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Genomic Sequence and Experimental Tractability of a New Decapod Shrimp Model, Neocaridina denticulata

School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong, China
Department of Zoology, University of Oxford, Oxford OX1 3PS, UK
Department of Cell and Systems Biology, University of Toronto, Toronto M5S 3G5, Canada
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Mar. Drugs 2014, 12(3), 1419-1437;
Received: 16 January 2014 / Revised: 23 February 2014 / Accepted: 28 February 2014 / Published: 11 March 2014
(This article belongs to the Special Issue Advances and New Perspectives in Marine Biotechnology)
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The speciose Crustacea is the largest subphylum of arthropods on the planet after the Insecta. To date, however, the only publically available sequenced crustacean genome is that of the water flea, Daphnia pulex, a member of the Branchiopoda. While Daphnia is a well-established ecotoxicological model, previous study showed that one-third of genes contained in its genome are lineage-specific and could not be identified in any other metazoan genomes. To better understand the genomic evolution of crustaceans and arthropods, we have sequenced the genome of a novel shrimp model, Neocaridina denticulata, and tested its experimental malleability. A library of 170-bp nominal fragment size was constructed from DNA of a starved single adult and sequenced using the Illumina HiSeq2000 platform. Core eukaryotic genes, the mitochondrial genome, developmental patterning genes (such as Hox) and microRNA processing pathway genes are all present in this animal, suggesting it has not undergone massive genomic loss. Comparison with the published genome of Daphnia pulex has allowed us to reveal 3750 genes that are indeed specific to the lineage containing malacostracans and branchiopods, rather than Daphnia-specific (E-value: 10−6). We also show the experimental tractability of N. denticulata, which, together with the genomic resources presented here, make it an ideal model for a wide range of further aquacultural, developmental, ecotoxicological, food safety, genetic, hormonal, physiological and reproductive research, allowing better understanding of the evolution of crustaceans and other arthropods. View Full-Text
Keywords: genomics; evolution; biotechnology; arthropods; crustaceans; decapod; shrimp genomics; evolution; biotechnology; arthropods; crustaceans; decapod; shrimp

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Kenny, N.J.; Sin, Y.W.; Shen, X.; Zhe, Q.; Wang, W.; Chan, T.F.; Tobe, S.S.; Shimeld, S.M.; Chu, K.H.; Hui, J.H.L. Genomic Sequence and Experimental Tractability of a New Decapod Shrimp Model, Neocaridina denticulata. Mar. Drugs 2014, 12, 1419-1437.

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