Rich fossil evidence suggests that many traits and functions related to terrestrial evolution were present long before the ancestor of lobe- and ray-finned fishes. Here, we present genome sequences of the bichir, paddlefish, bowfin, and alligator gar, covering all major early divergent lineages of ray-finned fishes. Our analyses show that these species exhibit many mosaic genomic features of lobe- and ray-finned fishes. In particular, many regulatory elements for limb development are present in these fishes, supporting the hypothesis that the relevant ancestral regulation networks emerged before the origin of tetrapods. Transcriptome analyses confirm the homology between the lung and swim bladder and reveal the presence of functional lung-related genes in early ray-finned fishes. Furthermore, we functionally validate the essential role of a jawed vertebrate highly conserved element for cardiovascular development. Our results imply the ancestors of jawed vertebrates already had the potential gene networks for cardio-respiratory systems supporting air breathing.
The InterPro database, an integrated documentation resource for protein families, domains and functional sites
Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method
Structure of the conus arteriosus of the sturgeon (Acipenser naccarii) heart. I: the conus valves and the subendocardium
The structure of the conus arteriosus of the sturgeon (Acipenser naccarii) heart: II. The myocardium, the subepicardium, and the conus-aorta transition
Basal actinopterygian relationships: a mitogenomic perspective on the phylogeny of the "ancient fish"
Pectoral fin and girdle development in the basal actinopterygians Polyodon spathula and Acipenser transmontanus
Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification
Bayesian estimation of species divergence times under a molecular clock using multiple fossil calibrations with soft bounds
Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates
A methodological framework for the reconstruction of contiguous regions of ancestral genomes and its application to mammalian genomes
Degeneration of olfactory receptor gene repertories in primates: no direct link to full trichromatic vision
The genus Polypterus (bichirs): a fish group diverged at the stem of ray-finned fishes (Actinopterygii)
On the origin and evolution of vertebrate olfactory receptor genes: comparative genome analysis among 23 chordate species
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
Adaptive phenotypic plasticity in the Midas cichlid fish pharyngeal jaw and its relevance in adaptive radiation
Cell is a scientific journal publishing research across a broad range of disciplines within the life sciences field. Discover the latest research from Cell here.