0000000000949306
AUTHOR
I. Moneo
Additional file 2: of Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns
List of species and specimen used in the phylogenetic tree of Additional file 1. Code of the voucher specimen and accession number for mitochondrial gene COII (*: sequences obtained from GenBank). Labeled are the specimens selected for RNA sequencing (first number, population; second number specimen). A. simplex s.s. – A. pegreffii refers to hybrids haplotype according Abollo et al. [23]. (DOCX 47 kb)
Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns
[Background]: Anisakis simplex sensu stricto and Anisakis pegreffii are sibling species of nematodes parasitic on marine mammals. Zoonotic human infection with third stage infective larvae causes anisakiasis, a debilitating and potentially fatal disease. These 2 species show evidence of hybridisation in geographical areas where they are sympatric. How the species and their hybrids differ is still poorly understood. [Results]: Third stage larvae of Anisakis simplex s.s., Anisakis pegreffii and hybrids were sampled from Merluccius merluccius (Teleosti) hosts captured in waters of the FAO 27 geographical area. Specimens of each species and hybrids were distinguished with a diagnostic genetic m…
Additional file 4: of Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns
Differentially enriched metabolic pathways and GOs. Annotation of metabolic pathways and and GOs integrating results of differential enrichment using GOseq. (XLSX 232 kb)
Additional file 1: of Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns
Phylogenetic relationships of the considered populations as an individual’s selection basis for RNA sequencing of A. simplex s.s., A. pegreffii and their hybrid haplotype. Tree was obtained based on maximum likelihood (ML) and Bayesian inference analysis using mitochondrial COII gene and the GTR + I + G evolutionary model. Numbers at nodes correspond to ML bootstrap proportions (BP) (above number) and Bayesian posterior probabilities (BPP) (under number). (PNG 621 kb)
Additional file 6: of Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns
Anisakis allergome. 1) Count file and results of differential expression for the 74 allergen families detected in A. simplex s.s., A. pegreffi and hybrids. 2) Blast results obtained in the search performed using 509 known allergens as queries against the reference Anisakis transcriptome. Nine hundred and thirty seven consensus sequences of the reference transcriptome were detected to significantly match to the queries and were classified into 74 allergen families of which we include additional information. This summarization is also available in AnisakisDB as a dynamic table from where sequences and annotations can be easily navigated and retrieved. (XLS 351 kb)
Additional file 5: of Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns
Differential expression of ES transcripts. 1) Count file used as input in the differential expression test performed at the ES gene level; 2) Summarization of the 356 ES genes accompanied by logFC values and their FDR support obtained from the 3 performed differential expression analyses and additional information relative to consensus sequences grouped to each gene description, as well as associated GOs terms and identification of SignalP domain. This summarization is also available in AnisakisDB as a dynamic table from where sequences and annotations can be navigated and retrieved. (XLSX 91 kb)
Additional file 3: of Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns
Differential expression analyses at the whole transcriptome level. Results obtained from the analyses of differential expression; 1) Hybrids vs A. pegreffi; 2) Hybrids vs A. simplex s.s.; 3) A. pegreffii vs A. simplex s.s. Rows summarizing significant differentially expressed transcripts supported by FDR