Supplemental Files for "A highly contiguous genome assembly reveals sources of genomic novelty in the symbiotic fungus Rhizophagus irregularis"
Authors/Creators
- 1. Royal Botanic Gardens Kew, Richmond TW9 3DS, United Kingdom
- 2. SPUN | Society for the Protection of Underground Networks, 3500 South DuPont Highway, Suite EI-101, Dover, DE 19901, USA
Description
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.
Nuclear genome assembly
Rhizophagus_irregularis_DAOM197198_assembly.fasta
Illumina and Illumina+Nanopore gene annotations
Rhizophagus_irregularis_DAOM197198_Illumina+ONT_curated.gff3
Rhizophagus_irregularis_DAOM197198_Illumina_curated.gff3
Illumina and Illumina+Nanopore functional gene annotations
Rhizophagus_irregularis_DAOM197198_annotations_Illumina+ONT.txt
Rhizophagus_irregularis_DAOM197198_annotations_Illumina.txt
Illumina and Illumina+Nanopore CDS sequences
Rhizophagus_irregularis_DAOM197198_cds-transcripts_Illumina+ONT_curated.fa
Rhizophagus_irregularis_DAOM197198_cds-transcripts_Illumina_curated.fa
Illumina and Illumina+Nanopore mRNA sequences
Rhizophagus_irregularis_DAOM197198_mrna-transcripts_Illumina+ONT_curated.fa
Rhizophagus_irregularis_DAOM197198_mrna-transcripts_Illumina_curated.fa
Illumina and Illumina+Nanopore protein sequences
Rhizophagus_irregularis_DAOM197198_proteins_Illumina+ONT_curated.fa
Rhizophagus_irregularis_DAOM197198_proteins_Illumina_curated.fa
GO terms for g:Profiler
Rhizophagus_irregularis_DAOM197198_Illumina+ONT_GOterms.gmt
*Or use token gp__xfGY_dQeI_yx4
Repetitive and transposable element library and annotation
Rhizophagus_irregularis_DAOM197198_curatedrepeatlibrary.fasta
Rhizophagus_irregularis_DAOM197198_repeatmasker.out
Rhizophagus_irregularis_DAOM197198_repeats.gff3
DNA methylome (sequenced from spores)
Rhizophagus_irregularis_DAOM197198_mCG_mods_frequency.tsv
Poly(A) signal and tail sequences
Rhizophagus_irregularis_DAOM197198_pasa_polyAsite_analysis.out
Rhizophagus_irregularis_DAOM197198_pasa_polyAsites.fasta
Small RNA annotation
Rhizophagus_irregularis_DAOM197198_sRNA.gff3
Rhizophagus_irregularis_DAOM197198_sRNA.tsv
Mitochondrial genome assembly and annotation
Rhizophagus_irregularis_DAOM197198_mtDNA.fasta
Rhizophagus_irregularis_DAOM197198_mtDNA.gff
R. irregularis phylostratigraphy
Rhizophagus_irregularis_DAOM197198_1432141_phyloranks.tsv
Rhizophagus_irregularis_DAOM197198_1432141_high-confidence_phyloranks.tsv
Mucoromycota fungi phylostratigraphy
Disdec1_101101_phyloranks.tsv
Geopyr1_50956_phyloranks.tsv
Gigmar1_4874_phyloranks.tsv
Morel2_1314771_phyloranks.tsv
Phybl2_4837_phyloranks.tsv
Radspe1_64574_phyloranks.tsv
Fatty acid synthase phylogeny
FAS_genes_muscle5_msa.fa (alignments)
FAS_genes.raxml.support (ML tree)
Files
Rhizophagus_irregularis_DAOM197198_annotations_Illumina+ONT.txt
Files
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