Data Access
current Release 2.2 [06 August 2012]
[please see below centre for data access policy]
BLAST server
Assembly Freeze v2.2
Nucleotide blast server
Search the nDi.2.2, wDi.2.2 and mDi.2.1 assemblies using BLAST.
Nuclear Genome Browser
Genome Browser for nDi.2.2.2
Wolbachia Genome Browser
RAST server annotation for Wolbachia endosymbiont of Dirofilaria immitis wDi.2.2 (login:guest, password:guest)
Assembly and annotation bulk data downloads
Nuclear Assembly Freeze nDi.2.2
Nuclear genome assembly nDi.2.2
[nucleotide fasta, gzipped]
Nuclear Annotation Freeze nDi.2.2.2
Gene prediction and annotation v2.2.2 performed on Assembly v2.2, using Augustus (with cDNA evidence from Sanger ESTs and Illumina RNA-seq transcriptome assembly)
GFF file of annotations of nDi.2.2.2
GFF with Blast2GO annotations [text, gzipped]
Nuclear Annotation Freeze nDi.2.2.2 Proteins
Proten predictions from nDi.2.2.2
[protein fasta, gzipped]
Transcriptome Assembly Freeze tDi.1.0
tDi.1.0 transcriptome RNA-Seq assembly
[nucleotide fasta, gzipped]
Mitochondrial Assembly Freeze mDi.2.1
Mitochondrial genome assemblies (Pavia and Athens strains) mDi.2.1
[nucleotide fasta, gzipped]
Wolbachia Assembly Freeze wDi.2.2
Wolbachia genome assembly wDi.2.2
[nucleotide fasta, gzipped]
Sequencing data downloads
Illumina Genomic: ERA032353
(Available October 31, 2011)
Illumina RNA-seq: E-MTAB-714
(Available October 31, 2011
Previous release Data Access
previous Release 1.3 [01 January 2012]
[please see below centre for data access policy]
BLAST server v1.3
Freeze v1.3
BLAST server for assembled contigs, RNAseq assembly, Transcript predictions
(select Dirofilaria immitis v1.3 entries from drop down list)
RAST server annotation for Wolbachia endosymbiont of Dirofilaria immitis wDi.1.0 (login:guest, password:guest)
Assembly and annotation bulk data downloads v1.3
Freeze v1.3
Assembled D. immitis nuclear genome contigs nDi.1.3
D. immitis GMOD Maker prediction v0.9 on assembly nDi.1.3 - GFF3
D. immitis GMOD Maker prediction v0.9 on assembly nDi.1.3 - Proteins fasta file
D. immitis GMOD Maker prediction v0.9 on assembly nDi.1.3 - Transcripts fasta file
D. immitis RNAseq assembly - Transcripts fasta file
Wolbachia of D. immitis Genome Assembly wDi.1.0 (2011-05-25) nuc fasta file
About Dirofilaria immitis
[image: heartworm in situ; photo from S. Williams]
The heartworm Dirofilaria immitis is an important parasite of dogs. Transmitted by mosquitoes in warmer climatic zones, it is spreading across Southern Europe and the Americas at an alarming pace. There is no vaccine and chemotherapy is prone to complications. To learn more about this parasite, we have sequenced the genomes of D. immitis and its endosymbiont Wolbachia.
The D. immitis genome harbors neither DNA transposons nor active retrotransposons, and there is very little genetic variation between two sequenced isolates from Europe and the USA. Differential presence of anabolic pathways such as heme and nucleotide biosynthesis hints at the intricate metabolic interrelationship between the heartworm and Wolbachia. Comparing the proteome of D. immitis to other nematodes, and to mammalian hosts, we identify families of potential drug targets, immune modulators and vaccine candidates.
This genome sequence will support the development of new tools against dirofilariasis and aid efforts to combat related human pathogens, the causative agents of lymphatic filariasis and river blindness.
Data release and publication
The data are freely downloadable here and through the public sequence repositories. We have published a general overview of the genome of D. immitis in FASEB J based on an earlier assembly version (v1.3). Assembly version 2.2 here is much improved, and we will be publishing a synoptic overview, the transcriptome, and D. immitis' relationship to other nematodes using these data. If you would like to collaborate on that project please do contact mark.blaxter@ed.ac.uk.
We ask that you do not use the v2.2 data for global summary publications in advance of our genome manuscript publication, but are happy to assist you in directed investigations of genes and gene families of interest.
Genome Team
The D. immitis genome was sequenced by an international collaboration headed by Mark Blaxter and Pascal Mäser. Sequencing was performed by the GenePool Genomics Facility, University of Edinburgh, and FASTERIS SA, Switzerland. The version 2.2 assembly and annotation was performed by Sujai Kumar (assisted by Georgios Koutsovoulos and Alex Marshall).
Collaborators (FASEB manuscript)
Christelle Godel 1,2,3
Sujai Kumar 4
Georgios Koutsovoulos 4
Philipp Ludin 1,2
Daniel Nilsson 5
Francesco Comandatore 6
Nicola Wrobel 7
Marian Thompson 7
Christoph Schmid 1,2
Susumu Goto 8
Frédéric Bringaud 9
Adrian Wolstenholme 10
Claudio Bandi 6
Christian Epe 3
Ronald Kaminsky 3
Mark Blaxter 4,7
Pascal Mäser 1,2
1 Swiss Tropical and Public Health Institute, Socinstrasse 57, 4002 Basel, Switzerland
2 University of Basel, Petersplatz 1, 4000 Basel, Switzerland
3 Novartis Animal Health, Centre de Recherche Santé Animale, 1566 St. Aubin, Switzerland
4 Institute of Evolutionary Biology, University of Edinburgh, Edinburgh EH9 3JT, UK
5 Department of Molecular Medicine and Surgery, Science for Life Laboratory, Karolinska Institutet, Tomtebodavägen 23A, 17165 Solna, Sweden
6 Dipartimento di Scienze Veterinarie, Università degli studi di Milano, Italy
7 The GenePool Genomics Facility, School of Biological Sciences, University of Edinburgh, EH9 3JT, UK
8 Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011 Japan
9 Centre de Résonance Magnétique des Systèmes Biologiques (RMSB), UMR 5536, University Bordeaux Segalen, CNRS, 146 rue Léo Saignat, 33076 Bordeaux, France
10 Department of Infectious Diseases & Center for Tropical and Emerging Global Disease, University of Georgia, Athens, GA 30602, USA
Links
The Blaxter Laboratory
NEMBASE4
959 Nematode Genomes Initiative
BaNG Nematode Genomes
Pascal Mäser Laboratory
Filaria-EU
The GenePool Genomics Facility