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Whole genome sequencing of the Asian Arowana (Scleropages formosus) provides insights into the evolution of ray-finned fishes

Austin, Christopher, Tan, Mun Hua, Croft, Laurence J., Hammer, Michael P. and Gan, Huan You 2015, Whole genome sequencing of the Asian Arowana (Scleropages formosus) provides insights into the evolution of ray-finned fishes, Genome biology and evolution, vol. 7, no. 10, pp. 2885-2895, doi: 10.1093/gbe/evv186.

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Title Whole genome sequencing of the Asian Arowana (Scleropages formosus) provides insights into the evolution of ray-finned fishes
Formatted title Whole genome sequencing of the Asian Arowana (Scleropages formosus) provides insights into the evolution of ray-finned fishes
Author(s) Austin, ChristopherORCID iD for Austin, Christopher orcid.org/0000-0003-1848-6267
Tan, Mun Hua
Croft, Laurence J.
Hammer, Michael P.
Gan, Huan You
Journal name Genome biology and evolution
Volume number 7
Issue number 10
Start page 2885
End page 2895
Total pages 11
Publisher Oxford University Press
Place of publication Oxford, Eng.
Publication date 2015-10-06
ISSN 1759-6653
1759-6653
Keyword(s) evolutionary rate
fish
genome
phylogenomics
pigmentation genes
Amino Acid Sequence
Animals
Base Sequence
Bayes Theorem
Biological Evolution
Evolution, Molecular
Fishes
Gene Duplication
Molecular Sequence Data
Phylogeny
Pigmentation
RNA, Transfer
Sequence Alignment
Science & Technology
Life Sciences & Biomedicine
Evolutionary Biology
Genetics & Heredity
TELEOST FISH
RNA GENES
DUPLICATION
DIVERSIFICATION
COELACANTH
INFERENCE
REVEALS
ORIGIN
TOOL
Summary The Asian arowana (Scleropages formosus) is of commercial importance, conservation concern, and is a representative of one of the oldest lineages of ray-finned fish, the Osteoglossomorpha. To add to genomic knowledge of this species and the evolution of teleosts, the genome of a Malaysian specimen of arowana was sequenced. A draft genome is presented consisting of 42,110 scaffolds with a total size of 708 Mb (2.85% gaps) representing 93.95% of core eukaryotic genes. Using a k-mer-based method, a genome size of 900 Mb was also estimated. We present an update on the phylogenomics of fishes based on a total of 27 species (23 fish species and 4 tetrapods) using 177 orthologous proteins (71,360 amino acid sites), which supports established relationships except that arowana is placed as the sister lineage to all teleost clades (Bayesian posterior probability 1.00, bootstrap replicate 93%), that evolved after the teleost genome duplication event rather than the eels (Elopomorpha). Evolutionary rates are highly heterogeneous across the tree with fishes represented by both slowly and rapidly evolving lineages. A total of 94 putative pigment genes were identified, providing the impetus for development of molecular markers associated with the spectacular colored phenotypes found within this species.
Language eng
DOI 10.1093/gbe/evv186
Field of Research 060408 Genomics
060305 Evolution of Developmental Systems
0604 Genetics
0603 Evolutionary Biology
Socio Economic Objective 970106 Expanding Knowledge in the Biological Sciences
HERDC Research category C1.1 Refereed article in a scholarly journal
ERA Research output type C Journal article
Copyright notice ©2015, The Authors
Free to Read? Yes
Use Rights Creative Commons Attribution licence
Persistent URL http://hdl.handle.net/10536/DRO/DU:30091311

Document type: Journal Article
Collections: School of Life and Environmental Sciences
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Every reasonable effort has been made to ensure that permission has been obtained for items included in DRO. If you believe that your rights have been infringed by this repository, please contact drosupport@deakin.edu.au.