A Multi-Platform Draft de novo Genome Assembly and Comparative Analysis for the Scarlet Macaw (Ara macao)

摘要: Data deposition to NCBI Genomes: This Whole Genome Shotgun project has been deposited at DDBJ/EMBL/GenBank under the accession AMXX00000000 (SMACv1.0, unscaffolded genome assembly). The version described in this paper is first (AMXX01000000). scaffolded assembly (SMACv1.1) AOUJ00000000, and also (AOUJ01000000). Strong biological interest traits such as acquisition utilization of speech, cognitive abilities, longevity catalyzed two next-generation sequencing platforms provide first-draft de novo for large, new world parrot Ara macao (Scarlet Macaw). Despite challenges associated with an outbred avian species, including 951,507 highquality putative single nucleotide polymorphisms, final (.1.035 Gb) includes more than 997 Mb unambiguous sequence data (excluding N’s). Cytogenetic analyses ZooFISH revealed complex rearrangements scarlet macaw macrochromosomes (AMA6, AMA7), which supports hypothesis that translocations, fusions, intragenomic are key factors karyotype evolution among parrots. In silico annotation provided robust evidence 14,405 nuclear gene models, their predicted transcripts proteins, a complete mitochondrial genome. Comparative involving macaw, chicken, zebra finch genomes high levels nucleotide-based conservation well overall stability three highly divergent species. Application whole-genome analysis divergence all species yielded prioritized candidate genes noncoding regions (i.e., intelligence, longevity) were independently supported by results previous human GWAS studies. We observed loci displayed extreme across lineages, thereby reflecting likely developmental importance birds.