Acrobeles complexus

nematodes.org

Nematode & Neglected Genomics
@ The Blaxter Lab, Institute of Evolutionary Biology, School of Biological Sciences, The University of Edinburgh

University of Edinburgh crest   

Nematode & Neglected Genomics

The Blaxter lab website, databases and services, version 4.0
Please use the navigation bars above to tour this site

NEMBASE4

NEMBASE is a comprehensive Nematode Transcriptome Database
including 63 nematode species, over 600,000 ESTs and over 250,000 proteins.


May 2012
The Heliconius genome:
adaptive introgression in butterfly wing patterns
  Heliconius melpomene from Chris Jiggins  

Heliconius butterflkies are key models for the study of evolution in the wild. We have worked with colleagues across the globe to sequence and annotate the genome of the postman butterfly Heliconius melpomene melpomene, and to use this genome to reveal the eviolutionary history of the butterflies and of the genetic loci that control their mimetic wing patterns. Surprisingly, loci that determine wing patterning have introgressed between species, the first time that adaptive introgression has been identified in the wild. John Davey, a BBSRC-funded postdoc in the lab, worked on the sequencing and genetic map, and much of the data was generated by the GenePool.

Butterfly genome reveals promiscuous exchange of mimicry adaptations among species
The Heliconius Genome Consortium
Nature 2012 (eprint ahead of publication)

http://www.nature.com/nature/journal/vaop/ncurrent/full/nature11041.html doi:10.1038/nature11041

May 2012
Salmon genetic mapping with RAD
  salmon from Wikimedia  

We are workingwith Ross Houston and colleagues in developing RAD sequencing markers and maps for farmed salmon. The first paper from this project has just been published.

Characterisation of QTL-Linked and Genome-Wide Restriction Site-Associated DNA (RAD) markers in farmed Atlantic salmon
Ross D. Houston, John W. Davey, Stephen C. Bishop, Natalie R. Lowe, Jose C. Mota-Velasco, Alastair Hamilton, Derrick R. Guy, Alan E. Tinch, Marian L.Thomson, Mark L. Blaxter, Karim Gharbi, James E. Bron and John B. Taggart
BMC Genomics 2012

in press in BMC Genomics - weblink soon

April 2012
The phylogenetics of swim bladder nematode parasites of eels (Anguillicolidae)
  Anguilicolla crassus  

Dominik Laetsch, a Diploma thesis student in the lab seconded from KIT, Karlsruhe, Germany, has produced a definitive phylogenetic analysis of the Anguillicolidae, important invasive nematode parasites of eels. It is published in BMC Evolutionary Biology.

The phylogenetics of Anguillicolidae (Nematoda: Anguillicolidea), swimbladder parasites of eels
Dominik R Laetsch, Emanuel G Heitlinger, Horst Taraschewski, Steven A Nadler and Mark L Blaxter
BMC Evolutionary Biology 2012, 12:60 doi:10.1186/1471-2148-12-60

February 2012
Nematode transcriptomics
  Bang logo    

We have published a short review of transcriptomic and genomic studies across the phylum Nematoda in a special issue of Parasite immunology.

Genomics and transcriptomics across the diversity of the Nematoda
M. BLAXTER, S. KUMAR, G. KAUR, G. KOUTSOVOULOS and B. ELSWORTH
Parasite Immunology, Vol 34, Issue 3, 108 -120 (Issue published online 13 Feb 2012)

Many apologies - we cannot afford to make this open access.

January 2012
959 nematode genomes initiative
  Bang logo    

The 959 nematode genomes Initiative aims to support the wide community of researchers generating and analysisng nematode genomic resources. Sujai Kumar has built a community wiki for coordination and dissemination of the advances made in this initiative, and here (the databases and resources issue of NAR) we describe the core function of the semanticMediaWiki system we have implemented, and its content. We also wrote a short review in the new journal "Worm" we describe the current state-of-play of the 959 nematode genomes initiative, and place the current work in the context of the wider span of nematode diversit

959 Nematode Genomes: a semantic wiki for coordinating sequencing projects
Sujai Kumar, Philipp H. Schiffer, Mark Blaxter
Nucleic Acids Research, 40, D1295-D1300.
It is Open Access at http://nar.oxfordjournals.org/content/40/D1/D1295.abstract

Toward 959 nematode genomes
Kumar S, Koutsovoulos G, Kaur G, Blaxter M
Worm 2012, 1.
It is Open Access at http://www.landesbioscience.com/journals/worm/article/19046/

January 2012
Bumblebee transcriptome
  Bang logo    

In collaboration with Joe Colgan (Trinity, Dublin) and colleagues we have generated a 454 sequencing based transcriptome of life cycle stages and castes of the bumble bee Bombus terrestris. A manuscript describing this work has been published in BMC Genomics.

Polyphenism in social insects: insights from a transcriptome-wide analysis of gene expression in the life stages of the key pollinator, Bombus terrestris
Thomas J Colgan, James C Carolan, Stephen J Bridgett, Seirian Sumner, Mark L Blaxter and Mark JF Brown
BMC Genomics 2011, 12:623 doi:10.1186/1471-2164-12-623

It is Open Access at http://www.biomedcentral.com/1471-2164/12/623

2011 and earlier
OLD NEWS previous newsflashes from us...

1000 nematode genomes   the 1000 nematode genomes initiative
genomics databases   genomic and transcriptomic databases for nematodes and other metazoan phyla
software tools   freely downloadable tools for expressed sequence tag analysis, DNA barcode analysis and phylogenomics
research projects   the work we do on the genomics, evolution and diversity of animals
CIIE   The Blaxter lab is part of the Centre for Infection Immunity and Evolution of the University of Edinburgh
GenePool   The GenePool Genomics Facility and the NERC NBAF sequencing facility

The website is continuously "under reconstruction" - please email mark.blaxter-at-ed.ac.uk if you find a significant broken link.

BaNG website, version 4.01, May 1st 2010


Website Highlight
Xiphinema index

The plant-parasitic nematode Xiphinema index .
Plant parasitic nematodes cause major economic losses worldwide. Xiphinema index is a migratory endoparasite of the roots of many crop species, and transmits dangerous plant viruses . See NEMBASE4 for analyses of ESTs from this parasite and many other nematodes.

[nematodes.org v4.0] the content of these pages is copyright Mark Blaxter and colleagues. Contact the webmaster if there are problems.