Genomes and Annotations of 1,154 budding yeasts

Organisms exhibit extensive variation in ecological niche breadth, from very narrow (specialists) to very broad (generalists). Paradigms proposed to explain this variation either invoke trade-offs between performance efficiency and breadth or underlying intrinsic or extrinsic factors. We assembled genomic (1,154 yeast strains from 1,090 species), metabolic (quantitative measures of growth of 843 species in 24 conditions), and ecological (environmental ontology of 1,088 species) data from nearly all known species of the ancient fungal subphylum Saccharomycotina to examine niche breadth evolution. We found large interspecific differences in carbon breadth stem from intrinsic differences in genes encoding specific metabolic pathways but no evidence of trade-offs and a limited role of extrinsic ecological factors. These comprehensive data argue that intrinsic factors driving microbial niche breadth variation. 

This item contains the genomes and annotations for the 1,154 budding yeasts that were sequenced or re-annotated in this project. 

• y1000p_cds_files.tar.gz - Fasta files of the nucleotide sequences for the gene annotations in the format assembly_fullID.final.cds
• y1000p_gff3_files.tar.gz - GFF3 files of the gene annotations in the format assembly_fullID.final.gff3
• y1000p_gtf_files.tar.gz - GTF files of the gene annotations in the format assembly_fullID.final.gtf
• y1000p_pep_files.tar.gz - Fasta files of the amino acid sequences for the gene annotations in the format assembly_fullID.final.pep
• y1000p_genome_files.zip - Fasta files of the assembled genome sequences in the format assembly_fullID.fas.gz