Immunogenomics of gastrointestinal nematode infection in ruminants – breeding for resistance to produce food sustainably and safely

Sweeney, T.; Hanrahan, J. P.; Ryan, M. F.; Good, Barbara

doi:10.1111/pim.12347

Cited by 39 publications

(27 citation statements)

References 161 publications

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“…The MARK1 gene, on OAR12, encodes a kinase involved in the regulation of cell shape and polarity during differentiation, chromosome partitioning at mitosis via the phosphorylation of microtubule-associated proteins (Drewes et al, 1997). Finally, the SPATA5 gene, on OAR17, encodes an ATPase enzyme involved in cellular development processes and the maintenance of mitochondrial integrity and function (Tanaka et al, 2015).…”

Section: Candidate Genes Located Close To Associated Markersmentioning

confidence: 99%

Identification of genomic regions and candidate genes of functional importance for gastrointestinal parasite resistance traits in Djallonké sheep of Burkina Faso

et al. 2019

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A total of 184 Djallonké lambs from Burkina Faso with phenotypes for packed-cell volume (PCV), log-transformed fecal egg count (lnFEC), and FAffa MAlan CHArt (FAMACHA©) eye scores were typed with the OvineSNP50 BeadChip of Illumina to contribute to the knowledge of the genetic basis of gastrointestinal (GIN) parasite resistance in sheep. Association analysis identified a total of 22 single-nucleotide polymorphisms (SNPs) related with PCV (6 SNPs), lnFEC (7), and FAMACHA scores (9) distributed among 14 Ovis aries chromosomes (OAR). The identified SNPs accounted for 18.76 % of the phenotypic variance for PCV, 21.24 % for lnFEC, and 34.38 % for FAMACHA scores. Analyses pointed out the importance of OAR2 for PCV, OAR3 for FAMACHA scores, and OAR6 for lnFEC. The 125 kb regions surrounding the identified SNPs overlapped with seven previously reported quantitative trait loci (QTLs) for the traits analyzed in the current work. The only chromosome harboring markers associated with the three traits studied was OAR2. In agreement with the literature, two different chromosomal areas on OAR2 can play a major role in the traits studied. Gene-annotation enrichment analysis allowed us to identify a total of 34 potential candidate genes for PCV (6 genes), lnFEC (4), and FAMACHA scores (24). Annotation analysis allowed us to identify one functional term cluster with a significant enrichment score (1.302). The cluster included five genes (TRIB3, CDK4, CSNK2A1, MARK1, and SPATA5) involved in immunity-related and cell-proliferation processes. Furthermore, this research suggests that the MBL2 gene can underlie a previously reported QTL for immunoglobulin A levels on OAR22 and confirms the importance of genes involved in growth and size (such as the ADAMTS17 gene on OAR18) for GIN resistance traits. Since association studies for the ascertainment of the genetic basis of GIN resistance may be affected by genotype–environment interactions, obtaining information from local sheep populations managed in harsh environments contributes to the identification of novel genomic areas of functional importance for GIN resistance for that trait.

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Section: Candidate Genes Located Close To Associated Markersmentioning

confidence: 99%

Identification of genomic regions and candidate genes of functional importance for gastrointestinal parasite resistance traits in Djallonké sheep of Burkina Faso

et al. 2019

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“…No significant associations were found between any of the SNPs and the traits considered in either of the populations. This is most likely due primarily to the small sample size and the polygenic nature of the traits ( Sweeney et al, 2016 ).…”

Section: Discussionmentioning

confidence: 99%

A candidate gene approach to study nematode resistance traits in naturally infected sheep

Wilkie

Riggio

Matika

et al. 2017

Veterinary Parasitology

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“…contortus or other GNI. The candidate gene panel was selected for targeted sequencing based on results from previous studies in sheep (55,(72)(73)(74)(75)(76) and goats (77). In addition, genes related to the immune response against H. contortus and other GNI were considered as candidates for targeted sequencing (Supplementary Table 5).…”

Section: Genotyping and Data Quality Controlmentioning

confidence: 99%

Signatures of selection for resistance to Haemonchus contortus in sheep and goats

Estrada-Reyes

Tsukahara

Amadeu

et al. 2019

Preprint

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Background: Gastrointestinal nematode infection (GNI) is the most important disease affecting the small ruminant industry in U.S. The environmental conditions in the southern United States are ideal for the survival of the most pathogenic gastrointestinal nematode, Haemonchus contortus . Host genetic variation for resistance to H. contortus allows selective breeding for increased resistance of animals. This selection process increases the prevalence of particular alleles in sheep and goats and creates unique genetic patterns in the genome of these species. The aim of this study was to identify loci with divergent allelic frequencies in a candidate gene panel of 100 genes using two different approaches (frequentist and Bayesian) to estimate F st outliers in three different breeds of sheep and goats exposed to H. contortus . Results: Our results for sheep populations showed SNPs under selection in C3AR1 , CSF3 , SOCS2 , NOS2 , STAT5B , TGFB2 and IL2RA genes using frequentist and Bayesian approaches. For goats, SNPs in CD1D , ITGA9 , IL12A , IL13RA1, CD86 and TGFB2 genes were under selection. Common signatures of selection in both species were observed in NOS2 , TGFB2 and TLR4 genes. Directional selection was present in all SNPs evaluated in the present study. Conclusions: A total of 13 SNPs within 10 genes of our candidate gene panel related to H. contortus exposure were identified under selection in sheep populations. For goats, 11 SNPs within 7 genes were identified under selection. Results from this study support the hypothesis that resistance to H. contortus is likely to be controlled by many loci. Shared signatures of selection related to mechanisms of immune protection against H. contortus infection in sheep and goats could be useful targets in breeding programs aimed to produce resistant animals with low FEC.

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Immunogenomics of gastrointestinal nematode infection in ruminants – breeding for resistance to produce food sustainably and safely

Cited by 39 publications

References 161 publications

Identification of genomic regions and candidate genes of functional importance for gastrointestinal parasite resistance traits in Djallonké sheep of Burkina Faso

Identification of genomic regions and candidate genes of functional importance for gastrointestinal parasite resistance traits in Djallonké sheep of Burkina Faso

A candidate gene approach to study nematode resistance traits in naturally infected sheep

Signatures of selection for resistance to Haemonchus contortus in sheep and goats

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