2007) 1.25
Testing the infinitely many genes model for the evolution of the bacterial core genome and pangenome. Mol Biol Evol (2012) 1.21
The relationship between the rate of molecular evolution and the rate of genome rearrangement in animal mitochondrial genomes. J Mol Evol (2006) 1.18
The influence of anticodon-codon interactions and modified bases on codon usage bias in bacteria. Mol Biol Evol (2010) 1.13
Structuring and extracting knowledge for the support of hypothesis generation in molecular biology. BMC Bioinformatics (2009) 1.10
Population genetics without intraspecific data. Mol Biol Evol (2007) 1.08
Origin of self-replicating biopolymers: autocatalytic feedback can jump-start the RNA world. J Mol Evol (2009) 0.97
A unified model of codon reassignment in alternative genetic codes. Genetics (2005) 0.94
The response of amino acid frequencies to directional mutation pressure in mitochondrial genome sequences is related to the physical properties of the amino acids and to the structure of the genetic code. J Mol Evol (2006) 0.93
Contributions of speed and accuracy to translational selection in bacteria. PLoS One (2012) 0.91
The advantages and disadvantages of horizontal gene transfer and the emergence of the first species. Biol Direct (2011) 0.90
Comparison of the roles of nucleotide synthesis, polymerization, and recombination in the origin of autocatalytic sets of RNAs. Astrobiology (2011) 0.89
Pathways of Genetic Code Evolution in Ancient and Modern Organisms. J Mol Evol (2015) 0.88
The origin of life is a spatially localized stochastic transition. Biol Direct (2012) 0.81
Origin and evolution of gene families in Bacteria and Archaea. BMC Bioinformatics (2011) 0.79
Autocatalytic replication and homochirality in biopolymers: is homochirality a requirement of life or a result of it? Astrobiology (2012) 0.77
Phylogenetic relationships among cirrate octopods (Mollusca: Cephalopoda) resolved using mitochondrial 16S ribosomal DNA sequences. Mol Phylogenet Evol (2003) 0.75
Compositional inheritance: comparison of self-assembly and catalysis. Orig Life Evol Biosph (2008) 0.75