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Elife. 2016 Nov 16;5. pii: e20062. doi: 10.7554/eLife.20062.

The genome of the crustacean Parhyale hawaiensis, a model for animal development, regeneration, immunity and lignocellulose digestion.

Author information

1
Department of Zoology, University of Oxford, Oxford, United Kingdom.
2
Janelia Research Campus, Howard Hughes Medical Institute, Virginia, United States.
3
MRC Clinical Sciences Centre, Imperial College London, London, United Kingdom.
4
Clinical Sciences, Imperial College London, London, United Kingdom.
5
Institut de Gé nomique Fonctionnelle de Lyon, Centre National de la Recherche Scientifique (CNRS) and É cole Normale Supé rieure de Lyon, Lyon, France.
6
Department of Molecular and Cell Biology, University of California, Berkeley, United States.
7
Molecular and Cell Biology, Howard Hughes Medical Institute, University of California, Berkeley, United States.
8
Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, United States.
9
Department of Invertebrate Zoology, Smithsonian National Museum of Natural History, Washington, United States.
10
Vergleichende Zoologie, Institut fur Biologie,Humboldt-Universitat zu Berlin, Berlin, Germany.
#
Contributed equally

Abstract

The amphipod crustacean Parhyale hawaiensis is a blossoming model system for studies of developmental mechanisms and more recently regeneration. We have sequenced the genome allowing annotation of all key signaling pathways, transcription factors, and non-coding RNAs that will enhance ongoing functional studies. Parhyale is a member of the Malacostraca clade, which includes crustacean food crop species. We analysed the immunity related genes of Parhyale as an important comparative system for these species, where immunity related aquaculture problems have increased as farming has intensified. We also find that Parhyale and other species within Multicrustacea contain the enzyme sets necessary to perform lignocellulose digestion ('wood eating'), suggesting this ability may predate the diversification of this lineage. Our data provide an essential resource for further development of Parhyale as an experimental model. The first malacostracan genome will underpin ongoing comparative work in food crop species and research investigating lignocellulose as an energy source.

KEYWORDS:

Parhyale; crustacean; developmental biology; epigenetics; evolutionary biology; genome; genomics; immunity; lignocellulose; stem cells

PMID:
27849518
PMCID:
PMC5111886
DOI:
10.7554/eLife.20062
[Indexed for MEDLINE]
Free PMC Article

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