The transcriptome of metamorphosing flatfish

Flatfish metamorphosis denotes the extraordinary transformation of a symmetric pelagic larva into an asymmetric benthic juvenile. Metamorphosis in vertebrates is driven by thyroid hormones (THs), but how they orchestrate the cellular, morphological and functional modifications associated with matura...

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Bibliographic Details
Published in:BMC genomics 2016-05, Vol.17 (394), p.413-413, Article 413
Main Authors: Alves, Ricardo N, Gomes, Ana S, Stueber, Kurt, Tine, Mbaye, Thorne, M A S, Smáradóttir, H, Reinhard, Richard, Clark, M S, Rønnestad, Ivar, Power, Deborah M
Format: Article
Language:English
Subjects:
Animals
Cluster Analysis
Computational Biology - methods
Flatfishes
Flatfishes - genetics
Gene Expression Profiling
Gene Expression Regulation, Developmental - drug effects
Gene Ontology
High-Throughput Nucleotide Sequencing
Metamorphosis
Metamorphosis, Biological - genetics
Molecular Sequence Annotation
Morphogenesis - genetics
Organ Specificity
Physiological aspects
RNA sequencing
Thyroid Hormones - pharmacology
Transcriptome
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Summary:Flatfish metamorphosis denotes the extraordinary transformation of a symmetric pelagic larva into an asymmetric benthic juvenile. Metamorphosis in vertebrates is driven by thyroid hormones (THs), but how they orchestrate the cellular, morphological and functional modifications associated with maturation to juvenile/adult states in flatfish is an enigma. Since THs act via thyroid receptors that are ligand activated transcription factors, we hypothesized that the maturation of tissues during metamorphosis should be preceded by significant modifications in the transcriptome. Targeting the unique metamorphosis of flatfish and taking advantage of the large size of Atlantic halibut (Hippoglossus hippoglossus) larvae, we determined the molecular basis of TH action using RNA sequencing. De novo assembly of sequences for larval head, skin and gastrointestinal tract (GI-tract) yielded 90,676, 65,530 and 38,426 contigs, respectively. More than 57 % of the assembled sequences were successfully annotated using a multi-step Blast approach. A unique set of biological processes and candidate genes were identified specifically associated with changes in morphology and function of the head, skin and GI-tract. Transcriptome dynamics during metamorphosis were mapped with SOLiD sequencing of whole larvae and revealed greater than 8,000 differentially expressed (DE) genes significantly (p 
ISSN:1471-2164
1471-2164
DOI:10.1186/s12864-016-2699-x