A genome draft of the legless anguid lizard, Ophisaurus gracilis

GigaScience

Xin Liu³  Yaping Zhang²  Jing Che¹  Robert W Murphy⁵  Rui Guan³  Jieqiong Jin¹  Xiao Zhong³  Yanbo Sun¹  Shifeng Cheng⁴  Bo Song³ 

[1] State Key Laboratory of Genetic Resources and Evolution, and Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China;Laboratory for Conservation and Utilization of Bio-resource, Yunnan University, Kunming 650091, China;BGI-Shenzhen, Shenzhen 518083, China;HKU-BGI Bioinformatics Algorithms and Core Technology Research Laboratory, The Computer Science Department, The University of Hong Kong, Hong Kong, China;Centre for Biodiversity and Conservation Biology, Royal Ontario Museum, 100 Queen’s Park, Toronto M5S 2C6, Ont., Canada

关键词: Limblessness;    Squamate reptiles;    Anguidae;    Lizard genome;   

Others  :  1172974
DOI  :  10.1186/s13742-015-0056-7

 received in 2014-12-25, accepted in 2015-03-24,  发布年份 2015

【 摘 要 】

Background

Transition from a lizard-like to a snake-like body form is one of the most important transformations in reptilian evolution. The increasing number of sequenced reptilian genomes is enabling a deeper understanding of vertebrate evolution, although the genetic basis of the loss of limbs in reptiles remains enigmatic. Here we report genome sequencing, assembly, and annotation for the Asian glass lizard Ophisaurus gracilis, a limbless lizard species with an elongated snake-like body form. Addition of this species to the genome repository will provide an excellent resource for studying the genetic basis of limb loss and trunk elongation.

Findings

O. gracilis genome sequencing using the Illumina HiSeq2000 platform resulted in 274.20 Gbp of raw data that was filtered and assembled to a final size of 1.78 Gbp, comprising 6,717 scaffolds with N50 = 1.27 Mbp. Based on the k-mer estimated genome size of 1.71 Gbp, the assembly appears to be nearly 100% complete. A total of 19,513 protein-coding genes were predicted, and 884.06 Mbp of repeat sequences (approximately half of the genome) were annotated. The draft genome of O. gracilis has similar characteristics to both lizard and snake genomes.

Conclusions

We report the first genome of a lizard from the family Anguidae, O. gracilis. This supplements currently available genetic and genomic resources for amniote vertebrates, representing a major increase in comparative genome data available for squamate reptiles in particular.

【 授权许可】

   
2015 Song et al.; licensee BioMed Central.

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