Skip to main content

Table 4 Potential QTL related candidate genes with functional relevance, differential expression in divergent phenotypes, and localization within QTL regions

From: Comparative genomics of Toll-like receptor signalling in five species

Gene Human Mouse Cattle Relevant function Mouse Mouse Sheep Cattle
  Chr: Mb Chr: Mb Chr: Mb   Y.e. T.c. H.c. T.a.
GPI 19: 39.5 7: 35.0 18: 44.5 humoral immune response   n.a. n.a. n.a.
HAMP 19: 40.5 7: 31.7 18: 45.4 antimicrobial activity of HAMP derived peptides    n.a. n.a.
CD22 19: 40.5 7: 31.7 18: 45.5 inhibition of B cell receptor signalling   2.24*e n.a. n.a.
TYROBP 19: 41.1 7: 31.2 18: 46.0 activation of NK cells   2.11**e n.a.  
FUT1 19: 53.9 7: 52.9 18: 55.2 creation of an adhesion site    n.a. n.a.
FCGRT 19: 54.7 7: 52.3 18: 55.9 IgG fragment receptor 0.73**b   n.a. n.a.
IRF3 19: 54.9 7: 52.3 18: 56.0 activation of IFN-β   1.22*d   n.a.
PRMT1 19: 54.9 7: 52.2 18: 56.0 inhibition of viral helicase    n.a. n.a.
CCR4 3: 33.0 9: 114.4 22: 7.3 chemokine receptor i.s.   n.a. n.a.
MYD88 3: 38.2 9: 119.2 22: 11.7 mediation of signal after TLR-ligand binding   1.39*d   
CX3CR1 3: 39.3 9: 120.0 22: 12.8 chemokine receptor 0.54**a 2.09*c n.a.  
CCR8 3: 39.3 9: 120.0 22: 12.8 chemokine receptor i.s.   n.a. n.a.
VIPR1 3: 42.5 9: 121.6 22: 15.0 binding of anti-inflammatory peptide i.s   n.a. n.a.
CCBP2 3: 42.8 9: 121.8 22: 15.3 chemokine receptor i.s. 1.53*e n.a. n.a.
TLR10 4: 38.5 n.o. 6: 60.3 binding of unknown ligand n.o. n.o. 2.40* 1.71*
TLR1 4: 38.5 5: 65.3 6: 60.4 binding of ligands derived from gram-positive bacteria   1.37*c   
TLR6 4: 38.5 5: 65.3 6: 60.4 binding of ligands derived from gram-positive bacteria   0.61*d   
RFC1 4: 39.0 5: 65.7 6: 60.8 replication factor C (activator 1) 1, defence response   0.50*b n.a.
  1. human/mouse/cattle: Positions in Mb, only significant values shown, empty cells have been analysed and no significant difference have been found. *: p < 0.05, **: p < 0.01, i.s: signal was evaluated as too faint to call, n.o: no mouse ortholog for TLR10, n.a: not analysed in this study
  2. Gene names: GPI: glucose phosphate isomerase, HAMP: hepcidin antimicrobial peptide, CD22: CD22 molecule, TYROBP: TYRO protein tyrosine kinase binding protein, FUT1: fucosyltransferase 1, FCGRT: IgG Fc fragment receptor transporter alpha chain, IRF3: interferon regulatory factor 3, PRMT1: protein arginine methyltransferase 1, CCR4: chemokine (C-C motif) receptor 4, MYD88: myeloid differentiation primary response gene (88), CX3CR1: chemokine (C-X3-C motif) receptor 1, CCR8: chemokine (C-C motif) receptor 8, VIPR1: vasoactive intestinal peptide receptor 1, CCBP2: chemokine binding protein 2, TLR10: toll-like receptor 10, TLR1: toll-like receptor 1, TLR6: toll-like receptor 6, RFC1: replication factor C (activator 1) 1
  3. Ratios of transcript levels: a: ratio of mean transcript levels of resistant C57BL/6 to susceptible BALB/c mice 3 hours post infection and stimulation with IFN-γ, b: ratio of mean transcript levels of resistant C57BL/6 to susceptible BALB/c mice 3 hours post infection without stimulation with IFN-γ, c: ratio of mean transcript levels of resistant C57BL/6 to susceptible BALB/c mice on day 3 post infection, d: ratio of mean transcript levels of resistant C57BL/6 to susceptible A/J mice on day 9 post infection, e: ratio of mean transcript levels of resistant C57BL/6 to susceptible A/J mice in uninfected animals
  4. Pathogens and references: Y.e: Yersinia enterocolitica [86], T.c: Trypanosoma congolense [85], H.c: Haemonchus contortus [19], T.a: Theileria annulata: transcript level in Holstein/Sahiwal 72 h post infection [20]