Search results

[BACKGROUND]: Lacerta viridis and Lacerta bilineata are sister species of European green lizards (eastern and western clades, respectively) that, until recently, were grouped together as the L. viridis complex. Genetic incompatibilities were observed between lacertid populations through crossing experiments, which led to the delineation of two separate species within the L. viridis complex. The population history of these sister species and processes driving divergence are unknown. We constructed the first high-quality de novo genome assemblies for both L. viridis and L. bilineata through Illumina and PacBio sequencing, with annotation support provided from transcriptome sequencing of several tissues. To estimate gene flow between the two species and identify factors involved in reproductive isolation, we studied their evolutionary history, identified genomic rearrangements, detected signatures of selection on non-coding RNA, and on protein-coding genes. [FINDINGS]: Here we show that gene flow was primarily unidirectional from L. bilineata to L. viridis after their split at least 1.15 million years ago. We detected positive selection of the non-coding repertoire; mutations in transcription factors; accumulation of divergence through inversions; selection on genes involved in neural development, reproduction, and behavior, as well as in ultraviolet-response, possibly driven by sexual selection, whose contribution to reproductive isolation between these lacertid species needs to be further evaluated. [CONCLUSION]: The combination of short and long sequence reads resulted in one of the most complete lizard genome assemblies. The characterization of a diverse array of genomic features provided valuable insights into the demographic history of divergence among European green lizards, as well as key species differences, some of which are candidates that could have played a role in speciation. In addition, our study generated valuable genomic resources that can be used to address conservation-related issues in lacertids. ; Thank the DFG for funding under the project SFB 1052 "Obesity Mechanisms" (project number: 209933828). P.F.S, K.N and M.B.W.C thank the DFG for funding under the grant SPP 1738 (project numbers: STA 850/19-1 and STA 920/6-1). K.N. and R.F. thank the Volkswagen Foundation for funding within the frame work "Support for Europe." R.F. was financed by FCT (grant SFRH/BPD/89313/2012) and is currently funded by the European Union's Horizon 2020 Research and Innovation Programme, under the Marie Sklodowska-Curie grant agreement 706376. KL is supported by an Independent Research fellowship from the Natural Environmental Research Council (NERC) UK (NE/L011522/1).