| bioproject id |
PRJNA612482
to NCBI
|
| key word |
baseline;APICAL ECTODERMAL RIDGE;TOLL-LIKE RECEPTORS;SPOTTED GAR;TRANSCRIPTION FACTORS;READ ALIGNMENT;SCPP GENES;VERTEBRATE;TRANSITION;EXPRESSION;CHROMATIN |
| experiment type |
baseline |
| publication |
Thompson, A. , et al. "The genome of the bowfin (Amia calva) illuminates the developmental evolution of ray-finned fishes." Nature Genetics. |
| description |
In an effort to an accurate immune-transcriptome, RNA from spleen, gill, liver and gut were individually isolated and then pooled together in equal amounts prior to next-gen sequencing. |
| abstract |
Analysis of a chromosome-level bowfin genome assembly sheds light into neopterygian fish evolution. Chromatin accessibility and gene expression profiling provides insight into bowfin embryonic development.The bowfin (Amia calva) is a ray-finned fish that possesses a unique suite of ancestral and derived phenotypes, which are key to understanding vertebrate evolution. The phylogenetic position of bowfin as a representative of neopterygian fishes, its archetypical body plan and its unduplicated and slowly evolving genome make bowfin a central species for the genomic exploration of ray-finned fishes. Here we present a chromosome-level genome assembly for bowfin that enables gene-order analyses, settling long-debated neopterygian phylogenetic relationships. We examine chromatin accessibility and gene expression through bowfin development to investigate the evolution of immune, scale, respiratory and fin skeletal systems and identify hundreds of gene-regulatory loci conserved across vertebrates. These resources connect developmental evolution among bony fishes, further highlighting the bowfin's importance for illuminating vertebrate biology and diversity in the genomic era. |
Gene
RNA