Dataset Information

The Asian arowana (Scleropages formosus) genome provides new insights into the evolution of an early lineage of teleosts.

ABSTRACT: The Asian arowana (Scleropages formosus), one of the world's most expensive cultivated ornamental fishes, is an endangered species. It represents an ancient lineage of teleosts: the Osteoglossomorpha. Here, we provide a high-quality chromosome-level reference genome of a female golden-variety arowana using a combination of deep shotgun sequencing and high-resolution linkage mapping. In addition, we have also generated two draft genome assemblies for the red and green varieties. Phylogenomic analysis supports a sister group relationship between Osteoglossomorpha (bonytongues) and Elopomorpha (eels and relatives), with the two clades together forming a sister group of Clupeocephala which includes all the remaining teleosts. The arowana genome retains the full complement of eight Hox clusters unlike the African butterfly fish (Pantodon buchholzi), another bonytongue fish, which possess only five Hox clusters. Differential gene expression among three varieties provides insights into the genetic basis of colour variation. A potential heterogametic sex chromosome is identified in the female arowana karyotype, suggesting that the sex is determined by a ZW/ZZ sex chromosomal system. The high-quality reference genome of the golden arowana and the draft assemblies of the red and green varieties are valuable resources for understanding the biology, adaptation and behaviour of Asian arowanas.

SUBMITTER: Bian C

PROVIDER: S-EPMC4835728 | biostudies-literature | 2016 Apr

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

The Asian arowana (Scleropages formosus) genome provides new insights into the evolution of an early lineage of teleosts.

Bian Chao C Hu Yinchang Y Ravi Vydianathan V Kuznetsova Inna S IS Shen Xueyan X Mu Xidong X Sun Ying Y You Xinxin X Li Jia J Li Xiaofeng X Qiu Ying Y Tay Boon-Hui BH Thevasagayam Natascha May NM Komissarov Aleksey S AS Trifonov Vladimir V Kabilov Marsel M Tupikin Alexey A Luo Jianren J Liu Yi Y Song Hongmei H Liu Chao C Wang Xuejie X Gu Dangen D Yang Yexin Y Li Wujiao W Polgar Gianluca G Fan Guangyi G Zeng Peng P Zhang He H Xiong Zijun Z Tang Zhujing Z Peng Chao C Ruan Zhiqiang Z Yu Hui H Chen Jieming J Fan Mingjun M Huang Yu Y Wang Min M Zhao Xiaomeng X Hu Guojun G Yang Huanming H Wang Jian J Wang Jun J Xu Xun X Song Linsheng L Xu Gangchun G Xu Pao P Xu Junmin J O'Brien Stephen J SJ Orbán László L Venkatesh Byrappa B Shi Qiong Q

Scientific reports 20160419

The Asian arowana (Scleropages formosus), one of the world's most expensive cultivated ornamental fishes, is an endangered species. It represents an ancient lineage of teleosts: the Osteoglossomorpha. Here, we provide a high-quality chromosome-level reference genome of a female golden-variety arowana using a combination of deep shotgun sequencing and high-resolution linkage mapping. In addition, we have also generated two draft genome assemblies for the red and green varieties. Phylogenomic anal ...[more]

PMID: 27089831

Similar Datasets

Project description:BackgroundMitochondrial DNA-derived sequences have become popular markers for evolutionary studies, as their comparison may yield significant insights into the evolution of both the organisms and their genomes. From the more than 24,000 teleost species, only 254 complete mtDNA sequences are available (GenBank status on 06 Sep 2006). In this paper, we report the complete mitochondrial genome sequence of Asian arowana, a basal bonytongue fish species, which belongs to the order of Osteoglossiformes.ResultsThe complete mitochondrial genomic sequence (mtDNA) of Asian arowana (Scleropages formosus) was determined by using shotgun sequencing method. The length of Asian arowana mtDNA is ca. 16,650 bp (its variation is due to polymorphic repeats in the control region), containing 13 protein-coding genes, 22 tRNA and 2 rRNA genes. Twelve of the thirteen protein coding genes were found to be encoded by the heavy strand in the order typically observed for vertebrate mitochondrial genomes, whereas only nad6 was located on the light strand. An interesting feature of Asian arowana mitogenome is that two different repeat arrays were identified in the control region: a 37 bp tandem repeat at the 5' end and an AT-type dinucleotide microsatellite at the 3' end. Both repeats show polymorphism among the six individuals tested; moreover the former one is present in the mitochondrial genomes of several other teleost groups. The TACAT motif described earlier only from mammals and lungfish was found in the tandem repeat of several osteoglossid and eel species. Phylogenetic analysis of fish species representing Actinopterygii and Sarcopterygii taxa has shown that the Asian arowana is located near the baseline of the teleost tree, confirming its status among the ancestral teleost lineages.ConclusionThe mitogenome of Asian arowana is very similar to the typical vertebrate mitochondrial genome in terms of gene arrangements, codon usage and base composition. However its control region contains two different types of repeat units at both ends, an interesting feature that to our knowledge has never been reported before for other vertebrate mitochondrial control regions. Phylogenetic analysis using the complete mtDNA sequence of Asian arowana confirmed that it belongs to an ancestral teleost lineage.

Dataset Information

The Asian arowana (Scleropages formosus) genome provides new insights into the evolution of an early lineage of teleosts.

Publications

The Asian arowana (Scleropages formosus) genome provides new insights into the evolution of an early lineage of teleosts.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets