Supplemental Files for "A highly contiguous genome assembly reveals sources of genomic novelty in the symbiotic fungus Rhizophagus irregularis"

Supplemental files for "A highly contiguous genome assembly reveals sources of genomic novelty in the symbiotic fungus Rhizophagus irregularis". This data is linked to the bioRxiv pre-print doi: https://doi.org/10.1101/2022.10.19.511543, an updated version of which is in press at G3: Genes|Genomes|Genetics, and corresponds to the NCBI BioProject PRJNA885267 and NCBI BioSample SAMN31081226. <strong>Nuclear genome assembly</strong> Rhizophagus_irregularis_DAOM197198_assembly.fasta <strong>Illumina and Illumina+Nanopore gene annotations</strong> Rhizophagus_irregularis_DAOM197198_Illumina+ONT_curated.gff3 Rhizophagus_irregularis_DAOM197198_Illumina_curated.gff3 <strong>Illumina and Illumina+Nanopore functional gene annotations</strong> Rhizophagus_irregularis_DAOM197198_annotations_Illumina+ONT.txt Rhizophagus_irregularis_DAOM197198_annotations_Illumina.txt <strong>Illumina and Illumina+Nanopore CDS sequences</strong> Rhizophagus_irregularis_DAOM197198_cds-transcripts_Illumina+ONT_curated.fa Rhizophagus_irregularis_DAOM197198_cds-transcripts_Illumina_curated.fa <strong>Illumina and Illumina+Nanopore mRNA sequences</strong> Rhizophagus_irregularis_DAOM197198_mrna-transcripts_Illumina+ONT_curated.fa Rhizophagus_irregularis_DAOM197198_mrna-transcripts_Illumina_curated.fa <strong>Illumina and Illumina+Nanopore protein sequences</strong> Rhizophagus_irregularis_DAOM197198_proteins_Illumina+ONT_curated.fa Rhizophagus_irregularis_DAOM197198_proteins_Illumina_curated.fa <strong>GO terms for g:Profiler</strong><br> Rhizophagus_irregularis_DAOM197198_Illumina+ONT_GOterms.gmt<br> *Or use token gp__xfGY_dQeI_yx4 <strong>Repetitive and transposable element library and annotation</strong> Rhizophagus_irregularis_DAOM197198_curatedrepeatlibrary.fasta Rhizophagus_irregularis_DAOM197198_repeatmasker.out Rhizophagus_irregularis_DAOM197198_repeats.gff3 <strong>DNA methylome (sequenced from spores)</strong> Rhizophagus_irregularis_DAOM197198_mCG_mods_frequency.tsv <strong>Poly(A) signal and tail sequences</strong> Rhizophagus_irregularis_DAOM197198_pasa_polyAsite_analysis.out Rhizophagus_irregularis_DAOM197198_pasa_polyAsites.fasta <strong>Small RNA annotation</strong> Rhizophagus_irregularis_DAOM197198_sRNA.gff3 Rhizophagus_irregularis_DAOM197198_sRNA.tsv <strong>Mitochondrial genome assembly and annotation</strong> Rhizophagus_irregularis_DAOM197198_mtDNA.fasta Rhizophagus_irregularis_DAOM197198_mtDNA.gff <strong><em>R. irregularis</em> phylostratigraphy</strong> Rhizophagus_irregularis_DAOM197198_1432141_phyloranks.tsv Rhizophagus_irregularis_DAOM197198_1432141_high-confidence_phyloranks.tsv <strong>Mucoromycota fungi phylostratigraphy</strong> Disdec1_101101_phyloranks.tsv Geopyr1_50956_phyloranks.tsv Gigmar1_4874_phyloranks.tsv Morel2_1314771_phyloranks.tsv Phybl2_4837_phyloranks.tsv Radspe1_64574_phyloranks.tsv <strong>Fatty acid synthase phylogeny</strong> FAS_genes_muscle5_msa.fa (alignments) FAS_genes.raxml.support (ML tree)