Open Access Research article

The transcriptome of the invasive eel swimbladder nematode parasite Anguillicola crassus

Emanuel Heitlinger124*, Stephen Bridgett3, Anna Montazam3, Horst Taraschewski1 and Mark Blaxter23

Author Affiliations

1 Department of Ecology and Parasitology, Zoological Institute, Karlsruhe Institute of Technology, Kornblumenstrasse 13, Karlsruhe, Germany

2 Institute of Evolutionary Biology, The Ashworth Laboratories, The University of Edinburgh, The King’s Buildings, Edinburgh EH9 3JT, UK

3 The GenePool Genomics Facility, The Ashworth Laboratories, The University of Edinburgh, The King’s Buildings, Edinburgh EH9 3JT, UK

4 Department for Molecular Parasitology, Institute for Biology, Humboldt University Berlin, Philippstrasse 13, Haus 14, Berlin, Germany

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BMC Genomics 2013, 14:87  doi:10.1186/1471-2164-14-87

Published: 8 February 2013

Additional files

Additional file 1:

Additional text. Supporting_information.pdf. This document contains the 3 additional figures referenced in the main text and an additional text describing the assembly process and evaluation of assembly quality in further detail. This text contains additional 7 figures (additional figures 4-10) and 3 tables.

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Open Data

Additional file 2:

Additional data. A.crassus_transcriptome_contig_data.csv. All data computed on the contig level, as described in the manuscript and additional text including sequences (raw, coding, imputed, protein).

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Open Data

Additional file 3:

A.crassus_transcriptome_screened_SNPs.csv. High quality SNPs. The contig, the base relative to the start of the contig (base), the reference base-call (from), the alternative base-call (to), the number of reads supporting the reference (nfrom) and the alternative (nto), the percentage of the alternate allele (perc), whether the SNP is in the region of an ORF (inORF), the position in the Frame (inFrame) and the effect of the SNP (effect; synonymous, non-synonymous or nonsense) are given.

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Open Data

Additional file 4:

Additional figure 11 (a-i). Subgraphs of GO induced by the top 10 terms identified as enriched in different sets of genes. Subgraphs of the GO ontology categories induced by the top 10 terms identified as enriched in different sets of genes. Boxes indicate the 10 most significant terms. Box colour represents the relative significance, ranging from dark red (most significant) to light yellow (least significant). In each node the category-identifier, a (eventually truncated) description of the term, the significance for enrichment and the number of DE / total number of annotated gene is given. Black arrows indicate an “is-a” relationship. GO ontology category and the set of genes analysed for the enrichment are indicated in each figure.

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Open Data

Additional file 5:

A.crassus_transcriptome_sexDE.csv. Contigs differentially expressed between male and female worms. Normalised counts and the natural logarithm of fold changes are given.

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Open Data

Additional file 6:

A.crassus_transcriptome_originDE.csv. Contigs differentially expressed between European and Taiwanese worms. Normalised counts and the natural logarithm of fold changes are given.

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Open Data