High amino acid diversity and positive selection at a putative coral immunity gene (tachylectin-2)

[1]  E. Martínez-Romero.  Coevolution in Rhizobium-legume symbiosis? , 2009, DNA and cell biology.

[2]  L. Bernatchez,et al.  MHC standing genetic variation and pathogen resistance in wild Atlantic salmon , 2009, Philosophical Transactions of the Royal Society B: Biological Sciences.

[3]  M. Hellberg,et al.  Nuclear sequences reveal mid‐range isolation of an imperilled deep‐water coral population , 2009, Molecular ecology.

[4]  S. Sunagawa,et al.  Evolutionary analysis of orthologous cDNA sequences from cultured and symbiotic dinoflagellate symbionts of reef-building corals (Dinophyceae: Symbiodinium). , 2009, Comparative biochemistry and physiology. Part D, Genomics & proteomics.

[5]  Pablo Librado,et al.  DnaSP v5: a software for comprehensive analysis of DNA polymorphism data , 2009, Bioinform..

[6]  Jade Buchanan-Carter,et al.  Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx , 2009, BMC Genomics.

[7]  Rafael D. Rosengarten,et al.  A Hypervariable Invertebrate Allodeterminant , 2009, Current Biology.

[8]  S. Piertney,et al.  Major histocompatibility complex (MHC) heterozygote superiority to natural multi-parasite infections in the water vole (Arvicola terrestris) , 2009, Proceedings of the Royal Society B: Biological Sciences.

[9]  A. Figueras,et al.  Evidence of high individual diversity on myticin C in mussel (Mytilus galloprovincialis). , 2009, Developmental and comparative immunology.

[10]  Shicui Zhang,et al.  Identification, expression and antibacterial activity of a tachylectin-related homolog in amphioxus Branchiostoma belcheri with implications for involvement of the digestive system in acute phase response. , 2009, Fish & shellfish immunology.

[11]  E. Rosenberg,et al.  The role of microorganisms in coral bleaching , 2009, The ISME Journal.

[12]  P. Tiffin,et al.  Geographic Variation in Adaptation at the Molecular Level: A Case Study of Plant Immunity Genes , 2008, Evolution; international journal of organic evolution.

[13]  D. Kline,et al.  Natural Disease Resistance in Threatened Staghorn Corals , 2008, PloS one.

[14]  F. Jiggins,et al.  The evolution of TEP1, an exceptionally polymorphic immunity gene in Anopheles gambiae , 2008, BMC Evolutionary Biology.

[15]  S. Boissinot,et al.  Long-term balancing selection at the west nile virus resistance gene, Oas1b, maintains transspecific polymorphisms in the house mouse. , 2008, Molecular biology and evolution.

[16]  O. Zugasti,et al.  Anti-Fungal Innate Immunity in C. elegans Is Enhanced by Evolutionary Diversification of Antimicrobial Peptides , 2008, PLoS pathogens.

[17]  D. Posada.  jModelTest: phylogenetic model averaging. , 2008, Molecular biology and evolution.

[18]  Katherine M. Buckley,et al.  The 185/333 gene family is a rapidly diversifying host-defense gene cluster in the purple sea urchin Strongylocentrotus purpuratus. , 2008, Journal of molecular biology.

[19]  Andrew J. DeWoody,et al.  Inferring Population History and Demography Using Microsatellites, Mitochondrial DNA, and Major Histocompatibility Complex (MHC) Genes , 2008, Evolution; international journal of organic evolution.

[20]  A. Baird,et al.  Coral Adaptation in the Face of Climate Change , 2008, Science.

[21]  J. Powell,et al.  The molecular evolution of four anti-malarial immune genes in the Anopheles gambiae species complex , 2008, BMC Evolutionary Biology.

[22]  P. Brokstein,et al.  Coral life history and symbiosis: Functional genomic resources for two reef building Caribbean corals, Acropora palmata and Montastraea faveolata , 2008, BMC Genomics.

[23]  Michael J E Sternberg,et al.  Exploring the extremes of sequence/structure space with ensemble fold recognition in the program Phyre , 2008, Proteins.

[24]  Thomas Bataillon,et al.  Investigation of the Demographic and Selective Forces Shaping the Nucleotide Diversity of Genes Involved in Nod Factor Signaling in Medicago truncatula , 2007, Genetics.

[25]  Ziheng Yang.  PAML 4: phylogenetic analysis by maximum likelihood. , 2007, Molecular biology and evolution.

[26]  Nicholas H. Putnam,et al.  Sea Anemone Genome Reveals Ancestral Eumetazoan Gene Repertoire and Genomic Organization , 2007, Science.

[27]  H. Schulenburg,et al.  How do invertebrates generate a highly specific innate immune response? , 2007, Molecular immunology.

[28]  Hugh Sweatman,et al.  Thermal Stress and Coral Cover as Drivers of Coral Disease Outbreaks , 2007, PLoS biology.

[29]  David J. Miller,et al.  The innate immune repertoire in Cnidaria - ancestral complexity and stochastic gene loss , 2007, Genome Biology.

[30]  Alexandre M J J Bonvin,et al.  Activity-structure correlations in divergent lectin evolution: fine specificity of chicken galectin CG-14 and computational analysis of flexible ligand docking for CG-14 and the closely related CG-16. , 2007, Glycobiology.

[31]  A. Hughes,et al.  A gene family of putative immune recognition molecules in the hydroid Hydractinia , 2007, Immunogenetics.

[32]  Peter Tiffin,et al.  Molecular evolution of plant immune system genes. , 2006, Trends in genetics : TIG.

[33]  L. E. Jones,et al.  Innate Immunity, Environmental Drivers, and Disease Ecology of Marine and Freshwater Invertebrates , 2006 .

[34]  David Posada,et al.  Automated phylogenetic detection of recombination using a genetic algorithm. , 2006, Molecular biology and evolution.

[35]  J. McDowell,et al.  Recent insights into R gene evolution. , 2006, Molecular plant pathology.

[36]  M. Kreitman,et al.  A Genome-Wide Survey of R Gene Polymorphisms in Arabidopsis[W] , 2006, The Plant Cell Online.

[37]  T. Bataillon,et al.  Molecular Evolution and Positive Selection of the Symbiotic Gene NORK in Medicago truncatula , 2006, Journal of Molecular Evolution.

[38]  P. Tiffin,et al.  Genetic diversity and the evolutionary history of plant immunity genes in two species of Zea. , 2005, Molecular biology and evolution.

[39]  Irving L. Weissman,et al.  Isolation and characterization of a protochordate histocompatibility locus , 2005, Nature.

[40]  S. Sommer.  The importance of immune gene variability (MHC) in evolutionary ecology and conservation , 2005, Frontiers in Zoology.

[41]  W. Swanson,et al.  Pervasive Adaptive Evolution in Primate Seminal Proteins , 2005, PLoS genetics.

[42]  Timothy B Sackton,et al.  A Scan for Positively Selected Genes in the Genomes of Humans and Chimpanzees , 2005, PLoS biology.

[43]  S. Sommer,et al.  MHC class II DRB variability and parasite load in the striped mouse (Rhabdomys pumilio) in the Southern Kalahari. , 2005, Molecular biology and evolution.

[44]  W. Wong,et al.  Bayes empirical bayes inference of amino acid sites under positive selection. , 2005, Molecular biology and evolution.

[45]  P. Phillips,et al.  Accuracy and Power of the Likelihood Ratio Test for Comparing Evolutionary Rates Among Genes , 2005, Journal of Molecular Evolution.

[46]  Sergei L. Kosakovsky Pond,et al.  Datamonkey: rapid detection of selective pressure on individual sites of codon alignments , 2005, Bioinform..

[47]  Michael P. Cummings,et al.  PAUP* [Phylogenetic Analysis Using Parsimony (and Other Methods)] , 2004 .

[48]  Nick Goldman,et al.  Accuracy and Power of Statistical Methods for Detecting Adaptive Evolution in Protein Coding Sequences and for Identifying Positively Selected Sites , 2004, Genetics.

[49]  E. Rosenberg,et al.  The Vibrio shiloi/Oculina patagonica model system of coral bleaching. , 2004, Annual review of microbiology.

[50]  Dirk Husmeier,et al.  TOPALi: software for automatic identification of recombinant sequences within DNA multiple alignments , 2004, Bioinform..

[51]  Thomas B. Kepler,et al.  Diversification of Ig Superfamily Genes in an Invertebrate , 2004, Science.

[52]  S. Penny,et al.  Identification of Immune-Relevant Genes from Atlantic Salmon Using Suppression Subtractive Hybridization , 2004, Marine Biotechnology.

[53]  T. Kepler,et al.  Invertebrate immune systems – not homogeneous, not simple, not well understood , 2004, Immunological reviews.

[54]  L. Visai,et al.  Structural and biochemical characterization of a new type of lectin isolated from carp eggs. , 2003, The Biochemical journal.

[55]  H. Ushijima,et al.  Emergence and Disappearance of an Immune Molecule, an Antimicrobial Lectin, in Basal Metazoa , 2003, Journal of Biological Chemistry.

[56]  R. Grosberg,et al.  Climate Change, Human Impacts, and the Resilience of Coral Reefs , 2003, Science.

[57]  D. Begun,et al.  Natural selection drives Drosophila immune system evolution. , 2003, Genetics.

[58]  R. Nielsen,et al.  Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites. , 2003, Genetics.

[59]  C. Landry,et al.  MHC studies in nonmodel vertebrates: what have we learned about natural selection in 15 years? , 2003, Journal of evolutionary biology.

[60]  James I Mullins,et al.  Potential impact of recombination on sitewise approaches for detecting positive natural selection. , 2003, Genetical research.

[61]  S. Kawabata,et al.  Molecular basis of non-self recognition by the horseshoe crab tachylectins. , 2002, Biochimica et biophysica acta.

[62]  Remy Loris,et al.  Principles of structures of animal and plant lectins. , 2002, Biochimica et biophysica acta.

[63]  Michael J. Ford,et al.  Applications of selective neutrality tests to molecular ecology , 2002, Molecular ecology.

[64]  P. Hedrick,et al.  Using microsatellite and MHC variation to identify species, ESUs, and MUs in the endangered Sonoran topminnow , 2001, Molecular ecology.

[65]  J G Bishop,et al.  Rapid evolution in plant chitinases: molecular targets of selection in plant-pathogen coevolution. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[66]  N. Goldman,et al.  Codon-substitution models for heterogeneous selection pressure at amino acid sites. , 2000, Genetics.

[67]  Gráinne McGuire,et al.  TOPAL 2.0: improved detection of mosaic sequences within multiple alignments , 2000, Bioinform..

[68]  J. Burkholder,et al.  Emerging marine diseases--climate links and anthropogenic factors. , 1999, Science.

[69]  S. Kawabata,et al.  Role of lectins in the innate immunity of horseshoe crab. , 1999, Developmental and comparative immunology.

[70]  R. Huber,et al.  Tachylectin‐2: crystal structure of a specific GlcNAc/GalNAc‐binding lectin involved in the innate immunity host defense of the Japanese horseshoe crab Tachypleus tridentatus , 1999, The EMBO journal.

[71]  C. Huh,et al.  Cloning and characterization of Physarum polycephalum tectonins. Homologues of Limulus lectin L-6. , 1998, The Journal of biological chemistry.

[72]  Werner Braun,et al.  Exact and efficient analytical calculation of the accessible surface areas and their gradients for macromolecules , 1998, J. Comput. Chem..

[73]  J. Wakeley,et al.  A coalescent estimator of the population recombination rate. , 1997, Genetics.

[74]  S. Palumbi,et al.  Evolution of Scleractinian Corals Inferred from Molecular Systematics , 1996, Science.

[75]  S. Kawabata,et al.  Purification, Characterization, and cDNA Cloning of a 27-kDa Lectin (L10) from Horseshoe Crab Hemocytes (*) , 1995, The Journal of Biological Chemistry.

[76]  K. Drickamer.  Multiplicity of lectin-carbohydrate interactions , 1995, Nature Structural Biology.

[77]  T. Creighton,et al.  Functional evolutionary divergence of proteolytic enzymes and their inhibitors. , 1989, Trends in biochemical sciences.

[78]  M. Nei,et al.  Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection , 1988, Nature.

[79]  R. Hudson,et al.  Estimating the recombination parameter of a finite population model without selection. , 1987, Genetical research.

[80]  A. Lesk,et al.  The relation between the divergence of sequence and structure in proteins. , 1986, The EMBO journal.

[81]  R. Hudson,et al.  Statistical properties of the number of recombination events in the history of a sample of DNA sequences. , 1985, Genetics.

[82]  R. Barnes,et al.  The Lower Metazoa. , 1964 .

[83]  M. Sternberg,et al.  Protein structure prediction on the Web: a case study using the Phyre server , 2009, Nature Protocols.

[84]  Julio A. Rozas Liras,et al.  DnaSP v 5 : a software for comprehensive analysis of DNA polymorphism data , 2009 .

[85]  B. Degnan,et al.  An ancient and variable mannose-binding lectin from the coral Acropora millepora binds both pathogens and symbionts. , 2008, Developmental and comparative immunology.

[86]  C. Koenig,et al.  Impacts of bottom trawling on a deep-water Oculina coral ecosystem off florida , 2007 .

[87]  Yingqing Lu,et al.  Historical events and allelic polymorphism at the gametophytic self-incompatibility locus in Solanaceae , 2006, Heredity.

[88]  S. Piertney,et al.  The evolutionary ecology of the major histocompatibility complex , 2006, Heredity.

[89]  M. Frohme,et al.  Structural but not functional conservation of an immune molecule: a tachylectin-like gene in Hydractinia. , 2006, Developmental and comparative immunology.

[90]  Derrick J. Zwickl.  Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion , 2006 .

[91]  D. Swofford.  PAUP*: Phylogenetic analysis using parsimony (*and other methods), Version 4.0b10 , 2002 .

[92]  N. Guex,et al.  SWISS‐MODEL and the Swiss‐Pdb Viewer: An environment for comparative protein modeling , 1997, Electrophoresis.