Burgess, Stewart T.G.Marr, Edward J.Bartley, KathrynNunn, Francesca G.Down, Rachel E.Weaver, Robert J.Prickett, Jessica C.Dunn, JackieRombauts, StephaneVan Leeuwen, ThomasVan de Peer, YvesNisbet, Alasdair J.2020-01-242020-01-242019Burgess, S.T.G., Marr, E.J., Bartley, K. et al. 2019, 'A genomic analysis and transcriptomic atlas of gene expression in Psoroptes ovis reveals feeding- and stage-specific patterns of allergen expression', BMC Genomics, vol. 20, no. 756, pp. 1-23.1471-2164 (online)10.1186/s12864-019-6082-6http://hdl.handle.net/2263/72896Additional file 1: Table S1. Total number of Illumina Solexa Hi-Seq reads and the percentage of reads pseudo-mapped for each sample to the P. ovis transcriptome. Data shown for each of the fifteen RNA samples from P. ovis life-cycle stages and for “fed” (F) and “starved” (S) mites. AF = adult females, AM= adult males, L = larvae, P = protonymph, T = tritonymph.Additional file 2. Gene lists for each life cycle expression cluster.Additional file 3. IDs and annotation for all genes attributed to each of the Venn/Euler diagram shown in Fig. 6.Additional file 4. Gene IDs for all P. ovis genes attributed to each WHO/ IUIS allergen groups.Additional file 5. Annotated lists of differentially expressed genes identified from each of the pairwise life-cycle stage comparisons.BACKGROUND : Psoroptic mange, caused by infestation with the ectoparasitic mite, Psoroptes ovis, is highly contagious, resulting in intense pruritus and represents a major welfare and economic concern for the livestock industry Worldwide. Control relies on injectable endectocides and organophosphate dips, but concerns over residues, environmental contamination, and the development of resistance threaten the sustainability of this approach, highlighting interest in alternative control methods. However, development of vaccines and identification of chemotherapeutic targets is hampered by the lack of P. ovis transcriptomic and genomic resources. RESULTS : Building on the recent publication of the P. ovis draft genome, here we present a genomic analysis and transcriptomic atlas of gene expression in P. ovis revealing feeding- and stage-specific patterns of gene expression, including novel multigene families and allergens. Network-based clustering revealed 14 gene clusters demonstrating either single- or multi-stage specific gene expression patterns, with 3075 female-specific, 890 malespecific and 112, 217 and 526 transcripts showing larval, protonymph and tritonymph specific-expression, respectively. Detailed analysis of P. ovis allergens revealed stage-specific patterns of allergen gene expression, many of which were also enriched in “fed” mites and tritonymphs, highlighting an important feeding-related allergenicity in this developmental stage. Pair-wise analysis of differential expression between life-cycle stages identified patterns of sex-biased gene expression and also identified novel P. ovis multigene families including known allergens and novel genes with high levels of stage-specific expression. CONCLUSIONS : The genomic and transcriptomic atlas described here represents a unique resource for the acaridresearch community, whilst the OrcAE platform makes this freely available, facilitating further community-led curation of the draft P. ovis genome.en© The Author(s). 2019 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License.Psoroptes ovisSheep scabTranscriptomeLife-cycleDevelopmentAllergensArticle