Acrocephalus familiaris kingi genome assemblies and annotation

De novo genome assemblies of the Nihoa millerbird (Acrocephalus familiaris kingi). The genome was assembled using Supernova 2.0.0 (Weisenfeld et al. 2017). Both pseudohaplotypes were output (files AcrFamPseudohap2.1.fasta.gz and AcrFamPseudohap2.2.fasta.gz). The assembled genome was annotated (file AcrFam_augustus.gff.gz) using AUGUSTUS 3.3 (Stanke et al. 2006, 2008) using cDNA hints derived from the zebra finch (Taeniopygia guttata) assembly TaeGut.3.2.4 (Warren et al. 2010) and gene model training from BUSCO 3.0.2 (Simão et al. 2015). Supernova scaffolds were assembled into pseudochromosomes using the Chromosemble function of Satsuma 3.1.0 (Grabherr et al. 2010). Pseudochromosomes are sorted into autosomes (file AcrFam_pseudochr_autosomes.fasta.gz), Z chromosome (file AcrFam_pseudochr_Z.fasta.gz), and mitogenome assemblies (file AcrFam_pseudochr_MT.fasta.gz). For further detail, see Kearns et al. Accepted. Conservation genomics and systematics of a near-extinct island radiation. Molecular Ecology.