Supplementary Material for: The Draft Genome Assembly of Dermatophagoides pteronyssinus Supports Identification of Novel Allergen Isoforms in Dermatophagoides Species
Randall T.A.
Mullikin J.C.
Mueller G.A.
10.6084/m9.figshare.5773341.v1
https://karger.figshare.com/articles/dataset/Supplementary_Material_for_The_Draft_Genome_Assembly_of_Dermatophagoides_pteronyssinus_Supports_Identification_of_Novel_Allergen_Isoforms_in_Dermatophagoides_Species/5773341
<p><b><i>Background:</i></b><i>Dermatophagoides pteronyssinus</i> (DP) and <i>Dermatophagoides farinae</i>
(DF) are highly similar disease-associated mites with frequently
overlapping geographic distributions. A draft genome of DP was assembled
to identify the candidate allergens in DP that are homologous to those
in DF, investigate allergen isoforms, and facilitate comparisons with
related Acari. <b><i>Methods:</i></b> PacBio and Illumina whole-genome
sequencing was performed on DP. Assembly and reconstruction of the
genomes were optimized for isoform identification in a heterogeneous
population. Bioinformatic analyses of Acari genomes were performed. <b><i>Results:</i></b>
The predicted size of the DP nuclear genome is 52.5 Mb. A predicted set
of 19,368 proteins was identified, including all 19 currently
recognized allergens from this species. Orthologs for 12 allergens
established for DF were found. The population of DP mites showed a high
level of heterozygosity that allowed the identification of 43 new
isoforms for both established and candidate allergens in DP including a
new isoform for the major allergen Der p 23. Reanalyzing the previous DF
data assuming heterozygosity, 14 new allergen isoforms could be
identified. Some new isoforms were observed in both species, suggesting
that these isoforms predated speciation. The high quality of both
genomes allowed an examination of synteny which showed that many
allergen orthologs are physically clustered but with species-specific
exon/intron structures. Comparative genomic analyses of other
Acariformes mites showed that most of the allergen homologs are widely
conserved within this Superorder. <b><i>Conclusions:</i></b> Candidate
allergens in DP were identified to facilitate future serological
studies. While DP and DF are highly similar genetically,
species-specific allergen isoforms exist to facilitate molecular
differentiation.</p>
2018-01-10 13:42:26
House dust mite
Genome
Dermatophagoides pteronyssinus
Dermatophagoides farinae
Allergens