Gallus gallus (Chicken) genome, bGalGal1, sequence data

The chicken has been the most studied bird, serves as a model organism for basic and biomedical science, and is one of the most commonly consumed food sources for humans. This assembly has been produced as part of the VGP and B10K projects, and to become the GRC reference. Sequencing was conducted on a trio family of animals; the female offspring (bGalGal1) sequenced is a cross between a modern commercial broiler mother (bGalGal2) and a modern commercial white leghorn layer father (bGalGal3). Breeding and blood sample collection was conducted by Nick Anthony at the University of Arkansas, in coordination with Wesley Warren, Ron Okimoto, Hans Cheng, Rachel Hawken, and Erich Jarvis. Sequencing on the child was done with Pacific long reads, Bionano optical maps, and 10X Genomics libraries at the Rockefeller University Vertebrate Genomes Lab led by Olivier Fedrigo, HiC at Arima Genomics, and Illumina short reads sequencing, all on the daughter; and shot gun illumina reads on the parents supported by Adam Phillippy of NIH. Genome assembly was conducted by Giulio Formenti using the VGP 1.6 trio pipeline. Curation was conducted by Alan Tracey and Kerstin Howe at Sanger. This allowed assembly of both the paternal and maternal haplotype as chromosomes. Coordination and funding was by Wesley Warren and Erich Jarvis.