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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]
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BMC Genomics

ISSN: 1471-2164

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