Three reference genomes for freshwater diatom ecology and evolution
Description
This repository contains the genome assemblies and gene models provided for "Three reference genomes for freshwater diatom ecology and evolution"
Authors:
Wade R. Roberts (email: wader [at] uark [dot] edu)
Andrew J. Alverson (email: aja [at] uark [dot] edu)
The Whole Genome Shotgun (WGS) projects are available from NCBI GenBank under accession JALLPB020000000 (C. tholiformis), JALLBG020000000 (D. pseudostelligera), and JALLAZ020000000 (P. triporus).
The following files are included:
Cyclostephanos tholiformis strain AJA228-03
aja228-03.consensus.fasta
aja228-03.consensus.gff3
aja228-03.consensus.proteins.fasta
aja228-03.consensus.combined_uniprot_annotation.csv
aja228-03.consensus.panther_annotation.csv
aja228-03.consensus.pfam_annotation.csv
Discostella pseudostelligera strain AJA232-27
aja232-27.consensus.fasta
aja232-27.consensus.gff3
aja232-27.consensus.proteins.fasta
aja232-27.consensus.combined_uniprot_annotation.csv
aja232-27.consensus.panther_annotation.csv
aja232-27.consensus.pfam_annotation.csv
Praestephanos triporus strain AJA276-08
aja276-08.consensus.fasta
aja276-08.consensus.gff3
aja276-08.consensus.proteins.fasta
aja276-08.consensus.combined_uniprot_annotation.csv
aja276-08.consensus.panther_annotation.csv
aja276-08.consensus.pfam_annotation.csv
R code and phylogenetic tree to reproduce Figure 1 in the manuscript
plot-figure-1.R
busc.prot.concat.partition.rooted.tree
Files
aja228-03.consensus.combined_uniprot_annotation.csv
Files
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Additional details
Funding
- U.S. National Science Foundation
- CAREER: Teasing Apart the Tempo and Mode of Environmental Adaptation With a Defined Ecological Context and Evolutionary Replication Across Multiple Timescales 1651087