454 Sequencing of Litomosoides sigmodontis transcriptome from 3 lifestages

cDNA from three life-stages of the filarial nematode Litomosoides sigmodontis were obtained and sequenced using 454 FLX and Titanium chemistries. These reads are being used to generate a protein set that will be used for annotating the litomsoides sigmodontis genome, and to act as a reference transcriptome for further transcriptome studies using short read RNA-seq.

76,340 contigs in 1 assemblies

 454 sequencing of the cyathostomin Cyclicostephanus goldi; a horse nematode pathogen

A normalized transcriptome dataset was generated following 454 sequencing (GS-Assembler) of a cDNA library constructed from pooled RNA from 17 adult mixed sex Cys. goldi worms; one of the 10 common species that predominates in horses.

26,910 contigs in 1 assemblies

 Transcriptome of the nematode Anguilicolla crassus

Transcriptom of the nematode Anguilicolla crassus

63,880 contigs in 2 assemblies

 Chondrichtyes Transcriptome Resource

This resource consists of assembled and annotated short-read datasets from seven species of Chondrichthyes covering the Holocephali, Galeomorphi, Squalimorphi and Batoidea lineages. Datasets consist of either transcribed sequences from adult spleen sequenced on the 454 platform or mid-development embryonic transcripts sequenced on the Illumina platform. Where both datasets are available, they have been combined.

1,547,252 contigs in 9 assemblies

 Bicyclus anynana transcriptomes

A central resource for transcriptome data

20,003 contigs in 1 assemblies

 Transcriptome sequencing of M. digitatus

Study description

12,562 contigs in 2 assemblies

 The embryonic transcriptomes of Lymnaea stagnalis

These data were generated as part of an ongoing programme of work coordinated by Angus Davison of Nottingham University. The overall aim of the program is to understand genetically, developmentally and mechanistically the source of chirality in molluscan embryogenesis. We are using the pond snail Lymnaea stagnalis as our key study organism, as this species exists in two "enantiomers": strains that have leftward coiling and strains that have rightward coiling shells (and similarly reversed internal anatomies and early development). Here we present transcriptomic data, generated by Maureen Liu (snail embryo dissections), the GenePool genomics facility (sequencing; Anna Montazam) and John Davey (bioinformatic analyses, along with Maureen and Angus). The work was funded by the BBSRC.

41,418 contigs in 4 assemblies

 Crustacean intersexuality is feminisation without de-masculinisation: implications for environmental toxicology

This is a transcriptomic library of the intertidal amphipod Echinogammarus marinus. These data were produced as part of a NERC funded study to investigate the molecular basis of crustacean intersexuality. This abnormal sexual development occurs when feminising parasites (that transmit to the next generation via the eggs of their host) fail in their attempt to turn males into females. The prevalence of such parasites increases at contaminated sites, leading to more cases of male conversion and intersexuality. In addition, forms of non parasite-induced amphipod intersexuality have also been found at environmentally impacted sites. The amphipod Echinogammarus marinus presents both forms of intersexuality and is an ideal model for the study of crustacean sexual development. This transcriptomic library was made to create a set of reference sequences upon which gonadal transcriptome profiles of normal and intersex animals could be mapped. This library was produced using RNA extracted from muscle, head, hepatopancreas and gonadal tissues dissected from parasitised, unparasitised, male, female, and juveniles (n=14 adults and 10 juveniles at various stages of development). A double stranded cDNA was made using 1.5 μg of total RNA and this cDNA was normalised (Trimmer normalisation kit, Evrogen) and sequenced using 1.5 plates of the 454 GS FLX Titanium platform (Centre for Genomic Research, University of Liverpool). The expressed sequence tags were assembled using Newbler (v2.6) and Mira ( software and combined with the CAP3 assembly program to create a set of contiguous sequences. It is hoped that these data will help produce molecular biomarkers and facilitate the use of crustaceans to monitor aquatic habitats.

46,248 contigs in 1 assemblies

 De novo transcriptome assembly of the grain-eating pest, Plodia interpunctella and its natural viral pathogen Plodia interpunctella granulosis virus

The host species used in our experiment was Plodia interpunctella, the Indian Meal Moth. All individuals were taken from a large stock that has been maintained at the University of Sheffield for approximately 8 years. These transcriptomes were built from RNA-seq reads that originated from two experiments. The first compared larvae that had been exposed to virus with those that we exposed to a control solution (N=6 samples). The second compared larvae that had received two doses of virus compared to a single dose. In all cases, fourth instar larvae were harvested, and each sample consisted of 20 pooled individuals.

116,218 contigs in 2 assemblies


Study description

41,368 contigs in 1 assemblies