Comparative genomics of Toll-like receptor signalling in five species

Jann, O.; King, Annemarie H.; Corrales, Nestor Lopez; Anderson, Stuart; Jensen, Kirsty; Aït-Ali, Tahar; Tang, Hongming; Wu, Chunhua; Cockett, Noelle E.; Archibald, Alan; Glass, Elizabeth J.

doi:10.1186/1471-2164-10-216

Cited by 39 publications

(43 citation statements)

References 91 publications

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“…The region described by Davies et al (2006) contains interferon regulatory factor (IRF3), a toll-like receptor (TLR)-related gene. As reported by Jann et al (2009), IRF3 is located in QTL regions affecting health traits in five species (human, mouse, pig, cattle and sheep) and, as such, is a plausible candidate gene for our QTL on OAR14.…”

Section: Introductionmentioning

confidence: 60%

“…Two QTL studies have reported an OAR14 FEC QTL, one in Blackface sheep (Davies et al, 2006) and the other in lactating Spanish milk sheep (Gutierrez-Gil et al, 2009), but the QTL positions were different in these two studies and neither study suggested any possible candidate genes underlying the QTL. Recently, however, in a comparative genomics study of TLR signalling in five species, Jann et al (2009) assigned IRF3 using both in silico and radiation hybrid mapping to OAR14, within the region covered by our markers. The study of Jann et al (2009) mapped IRF3 to a region affecting health traits in five species with host QTL controlling a wide range of pathogens, making it a strong candidate gene for our OAR14 QTL.…”

Section: Discussionmentioning

confidence: 99%

“…Recently, however, in a comparative genomics study of TLR signalling in five species, Jann et al (2009) assigned IRF3 using both in silico and radiation hybrid mapping to OAR14, within the region covered by our markers. The study of Jann et al (2009) mapped IRF3 to a region affecting health traits in five species with host QTL controlling a wide range of pathogens, making it a strong candidate gene for our OAR14 QTL.…”

Section: Discussionmentioning

confidence: 99%

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Confirmation of two quantitative trait loci regions for nematode resistance in commercial British terminal sire breeds

Matika

Pong‐Wong

Woolliams

et al. 2011

Animal

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Sheep internal parasites (nematodes) remain a major health challenge and are costly for pasture-based production systems. Most current breeding programmes for nematode resistance are based on indicator traits such as faecal egg counts (FEC), which are costly and laborious to collect. Hence, genetic markers for resistance would be advantageous. However, although some quantitative trait loci (QTL) have been identified, these QTL are often not consistent across breeds and few breeding strategies for nematode resistance in sheep are currently using molecular information. In this study, QTL for nematode resistance on ovine chromosomes (OAR) 3 and 14, previously identified in the Blackface breed, were explored using commercial Suffolk (n 5 336) and Texel lambs (n 5 879) sampled from terminal sire breeder flocks in the United Kingdom. FEC were used as the indicator trait for nematode resistance, and these were counted separately for Nematodirus and Strongyles genera. Microsatellite markers were used to map the QTL and the data were analysed using interval mapping regression techniques and variance component analysis. QTL for Nematodirus and Strongyles FEC were found to be segregating on OAR3 at 5% chromosome region-wide significance threshold in both Suffolk and Texel sheep, and Nematodirus FEC QTL were segregating on OAR14 in both breeds. In addition, QTL for growth traits were also found to be segregating at 5% chromosome region-wide on OAR3 and OAR14. The confirmation that FEC QTL segregate in the same position in three widely used breeds widens their potential applicability to purebred Blackface, Suffolk and Texel sheep, with benefits likely to be observed in their commercial crossbred progeny.

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Section: Introductionmentioning

confidence: 60%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Confirmation of two quantitative trait loci regions for nematode resistance in commercial British terminal sire breeds

Matika

Pong‐Wong

Woolliams

et al. 2011

Animal

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“…In support of this, a study based on TLR2 genes published elsewhere [15], proposed that ruminant species are actively undergoing differential selective pressures. This process is attributed in part to direct selective breeding; resulting in population reduction and reduced effective population size of many ruminants species, which in turn may mirror initial domestication, breed formation or selection for specialized (e.g for meat, milk or fiber) [39].…”

Section: Discussionmentioning

confidence: 92%

Genetic Variation of Goat Interferon Regulatory Factor 3 Gene and Its Implication in Goat Evolution

et al. 2016

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The immune systems are fundamentally vital for evolution and survival of species; as such, selection patterns in innate immune loci are of special interest in molecular evolutionary research. The interferon regulatory factor (IRF) gene family control many different aspects of the innate and adaptive immune responses in vertebrates. Among these, IRF3 is known to take active part in very many biological processes. We assembled and evaluated 1356 base pairs of the IRF3 gene coding region in domesticated goats from Africa (Nigeria, Ethiopia and South Africa) and Asia (Iran and China) and the wild goat (Capra aegagrus). Five segregating sites with θ value of 0.0009 for this gene demonstrated a low diversity across the goats’ populations. Fu and Li tests were significantly positive but Tajima’s D test was significantly negative, suggesting its deviation from neutrality. Neighbor joining tree of IRF3 gene in domesticated goats, wild goat and sheep showed that all domesticated goats have a closer relationship than with the wild goat and sheep. Maximum likelihood tree of the gene showed that different domesticated goats share a common ancestor and suggest single origin. Four unique haplotypes were observed across all the sequences, of which, one was particularly common to African goats (MOCH-K14-0425, Poitou and WAD). In assessing the evolution mode of the gene, we found that the codon model dN/dS ratio for all goats was greater than one. Phylogenetic Analysis by Maximum Likelihood (PAML) gave a ω0 (dN/dS) value of 0.067 with LnL value of -6900.3 for the first Model (M1) while ω2 = 1.667 in model M2 with LnL value of -6900.3 with positive selection inferred in 3 codon sites. Mechanistic empirical combination (MEC) model for evaluating adaptive selection pressure on particular codons also confirmed adaptive selection pressure in three codons (207, 358 and 408) in IRF3 gene. Positive diversifying selection inferred with recent evolutionary changes in domesticated goat IRF3 led us to conclude that the gene evolution may have been influenced by domestication processes in goats.

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“…Work by Norimatsu et al (2004), showing low RNS production from Salmonella typhimurium stimulated HF MØ compared to data published by Werling et al (2004) demonstrating high RNS production from BS MØ with the same bacterium highlights that difference in disease resistance may be conferred by the micro-bicidal capabilities of diverse breeds. Furthermore, work by Jann et al, 2008, Jann et al, 2009 suggests that polymorphisms in TLR genes may be involved in disease resistance or susceptibility traits in domestic animals (Jann et al, 2009, Jann et al, 2008). Despite estimations in heritability of production traits varying (Rupp and Boichard, 2003), Lund et al (1994) have shown the estimated heritability of SCC to be moderately high (Lund et al, 1994).…”

Section: Introductionmentioning

confidence: 99%

Differential macrophage function in Brown Swiss and Holstein Friesian cattle

Gibson

Woodman

Pennelegion

et al. 2016

Veterinary Immunology and Immunopathology

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There is strong evidence that high yielding dairy cows are extremely susceptible to infectious diseases, and that this has severe economic consequences for the dairy industry and welfare implications. Here we present preliminary functional evidence showing that the innate immune response differs between cow breeds. The ability of macrophages (MØ) to kill pathogens depends in part on oxygen-dependent and independent mechanisms. The oxygen-dependent mechanisms rely on the generation of reactive oxygen and nitrogen species (ROS/RNS, respectively). ROS production has been shown to activate the inflammasome complex in MØ leading to increased production of the pro-inflammatory cytokine Interleukin-1β (IL-1β). Conversely RNS inhibits inflammasome mediated IL-1β activation, indicating a division between inflammasome activation and RNS production. In the present study MØ from Brown Swiss (BS) cattle produce significantly more RNS and less IL-1β when compared to cells from Holstein Friesian (HF) cattle in response to bacterial or fungal stimuli. Furthermore, BS MØ killed ingested Salmonella typhimurium more efficiently, supporting anecdotal evidence of increased disease resistance of the breed. Inhibition of autophagy by 3-methyladenine (3-MA) stimulated IL-1β secretion in cells from both breeds, but was more pronounced in HF MØ. Blocking RNS production by l-arginase completely abolished RNS production but increased IL-1β secretion in BS MØ. Collectively these preliminary data suggest that the dichotomy of inflammasome activation and RNS production exists in cattle and differs between these two breeds. As pattern recognition receptors and signaling pathways are involved in the assessed functional differences presented herein, our data potentially aid the identification of in vitro predictors of appropriate innate immune response. Finally, these predictors may assist in the discovery of candidate genes conferring increased disease resistance for future use in combination with known production traits.

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Comparative genomics of Toll-like receptor signalling in five species

Cited by 39 publications

References 91 publications

Confirmation of two quantitative trait loci regions for nematode resistance in commercial British terminal sire breeds

Confirmation of two quantitative trait loci regions for nematode resistance in commercial British terminal sire breeds

Genetic Variation of Goat Interferon Regulatory Factor 3 Gene and Its Implication in Goat Evolution

Differential macrophage function in Brown Swiss and Holstein Friesian cattle

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