Hughes AL, Piontkivska H: Functional diversification of the toll-like receptor gene family.
Immunogenetics 2008, 60:249–256.
Article
CAS
PubMed
Google Scholar
Kulski JK, Shiina T, Anzai T, Kohara S, Inoko H: Comparative genomic analysis of the MHC: the evolution of class I duplication blocks, diversity and complexity from shark to man.
Immunological Reviews 2002, 190:95–122.
Article
CAS
PubMed
Google Scholar
Piertney SB, Oliver MK: The evolutionary ecology of the major histocompatibility complex.
Heredity 2006, 96:7–21.
CAS
PubMed
Google Scholar
Roberts R, Liu L, Guo Q, Leaman D, Bixby J: The evolution of the type I interferons.
Journal of Interferon and Cytokine Research 1998, 18:805–816.
Article
CAS
PubMed
Google Scholar
Hughes AL: Evolutionary diversification of the mammalian defensins.
Cellular and Molecular Life Sciences 1999, 56:94–103.
Article
CAS
PubMed
Google Scholar
Wong JH, Xia L, Ng T: A review of defensins of diverse origins.
Current Protein and Peptide Science 2007, 8:446–459.
Article
CAS
PubMed
Google Scholar
Sugiarto H, Yu PL: Avian antimicrobial peptides: the defense role of beta-defensins.
Biochemical and Biophysical Research Communications 2004, 323:721–727.
Article
CAS
PubMed
Google Scholar
Lazzaro BP, Clark AG: Molecular population genetics of inducible antibacterial peptide genes in Drosophila melanogaster.
Mol Biol Evol 2003, 20:914–923.
Article
CAS
PubMed
Google Scholar
Chen HQ, Xu ZN, Peng L, Fang XM, Yin XF, Xu NZ, Cen PL: Recent advances in the research and development of human defensins.
Peptides 2006, 27:931–940.
Article
CAS
PubMed
Google Scholar
Klotman ME, Chang TL: Defensins in innate antiviral immunity.
Nature Reviews Immunology 2006, 6:447–456.
Article
CAS
PubMed
Google Scholar
Madison AN, Ydeshchenko YY, Nde PN, Simmons KJ, Lima MF, Villalta F: Human defensin alpha-1 causes Trypanosoma cruzi membrane pore formation and induces DNA fragmentation, which leads to trypanosome destruction.
Infection and Immunity 2007, 75:4780–4791.
Article
CAS
PubMed
Google Scholar
Grigat J, Soruri A, Forssmann U, Riggert J, Zwirner J: Chemoattraction of macrophages, T lymphocytes, and mast cells is evolutionarily conserved within the human alpha-defensn family.
Journal of Immunology 2007, 179:3958–3965.
CAS
Google Scholar
Soruri A, Grigat J, Forssmann U, Riggert J, Zwirner J: beta-defensins chemoattract macrophages and mast cells but not lymphocytes and dendritic cells: CCR6 is not involved.
European Journal of Immunology 2007, 37:2474–2486.
Article
CAS
PubMed
Google Scholar
Staubitz P, Neumann H, Schneider T, Wiedemann I, Peschel A: MprF-mediated biosynthesis of lysylphosphatidylglycerol, an important determinant in staphylococcal defensin resistance.
Fems Microbiology Letters 2004, 231:67–71.
Article
CAS
PubMed
Google Scholar
Lynn DJ, Higgs R, Gaines S, Tierney J, James T, Lloyd AT, Fares MA, Mulcahy G, O'Farrelly C: Bioinformatic discovery and initial characterisation of nine novel antimicrobial peptide genes in the chicken.
Immunogenetics 2004, 56:170–177.
Article
CAS
PubMed
Google Scholar
van Dijk A, Veldhuizen EJA, Haagsman HP: Avian defensins.
Veterinary Immunology and Immunopathology 2008, 124:1–18.
Article
CAS
PubMed
Google Scholar
Xiao YJ, Hughes AL, Ando J, Matsuda Y, Cheng JF, Skinner-Noble D, Zhang GL: A genome-wide screen identifies a single beta-defensin gene cluster in the chicken: implications for the origin and evolution of mammalian defensins.
Bmc Genomics 2004, 5:56.
Article
PubMed
Google Scholar
Boman HG: Antibacterial peptides: basic facts and emerging concepts.
Journal of Internal Medicine 2003, 254:197–215.
Article
CAS
PubMed
Google Scholar
Ganz T: Defensins: antimicrobial peptides of innate immunity.
Nat Rev Immunol 2003, 3:710–720.
Article
CAS
PubMed
Google Scholar
Lehrer RI, Ganz T: Defensins of vertebrate animals.
Current Opinion in Immunology 2002, 14:96–102.
Article
CAS
PubMed
Google Scholar
Kaiser V, Diamond G: Expression of mammalian defensin genes.
Journal of Leukocyte Biology 2000, 68:779–784.
CAS
PubMed
Google Scholar
Zaalouk TK, Bajaj-Elliott M, George JT, McDonald V: Differential regulation of beta-defensin gene expression during Cryptosporidium parvum infection.
Infection and Immunity 2004, 72:2772–2779.
Article
CAS
PubMed
Google Scholar
Lehmann J, Retz M, Harder J, Krams M, Kellner U, Hartmann J, Hohgrawe K, Raffenberg U, Gerber M, Loch T, et al.: Expression of human beta-defensins 1 and 2 in kidneys with chronic bacterial infection.
BMC Infectious Diseases 2002, 2:20.
Article
PubMed
Google Scholar
Han SH, Kim YE, Park JA, Park JB, Kim YS, Lee Y, Choi IG, Kwon HJ: Expression of human [beta]-defensin-2 gene induced by CpG-DNA in human B cells.
Biochemical and Biophysical Research Communications 2009, 389:443–448.
Article
CAS
PubMed
Google Scholar
Semple CAM, Rolfe M, Dorin JR: Duplication and selection in the evolution of primate beta-defensin genes.
Genome Biology 2003, 4:31.
Article
Google Scholar
Van Tuinen M, Hedges SB: Calibration of avian molecular clocks.
Mol Biol Evol 2001, 18:206–213.
CAS
PubMed
Google Scholar
Vera JC, Wheat CW, Fescemyer HW, Frilander MJ, Crawford DL, Hanski I, Marden JH: Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing.
Molecular Ecology 2008, 17:1636–1647.
Article
CAS
PubMed
Google Scholar
Murray D, Doran P, MacMathuna P, Moss AC: In silico gene expression analysis - an overview.
Molecular Cancer 2007, 6:50.
Article
PubMed
Google Scholar
Hollox EJ, Armour JAL, Barber JCK: Extensive normal copy number variation of a beta-defensin antimicrobial-gene cluster.
American Journal of Human Genetics 2003, 73:591–600.
Article
CAS
PubMed
Google Scholar
Hughes AL: Looking for Darwin in all the wrong places: the misguided quest for positive selection at the nucleotide sequence level.
Heredity 2007, 99:364–373.
Article
CAS
PubMed
Google Scholar
Hughes AL, Friedman R: Codon-based tests of positive selection, branch lengths, and the evolution of mammalian immune system genes.
Immunogenetics 2008, 60:495–506.
Article
CAS
PubMed
Google Scholar
Higgs R, Lynn DJ, Cahalane S, Alana I, Hewage CM, James T, Lloyd AT, O'Farrelly C: Modification of chicken avian beta-defensin-8 at positively selected amino acid sites enhances specific antimicrobial activity.
Immunogenetics 2007, 59:573–580.
Article
CAS
PubMed
Google Scholar
Wellman-Labadie O, Picman J, Hincke MT: Avian antimicrobial proteins: structure, distribution and activity.
Worlds Poultry Science Journal 2007, 63:421–438.
Article
Google Scholar
Lynn DJ, Lloyd AT, Fares MA, O'Farrelly C: Evidence of positively selected sites in mammalian alpha-defensins.
Mol Biol Evol 2004, 21:819–827.
Article
CAS
PubMed
Google Scholar
Hughes AL: The Evolution of Functionally Novel Proteins After Gene Duplication.
Proceedings of the Royal Society of London Series B-Biological Sciences 1994, 256:119–124.
Article
CAS
Google Scholar
Ohno S: Evolution by gene duplication. London: Allen & Unwin; 1970.
Google Scholar
Bergthorsson U, Andersson DI, Roth JR: Ohno's dilemma: Evolution of new genes under continuous selection.
PNAS 2007, 104:17004–17009.
Article
CAS
PubMed
Google Scholar
Kondrashov FA, Koonin EV: A common framework for understanding the origin of genetic dominance and evolutionary fates of gene duplications.
Trends in Genetics 2004, 20:287–291.
Article
CAS
PubMed
Google Scholar
Hittinger CT, Carroll SB: Gene duplication and the adaptive evolution of a classic genetic switch.
Nature 2007, 449:677–6U1.
Article
CAS
PubMed
Google Scholar
Hughes AL: Gene duplication and the origin of novel proteins.
Proceedings of the National Academy of Sciences of the United States of America 2005, 102:8791–8792.
Article
CAS
PubMed
Google Scholar
van Dijk A, Veldhuizen EJA, Kalkhove SIC, Tjeerdsma-van Bokhoven JLM, Romijn RA, Haagsman HP: The beta-defensin gallinacin-6 is expressed in the chicken digestive tract and has antimicrobial activity against food-borne pathogens.
Antimicrob Agents Chemother 2007, 51:912–922.
Article
CAS
PubMed
Google Scholar
Hasenstein JR, Zhang GL, Lamont SJ: Analyses of five gallinacin genes and the Salmonella enterica serovar Enteritidis response in poultry.
Infection and Immunity 2006, 74:3375–3380.
Article
CAS
PubMed
Google Scholar
Milona P, Townes CL, Bevan RM, Hall J: The chicken host peptides, gallinacins 4, 7, and 9 have antimicrobial activity against Salmonella serovars.
Biochemical and Biophysical Research Communications 2007, 356:169–174.
Article
CAS
PubMed
Google Scholar
Biragyn A, Ruffini PA, Leifer CA, Klyushnenkova E, Shakhov A, Chertov O, Shirakawa AK, Farber JM, Segal DM, Oppenheim JJ, et al.: Toll-like receptor 4-dependent activation of dendritic cells by beta-defensin 2.
Science 2002, 298:1025–1029.
Article
CAS
PubMed
Google Scholar
Tennessen JA: Molecular evolution of animal antimicrobial peptides: widespread moderate positive selection.
Journal of Evolutionary Biology 2005, 18:1387–1394.
Article
CAS
PubMed
Google Scholar
Tennessen JA, Blouin MS: Selection for antimicrobial peptide diversity in frogs leads to gene duplication and low allelic variation.
Journal of Molecular Evolution 2007, 65:605–615.
Article
CAS
PubMed
Google Scholar
Jiggins FM, Kim KW: The evolution of antifungal peptides in Drosophila.
Genetics 2005, 171:1847–1859.
Article
CAS
PubMed
Google Scholar
Lazzaro BP: Natural selection on the Drosophila antimicrobial immune system.
Current Opinion in Microbiology 2008, 11:284–289.
Article
CAS
PubMed
Google Scholar
Sackton TB, Lazzaro BP, Schlenke TA, Evans JD, Hultmark D, Clark AG: Dynamic evolution of the innate immune system in Drosophila.
Nature Genetics 2007, 39:1461–1468.
Article
CAS
PubMed
Google Scholar
Lynn DJ, Higgs R, Lloyd AT, O'Farrelly C, Herve-Grepinet V, Nys Y, Brinkman FSL, Yu PL, Soulier A, Kaiser P, et al.: Avian beta-defensin nomenclature: A community proposed update.
Immunology Letters 2007, 110:86–89.
Article
CAS
PubMed
Google Scholar
Stapley J, Birkhead TR, Burke T, Slate J: A linkage map of the zebra finch Taeniopygia guttata provides new insights into avian genome evolution.
Genetics 2008, 179:651–667.
Article
CAS
PubMed
Google Scholar
Yanai I, Benjamin H, Shmoish M, Chalifa-Caspi V, Shklar M, Ophir R, Bar-Even A, Horn-Saban S, Safran M, Domany E, et al.: Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification.
Bioinformatics 2005, 21:650–659.
Article
CAS
PubMed
Google Scholar
Mank JE, Hultin-Rosenberg L, Zwahlen M, Ellegren H: Pleiotropic constraint hampers the resolution of sexual antagonism in vertebrate gene expression.
American Naturalist 2008, 171:35–43.
Article
PubMed
Google Scholar
R Development Core Team: R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing; 2008.
Google Scholar
Edgar RC: MUSCLE: multiple sequence alignment with high accuracy and high throughput.
Nucleic Acids Research 2004, 32:1792–1797.
Article
CAS
PubMed
Google Scholar
Ronquist F, Huelsenbeck JP: MrBayes 3: Bayesian phylogenetic inference under mixed models.
Bioinformatics 2003, 19:1572–1574.
Article
CAS
PubMed
Google Scholar
Tamura K, Dudley J, Nei M, Kumar S: MEGA4: Molecular evolutionary genetics analysis (MEGA) software version 4.0.
Mol Biol Evol 2007, 24:1596–1599.
Article
CAS
PubMed
Google Scholar
Yang ZH: PAML 4: Phylogenetic analysis by maximum likelihood.
Mol Biol Evol 2007, 24:1586–1591.
Article
CAS
PubMed
Google Scholar
Felsenstein J: PHYLIP (Phylogeny Inference Package) version 3.69. Distributed by the author Department of Genome Sciences, University of Washington, Seattle; 2009.
Google Scholar
Yang ZH, Nielsen R: Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models.
Mol Biol Evol 2000, 17:32–43.
CAS
PubMed
Google Scholar
Swanson WJ, Nielsen R, Yang QF: Pervasive adaptive evolution in mammalian fertilization proteins.
Mol Biol Evol 2003, 20:18–20.
CAS
PubMed
Google Scholar