1 Xu S, "Widespread positive selection on cetacean TLR extracellular domain" 106 : 135-142, 2019
2 Thewissen JG, "Whales originated from aquatic artiodactyls in the Eocene epoch of India" 450 : 1190-, 2007
3 Crooks GE, "WebLogo : a sequence logo generator" 14 : 1188-1190, 2004
4 Rohwer F, "Viruses manipulate the marine environment" 459 : 207-, 2009
5 Consortium U, "UniProt: a hub for protein information" 43 : D204-D212, 2014
6 Zitvogel L, "Type I interferons in anticancer immunity" 15 : 405-, 2015
7 Woolley S, "TreeSAAP : selection on amino acid properties using phylogenetic trees" 19 : 671-672, 2003
8 Leulier F, "Toll-like receptors—taking an evolutionary approach" 9 : 165-, 2008
9 Takeda K, "Toll-like receptors" 21 : 335-376, 2003
10 Akira S, "Toll-like receptor signalling" 4 : 499-, 2004
11 Velová H, "Toll-like receptor evolution in birds : gene duplication, pseudogenisation and diversifying selection" 35 : 2170-2184, 2018
12 Iwasaki A, "Toll-like receptor control of the adaptive immune responses" 5 : 987-, 2004
13 Mogensen KE, "The type I interferon receptor : structure, function, and evolution of a family business" 19 : 1069-1098, 1999
14 Linsley PS, "The role of the CD28 receptor during T cell responses to antigen" 11 : 191-212, 1993
15 O’Neill LA, "The family of five : TIR-domain-containing adaptors in Toll-like receptor signalling" 7 : 353-, 2007
16 Roach JC, "The evolution of vertebrate Toll-like receptors" 102 : 9577-9582, 2005
17 Jiménez-Dalmaroni MJ, "The critical role of toll-like receptors—from microbial recognition to autoimmunity : a comprehensive review" 15 : 1-8, 2016
18 Yang Z, "Synonymous and nonsynonymous rate variation in nuclear genes of mammals" 46 : 409-418, 1998
19 Gay NJ, "Structure and function of Toll receptors and their ligands" 76 : 141-165, 2007
20 Sauter KS, "Stable transduction of bovine TLR4 and bovine MD-2 into LPS-nonresponsive cells and soluble CD14 promote the ability to respond to LPS" 118 : 92-104, 2007
21 Areal H, "Signatures of positive selection in Toll-like receptor(TLR)genes in mammals" 11 : 368-, 2011
22 Mukherjee S, "Signatures of natural selection are not uniform across genes of innate immune system, but purifying selection is the dominant signature" 106 : 7073-7078, 2009
23 Xu S, "Sequence variability at three MHC loci of finless porpoises(Neophocaena phocaenoides)" 59 : 581-592, 2007
24 Xu S, "Sequence polymorphism and geographical variation at a positively selected MHCDRB gene in the finless porpoise (Neophocaena phocaenoides):implication for recent differentiation of the Yangtze Finless porpoise?" 71 : 6-22, 2010
25 Gouy M, "SeaView version 4 : a multiplatform graphical user interface for sequence alignment and phylogenetic tree building" 27 : 221-224, 2009
26 Nijland R, "Recognition of LPS by TLR4 : potential for anti-inflammatory therapies" 12 : 4260-4273, 2014
27 McCallum H, "Rates of spread of marine pathogens" 6 : 1062-1067, 2003
28 Picard C, "Pyogenic bacterial infections in humans with IRAK-4 deficiency" 299 : 2076-2079, 2003
29 Zhou X, "Population genomics of finless porpoises reveal an incipient cetacean species adapted to freshwater" 9 : 1276-, 2018
30 Swanson WJ, "Pervasive adaptive evolution in mammalian fertilization proteins" 20 : 18-20, 2003
31 Yang Z, "PAML 4 : phylogenetic analysis by maximum likelihood" 24 : 1586-1591, 2007
32 Ruan R, "Organization and characteristics of the major histocompatibility complex class II region in the Yangtze finless porpoise(Neophocaena asiaeorientalis asiaeorientalis)" 6 : 22471-, 2016
33 Kosakovsky Pond SL, "Not so different after all : a comparison of methods for detecting amino acid sites under selection" 22 : 1208-1222, 2005
34 Nakajima T, "Natural selection in the TLR-related genes in the course of primate evolution" 60 : 727-735, 2008
35 Ohnishi T, "N-linked glycosylations at Asn(26)and Asn(114)of human MD-2 are required for toll-like receptor 4-mediated activation of NF-kappaB by lipopolysaccharide" 167 : 3354-3359, 2001
36 Alcaide M, "Molecular evolution of the toll-like receptor multigene family in birds" 28 : 1703-1715, 2011
37 Yang Z, "Maximum likelihood estimation on large phylogenies and analysis of adaptive evolution in human influenza virus A" 51 : 423-432, 2000
38 Fuhrman JA, "Marine viruses and their biogeochemical and ecological effects" 399 : 541-, 1999
39 Edgar RC, "MUSCLE : multiple sequence alignment with high accuracy and high throughput" 32 : 1792-1797, 2004
40 Shimazu R, "MD-2, a molecule that confers lipopolysaccharide responsiveness on Toll-like receptor 4" 189 : 1777-1782, 1999
41 Bell JK, "Leucine-rich repeats and pathogen recognition in Toll-like receptors" 24 : 528-533, 2003
42 Kanehisa M, "KEGG : Kyoto encyclopaedia of genes and genomes" 28 : 27-30, 2000
43 Manna SK, "Interleukin-8 induces nuclear transcription factor-kappaB through a TRAF6-dependent pathway" 280 : 7010-7021, 2005
44 Beineke A, "Immunology of whales and dolphins" 133 : 81-94, 2010
45 Pond SLK, "HyPhy : hypothesis testing using phylogenies" 21 : 676-679, 2004
46 Grabiec A, "Human but not murine toll-like receptor 2 discriminates between tri-palmitoylated and tri-lauroylated peptides" 279 : 48004-48012, 2004
47 Pei C, "Herpeslike Virus Infection in Yangtze Finless Porpoise(Neophocaena phocaenoides) : pathology, ultrastructure and molecular analysis" 48 : 235-237, 2012
48 Anwar MA, "Gram-negative marine bacteria : structural features of lipopolysaccharides and their relevance for economically important diseases" 12 : 2485-2514, 2014
49 Zhang Z, "Genomic organization and phylogeny of MHC class II loci in cetaceans" 110 : 332-339, 2019
50 Yuan Y, "Genome sequence of the freshwater Yangtze Finless Porpoise" 9 : 213-, 2018
51 Keestra AM, "Functional characterization of chicken TLR5 reveals species-specific recognition of flagellin" 45 : 1298-1307, 2008
52 Han M, "Evolutionary rate patterns of genes involved in the Drosophila Toll and Imd signaling pathway" 13 : 245-, 2013
53 Darfour-Oduro KA, "Evolutionary patterns of Toll-like receptor signaling pathway genes in the Suidae" 16 : 33-, 2016
54 Zhou H, "Evolutionary analysis for functional divergence of the toll-like receptor gene family and altered functional constraints" 65 : 119-123, 2007
55 Ishengoma E, "Evolution of toll-like receptors in the context of terrestrial ungulates and cetaceans diversification" 17 : 54-, 2017
56 Temperley ND, "Evolution of the chicken Toll-like receptor gene family : a story of gene gain and gene loss" 9 : 68-76, 2007
57 Fitzgerald KA, "Endotoxin recognition and signal transduction by the TLR4/MD2-complex" 6 : 1361-1367, 2004
58 El-Obeid A, "Effect of herbal melanin on IL-8 : a possible role of Toll-like receptor 4(TLR4)" 344 : 1200-1206, 2006
59 Tian R, "Divergent selection of pattern recognition receptors in mammals with different ecological characteristics" 86 : 138-149, 2018
60 Murrell B, "Detecting individual sites subject to episodic diversifying selection" 8 : e1002764-, 2012
61 Gui D, "De novo assembly of the Indo-Pacific humpback dolphin leucocyte transcriptome to identify putative genes involved in the aquatic adaptation and immune response" 8 : e72417-, 2013
62 Coordinators NR, "Database resources of the national center for biotechnology information" 45 : D12-, 2017
63 Benjamini Y, "Controlling the false discovery rate : a practical and powerful approach to multiple testing" 57 : 289-300, 1995
64 Peach RJ, "Both extracellular immunoglobin-like domains of CD80 contain residues critical for binding T cell surface receptors CTLA-4 and CD28" 270 : 21181-21187, 1995
65 Yang Z, "Bayes empirical Bayes inference of amino acid sites under positive selection" 22 : 1107-1118, 2005
66 Camacho C, "BLAST + : architecture and applications" 10 : 421-, 2009
67 Mclaughlin RW, "Analysis of the bacterial diversity in the fecal material of the endangered Yangtze finless porpoise, Neophocaena phocaenoides asiaeorientalis" 39 : 5669-5676, 2012
68 Shen T, "Adaptive evolution and functional constraint at TLR4 during the secondary aquatic adaptation and diversification of cetaceans" 12 : 39-, 2012
69 Wlasiuk G, "Adaptation and constraint at Tolllike receptors in primates" 27 : 2172-2186, 2010
70 Gatesy J, "A phylogenetic blueprint for a modern whale" 66 : 479-506, 2013
71 Liu J, "A fiveamino-acid motif in the undefined region of the TLR8 ectodomain is required for species-specific ligand recognition" 47 : 1083-1090, 2010
72 Kim TW, "A critical role for IRAK4kinase activity in Toll-like receptor-mediated innate immunity" 204 : 1025-1036, 2007