title: Characterisation of Toll-like receptors 4, 5 and 7 and their genetic variation in the grey partridge.
abstract: Toll-like receptors (TLRs) are a cornerstone of vertebrate innate immunity. In this study, we identified orthologues of TLR4, TLR5 and TLR7 (representing both bacterial- and viral-sensing TLRs) in the grey partridge (Perdix perdix), a European Galliform game bird species. The phylogeny of all three TLR genes follows the known phylogeny of Galloanserae birds, placing grey partridge TLRs (PePeTLRs) in close proximity to their turkey and pheasant orthologues. The predicted proteins encoded by the PePeTLR genes were 843, 862-863 and 1,047 amino acids long, respectively, and clearly showed all TLR structural features. To verify functionality in these genes we mapped their tissue-expression profiles, revealing generally high PePeTLR4 and PePeTLR5 expression in the thymus and absence of PePeTLR4 and PePeTLR7 expression in the brain. Using 454 next-generation sequencing, we then assessed genetic variation within these genes for a wild grey partridge population in the Czech Republic, EU. We identified 11 nucleotide substitutions in PePeTLR4, eight in PePeTLR5 and six in PePeTLR7, resulting in four, four and three amino acid replacements, respectively. Given their locations and chemical features, most of these non-synonymous substitutions probably have a minor functional impact. As the intraspecific genetic variation of the three TLR genes was low, we assume that either negative selection or a bottleneck may have reduced TLR population variability in this species.
authors: Department of Zoology, Faculty of Science, Charles University in Prague, Viničná 7, 128 44, Prague, Czech Republic, EU, michal.vinkler@natur.cuni.cz.
authors: Michal
authors: M
authors: Vinkler
authors: Hana
authors: H
authors: Bainová
authors: Anna
authors: A
authors: Bryjová
authors: Oldřich
authors: O
authors: Tomášek
authors: Tomáš
authors: T
authors: Albrecht
authors: Josef
authors: J
authors: Bryja
mesh_terms: D000818:Animals; D019143:Evolution, Molecular; D046094:Galliformes / Q000145:classification / Q000235:genetics*; D015870:Gene Expression; D014644:Genetic Variation; D008958:Models, Molecular; D009928:Organ Specificity; D010802:Phylogeny; D011487:Protein Conformation; D051197:Toll-Like Receptor 4 / Q000737:chemistry / Q000235:genetics*; D051198:Toll-Like Receptor 5 / Q000737:chemistry / Q000235:genetics*; D051199:Toll-Like Receptor 7 / Q000737:chemistry / Q000235:genetics*
chemical_list: D051197:Toll-Like Receptor 4; D051198:Toll-Like Receptor 5; D051199:Toll-Like Receptor 7
references: Mol Biol Evol. 2011 May;28(5):1703-15
references: 21239391
references: J Immunol. 2008 Sep 15;181(6):4354-62
references: 18768894
references: Poult Sci. 2012 Oct;91(10):2512-6
references: 22991536
references: Immunology. 2005 Apr;114(4):507-21
references: 15804288
references: Mol Phylogenet Evol. 2010 Aug;56(2):536-42
references: 20398778
references: J Biol Chem. 2009 May 29;284(22):15052-60
references: 19321453
references: BMC Evol Biol. 2010 May 06;10:132
references: 20444289
references: BMC Bioinformatics. 2008 Jan 23;9:40
references: 18215316
references: Mol Immunol. 2008 Apr;45(7):2055-61
references: 18036663
references: Avian Dis. 2011 Sep;55(3):480-5
references: 22017051
references: Mol Biol Rep. 2012 Apr;39(4):3419-26
references: 21717059
references: BMC Evol Biol. 2011 May 28;11:149
references: 21619680
references: PLoS Biol. 2010 Sep 07;8(9):null
references: 20838655
references: Hum Mutat. 2012 Jan;33(1):281-9
references: 21898659
references: Nature. 2008 Dec 4;456(7222):658-62
references: 18820679
references: Comp Biochem Physiol A Mol Integr Physiol. 2007 Aug;147(4):1038-46
references: 17462926
references: Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W557-9
references: 15980534
references: Protein Sci. 2009 Aug;18(8):1684-91
references: 19521997
references: Bioinformatics. 2004 Jan 1;20(1):136-7
references: 14693825
references: Vet Immunol Immunopathol. 2003 Jun 20;93(3-4):177-84
references: 12814703
references: Nature. 2010 Apr 1;464(7289):757-62
references: 20360741
references: Avian Pathol. 2000 Dec;29(6):563-9
references: 19184852
references: Genet Sel Evol. 2014 Nov 12;46:72
references: 25387947
references: Science. 2008 Jun 27;320(5884):1763-8
references: 18583609
references: Proc Natl Acad Sci U S A. 2005 Jul 5;102(27):9577-82
references: 15976025
references: Mol Immunol. 2012 Oct;52(3-4):117-24
references: 22673209
references: Nat Methods. 2011 Sep 29;8(10):785-6
references: 21959131
references: Mol Phylogenet Evol. 2010 Aug;56(2):840-7
references: 20363341
references: Nature. 2012 Nov 15;491(7424):444-8
references: 23123857
references: Nucleic Acids Res. 2012 Jan;40(Database issue):D302-5
references: 22053084
references: J Biol Chem. 2001 Dec 14;276(50):47143-9
references: 11590137
references: Dev Comp Immunol. 2013 Nov;41(3):316-23
references: 23628643
references: J Immunol. 2010 Jun 15;184(12):6993-7000
references: 20483729
references: BMC Vet Res. 2011 Jul 08;7:34
references: 21740554
references: PLoS One. 2014 Mar 03;9(3):e89632
references: 24595315
references: Mol Immunol. 2009 Sep;46(15):3163-70
references: 19573927
references: Mol Biol Evol. 2006 Oct;23(10):1891-901
references: 16818476
references: Nat Protoc. 2010 Apr;5(4):725-38
references: 20360767
references: Cell. 2006 Feb 24;124(4):783-801
references: 16497588
references: Trends Immunol. 2003 Oct;24(10):528-33
references: 14552836
references: Int J Mol Sci. 2013 Sep 10;14(9):18615-28
references: 24025421
references: Science. 2012 Feb 17;335(6070):859-64
references: 22344444
references: BMC Genomics. 2008 Feb 01;9:62
references: 18241342
references: Cell Tissue Res. 2011 Jan;343(1):121-30
references: 20809414
references: Br Poult Sci. 2012;53(2):190-7
references: 22646784
references: Dev Comp Immunol. 2010 Oct;34(10):1035-41
references: 20470819
references: Mol Immunol. 2008 Mar;45(5):1298-307
references: 17964652
references: Dev Comp Immunol. 2009 Sep;33(9):967-73
references: 19539094
references: Bioinformatics. 2009 Jun 1;25(11):1451-2
references: 19346325
references: Dev Comp Immunol. 2014 Jul;45(1):151-5
references: 24613703
references: Nature. 2009 Apr 30;458(7242):1191-5
references: 19252480
references: Mol Ecol. 2011 Nov;20(21):4408-20
references: 21981032
references: J Exp Med. 2007 Feb 19;204(2):393-403
references: 17283206
references: Mol Biol Rep. 2012 Aug;39(8):8539-49
references: 22699880
references: Infect Immun. 2003 Mar;71(3):1116-24
references: 12595422
references: Mol Biol Evol. 2009 Apr;26(4):937-49
references: 19179655
references: Res Vet Sci. 2014 Aug;97(1):43-5
references: 24972863
references: J Immunol. 2008 Jul 15;181(2):1245-54
references: 18606678
references: Cell. 2007 Sep 7;130(5):906-17
references: 17803912
references: Proc Natl Acad Sci U S A. 2012 May 8;109(19):7421-6
references: 22532668
references: Vet Immunol Immunopathol. 2005 Mar 10;104(1-2):117-27
references: 15661337
references: J Appl Genet. 2013 Nov;54(4):489-92
references: 23873159
references: PLoS One. 2012;7(9):e45011
references: 23024782
references: Biochem Soc Trans. 2007 Dec;35(Pt 6):1437-44
references: 18031241
references: Bioinformatics. 2008 Feb 15;24(4):586-7
references: 18184684
references: Immunogenetics. 2005 Jan;56(10):743-53
references: 15578175
references: Poult Sci. 2012 Oct;91(10):2496-501
references: 22991533
references: BMC Evol Biol. 2007 Nov 08;7:214
references: 17996036
references: Immunogenetics. 2004 May;56(2):122-33
references: 15107952
references: Science. 2010 Jan 15;327(5963):291-5
references: 20075244
references: Tissue Antigens. 2009 Jul;74(1):32-41
references: 19473320