Indels in protein-coding sequences of Euarchontoglires constrain the rooting of the eutherian tree.

No abstract is available for this paper.

• Publication year

  2003

• Venue

  Molecular Phylogenetics and Evolution

• Publication date

  2003-08-01

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1016/S1055-7903(03)00116-7PMID 12878469
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• A new phylogenetic marker, apolipoprotein B, provides compelling evidence for eutherian relationships.

  2003cited by this paper
• Molecular evolution of the mammalian prion protein.

  2003cited by this paper
• Reanalysis of Murphy et al.’s Data Gives Various Mammalian Phylogenies and Suggests Overcredibility of Bayesian Trees

  2003cited by this paper
• Evaluating placental inter-ordinal phylogenies with novel sequences including RAG1, gamma-fibrinogen, ND6, and mt-tRNA, plus MCMC-driven nucleotide, amino acid, and codon models.

  2003cited by this paper
• Mitochondrial phylogeny of hedgehogs and monophyly of Eulipotyphla.

  2003cited by this paper
• The human genome encodes 10 α-crystallin–related small heat shock proteins: HspB1–10

  2003cited by this paper
• Revisiting the Glires concept--phylogenetic analysis of nuclear sequences.

  2003cited by this paper
• Molecular phylogenetic evidence confirming the Eulipotyphla concept and in support of hedgehogs as the sister group to shrews.

  2002cited by this paper
• Rodent phylogeny and a timescale for the evolution of Glires: evidence from an extensive taxon sampling using three nuclear genes.

  2002cited by this paper
• Microbat paraphyly and the convergent evolution of a key innovation in Old World rhinolophoid microbats

  2002cited by this paper
• The complete mitochondrial sequence of Tarsius bancanus: evidence for an extensive nucleotide compositional plasticity of primate mitochondrial DNA.

  2002cited by this paper
• PAUP*: Phylogenetic analysis using parsimony (*and other methods), Version 4.0b10

  2002cited by this paper
• Sequence gaps join mice and men: phylogenetic evidence from deletions in two proteins.

  2002cited by this paper
• Pika and vole mitochondrial genomes increase support for both rodent monophyly and glires.

  2002cited by this paper
• The Wilhelmine E. Key 2001 Invitational Lecture. Estimation of divergence times for a few mammalian and several primate species.

  2002cited by this paper
• Mammalian mitogenomic relationships and the root of the eutherian tree

  2002cited by this paper
• Phylogenetic Analysis of 18S rRNA and the Mitochondrial Genomes of the Wombat, Vombatus ursinus, and the Spiny Anteater, Tachyglossus aculeatus: Increased Support for the Marsupionta Hypothesis

  2002cited by this paper
• Molecular phylogeny of living xenarthrans and the impact of character and taxon sampling on the placental tree rooting.

  2002cited by this paper
• Four new mitochondrial genomes and the increased stability of evolutionary trees of mammals from improved taxon sampling.

  2002cited by this paper
• The potential value of indels as phylogenetic markers: position of trichomonads as a case study.

  2002cited by this paper
• A phylogenetic foundation for comparative mammalian genomics.

  2001cited by this paper
• Molecular phylogenetics and the origins of placental mammals

  2001cited by this paper
• Parallel adaptive radiations in two major clades of placental mammals

  2001cited by this paper
• Lateral transfer at the gene and subgenic levels in the evolution of eukaryotic enolase

  2001cited by this paper
• Molecular synapomorphies resolve evolutionary relationships of extant jawed vertebrates

  2001cited by this paper
• Models of sequence evolution for DNA sequences containing gaps.

  2001cited by this paper
• The branching order and phylogenetic placement of species from completed bacterial genomes, based on conserved indels found in various proteins

  2001cited by this paper
• Mining the mammalian genome for artiodactyl systematics.

  2001cited by this paper
• Molecular phylogeny and divergence time estimates for major rodent groups: evidence from multiple genes.

  2001cited by this paper
• Incomplete taxon sampling is not a problem for phylogenetic inference

  2001cited by this paper
• Molecular Evidence for the Major Clades of Placental Mammals

  2001cited by this paper
• Resolution of the Early Placental Mammal Radiation Using Bayesian Phylogenetics

  2001cited by this paper
• MRBAYES: Bayesian inference of phylogenetic trees

  2001cited by this paper
• Distribution of indel lengths

  2001cited by this paper
• Multiple sequence alignment in phylogenetic analysis.

  2000cited by this paper
• Phylogeny: Parabasalian flagellates are ancient eukaryotes

  2000cited by this paper
• Rare genomic changes as a tool for phylogenetics.

  2000cited by this paper
• Long-branch attraction phenomenon and the impact of among-site rate variation on rodent phylogeny.

  2000cited by this paper
• Parabasalian flagellates are ancient eukaryotes.

  2000cited by this paper
• Molecular Evolution and Phylogenetics

  2000cited by this paper
• Gaps as characters in sequence-based phylogenetic analyses.

  2000cited by this paper
• The virtues of gaps: xenarthran (Edentate) monophyly supported by a unique deletion in alpha A-crystallin.

  1999cited by this paper
• Analysis of 27 mammalian and 9 avian PrPs reveals high conservation of flexible regions of the prion protein.

  1999cited by this paper
• On gaps.

  1999cited by this paper
• MODELTEST: testing the model of DNA substitution

  1998cited by this paper
• Patterns and rates of indel evolution in processed pseudogenes from humans and murids.

  1997cited by this paper
• Prion protein gene variation among primates.

  1995cited by this paper
• The size distribution of insertions and deletions in human and rodent pseudogenes suggests the logarithmic gap penalty for sequence alignment

  1995cited by this paper
• Fundamentals of molecular evolution

  1990cited by this paper

• Gamete Recognition Gene Divergence Yields a Robust Eutherian Phylogeny across Taxonomic Levels

  2023cites this paper
• Genomic Comparison Among Global Isolates of L. interrogans Serovars Copenhageni and Icterohaemorrhagiae Identified Natural Genetic Variation Caused by an Indel

  2018cites this paper
• Defining Mononuclear Phagocyte Subset Homology Across Several Distant Warm-Blooded Vertebrates Through Comparative Transcriptomics

  2015cites this paper
• Mine the Gaps : Evolution of Eukaryotic Protein Indels and their Application for Testing Deep Phylogeny

  2014cites this paper
• Differences in immune cell function between tuberculosis positive and negative Asian elephants.

  2014cites this paper
• Evolution of protein indels in plants, animals and fungi

  2013cites this paper
• Comparative Anatomy of the Bony Labyrinth (Inner Ear) of Placental Mammals

  2013cites this paper
• Immune function alterations in Asian elephants (Elephas maximus) infected with Mycobacterium species

  2013influential citation
• CLONACION Y EXPRESION DEL GEN DEL RECEPTOR DELTA DE LINFOCITOS T DE DASYPUS NOVEMCINCTUS

  2012cites this paper
• SeqFIRE: a web application for automated extraction of indel regions and conserved blocks from protein multiple sequence alignments

  2012cites this paper
• A new genus of miniaturized and pug-nosed gecko from South America (Sphaerodactylidae: Gekkota).

  2011cites this paper
• Comparison of Systemic Cytokine Levels in Mycobacterium spp. Seropositive and Seronegative Asian Elephants (Elephas maximus)

  2010cites this paper
• Large-scale parsimony analysis of metazoan indels in protein-coding genes.

  2010cites this paper
• Automated Removal of Noisy Data in Phylogenomic Analyses

  2010cites this paper
• Evolutionary and phylogenetic significance of platypus microsatellites conserved in mammalian and other vertebrate genomes

  2009cites this paper
• Molecular evolution of primates - featuring mobile elements

  2009cites this paper
• Development and validation of cytokine quantitative, real time RT-PCR assays for characterization of Asian elephant immune responses.

  2009cites this paper
• Rodent phylogeny revised: analysis of six nuclear genes from all major rodent clades

  2009cites this paper
• Base composition, selection, and phylogenetic significance of indels in the recombination activating gene-1 in vertebrates

  2009cites this paper
• Phylogenomic resources at the UCSC Genome Browser.

  2008cites this paper
• A timescale and phylogeny for "bandicoots" (Peramelemorphia: Marsupialia) based on sequences for five nuclear genes.

  2008cites this paper
• Morphology and placental mammal phylogeny.

  2008cites this paper
• The genus Coleodactylus (Sphaerodactylinae, Gekkota) revisited: a molecular phylogenetic perspective.

  2008cites this paper
• SHARED MOLECULAR SIGNATURES SUPPORT THE INCLUSION OF CATAMIXIS IN SUBFAMILY PERTYOIDEAE (ASTERACEAE).

  2008cites this paper
• Incorporation of gap characters and lineage‐specific regions into phylogenetic analyses of gene families from divergent clades: an example from the kinesin superfamily across eukaryotes

  2008cites this paper
• Points of View Morphology and Placental Mammal Phylogeny

  2008cites this paper
• The relative performance of indel-coding methods in simulations.

  2007cites this paper
• THE COMPARATIVE METHOD AND THE INFERENCE OF VENOM-DELIVERY SYSTEMS IN FOSSIL MAMMALS

  2007cites this paper
• Using genomic data to unravel the root of the placental mammal phylogeny.

  2007cites this paper
• Genomics, biogeography, and the diversification of placental mammals

  2007cites this paper
• Using genomic data to unravel the root of the placental mammal data Supplementary

  2007cites this paper
• Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes)

  2007cites this paper
• Mammalian evolution and biomedicine: new views from phylogeny

  2007cites this paper
• A Molecular Classification for the Living Orders of Placental Mammals and the Phylogenetic Placement of Primates

  2007cites this paper
• Indel evolution of mammalian introns and the utility of non-coding nuclear markers in eutherian phylogenetics.

  2007cites this paper
• Phylogenetic analyses of parasites in the new millennium.

  2006cites this paper
• Genome sequence comparison reveals independent inactivation of the caspase-15 gene in different evolutionary lineages of mammals.

  2006cites this paper
• Retroposed Elements as Archives for the Evolutionary History of Placental Mammals

  2006cites this paper
• The evolution of nuclear microsatellite DNA markers and their flanking regions using reciprocal comparisons within the African mole-rats (Rodentia: Bathyergidae)

  2006cites this paper
• The platypus is in its place: nuclear genes and indels confirm the sister group relation of monotremes and Therians.

  2006cites this paper
• A higher-level MRP supertree of placental mammals

  2006cites this paper
• Visualizing conflicting evolutionary hypotheses in large collections of trees: using consensus networks to study the origins of placentals and hexapods.

  2005cites this paper
• Comparative analysis of protein coding sequences from human, mouse and the domesticated pig

  2005cites this paper
• Taenia solium: characterization of a small heat shock protein (Tsol-sHSP35.6) and its possible relevance to the diagnosis and pathogenesis of neurocysticercosis.

  2005cites this paper
• Some Histories of Molecular Evolution: Amniote Phylogeny, Vertebrate Eye Lens Evolution, and the Prion Gene

  2004cites this paper
• Molecules consolidate the placental mammal tree.

  2004cites this paper
• Rabbits, if anything, are likely Glires.

  2004cites this paper
• Ribosomal protein-sequence block structure suggests complex prokaryotic evolution with implications for the origin of eukaryotes.

  2004cites this paper
• Mammalian phylogenomics comes of age.

  2004cites this paper
• Is Sequence Heterochrony an Important Evolutionary Mechanism in Mammals?

  2003cites this paper