Digital marine bioprospecting: mining new neurotoxin drug candidates from the transcriptomes of cold-water sea anemones

Marine bioprospecting is the search for new marine bioactive compounds and large-scale screening in extracts represents the traditional approach. Here, we report an alternative complementary protocol, called digital marine bioprospecting, based on deep sequencing of transcriptomes. We sequenced the...

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Bibliographic Details
Published in:Marine drugs 2012-10, Vol.10 (10), p.2265-2279
Main Authors: Urbarova, Ilona, Karlsen, Bård Ove, Okkenhaug, Siri, Seternes, Ole Morten, Johansen, Steinar D, Emblem, Åse
Format: Article
Language:English
Subjects:
Adaptation, Physiological - genetics
Amino Acid Sequence
Animals
Basale biofag: 470
Basic biosciences: 470
Bolocera tuediae
Chemistry: 440
Cold Temperature
Computational Biology - methods
deep sequencing
Drug Discovery
Ecosystem
Environmental chemistry, natural environmental chemistry: 446
Gene Expression Regulation - physiology
Genetics and genomics: 474
Genetikk og genomikk: 474
High-Throughput Screening Assays
Hormathia digitata
Kjemi: 440
Marine
marine bioprospecting
Matematikk og Naturvitenskap: 400
Mathematics and natural science: 400
Miljøkjemi, naturmiljøkjemi: 446
Models, Molecular
Molecular Sequence Data
neurotoxin
Neurotoxins - chemistry
Neurotoxins - metabolism
Oceans and Seas
Protein Conformation
sea anemone
Sea Anemones - chemistry
Sea Anemones - metabolism
Transcriptome
transcriptomics
VDP
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Summary:Marine bioprospecting is the search for new marine bioactive compounds and large-scale screening in extracts represents the traditional approach. Here, we report an alternative complementary protocol, called digital marine bioprospecting, based on deep sequencing of transcriptomes. We sequenced the transcriptomes from the adult polyp stage of two cold-water sea anemones, Bolocera tuediae and Hormathia digitata. We generated approximately 1.1 million quality-filtered sequencing reads by 454 pyrosequencing, which were assembled into approximately 120,000 contigs and 220,000 single reads. Based on annotation and gene ontology analysis we profiled the expressed mRNA transcripts according to known biological processes. As a proof-of-concept we identified polypeptide toxins with a potential blocking activity on sodium and potassium voltage-gated channels from digital transcriptome libraries.
ISSN:1660-3397
1660-3397
DOI:10.3390/md10102265