Genome datasets for Calonectria henricotiae and C. pseudonaviculata causing boxwood blight disease and related fungal species

<p>Boxwood blight disease, caused by the fungi <em>Calonectria henricotiae</em> and <em>C. pseudonaviculata</em>, is an emergent threat to natural and managed landscapes worldwide.</p>
<p>Boxwood blight emerged for the first time in the U.K. during the 1990s, then spread rapidly throughout Europe. By 2011, the fungus that causes the disease, <em>Calonectria pseudonaviculata</em>, was found in the U.S., threatening an industry valued at $103 million annually and countless mature landscapes, some dating back to early Colonial times.  Since the first U.S. outbreaks, boxwood blight has been identified from a total of 19 states that together comprise 62% of the total U.S. boxwood production.  A second pathogen, <em>C. henricotiae</em>, was recently described from five European countries. Infection can be latent, and the pathogen may sequester in less susceptible boxwood cultivars.  Because there are no curative treatments—fungicides are at best suppressive of symptoms—infected plants are rendered unfit for sale.  If infected plants are not destroyed, they provide a long-lived source of inoculum that spreads the pathogen by spores or resistant survival structures in soil, air, or water.  Our goal is to provide knowledge and tools needed to reduce the impact of boxwood blight on the green industry.</p>
<p>This database includes genome datasets from <em>Calonectria</em> pathogens of boxwood and related species. </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Genome assembly, Calonectria pseudonaviculata CBS 139707 (aka cpsCT01).</p> <p>File Name: CT1_ALLPATHS.scaffolds_FINAL.txt</p><p>Resource Description: This assembly is also accessioned on NCBI GenBank under accession number PGGA00000000.  The genome is contained in 27 contigs derived from Illumina and PacBio reads, depth of coverage 285x.</p></li><br><li><p>Resource Title: Draft genome assembly, Calonectria henricotiae NL009.</p> <p>File Name: NL009contigs_FINAL111517.txt</p><p>Resource Description: This is a partial genome assembly for Calonectria henricotiae isolate NL009.  The assembly is also accessioned on NCBI GenBank as PGSF00000000.  Sequences were generated using Illumina MiSeq, total depth of coverage is 34x.</p></li><br><li><p>Resource Title: Draft genome assembly, Calonectria henricotiae isolate CB077.</p> <p>File Name: CB77contigs_subset_FINAL111517.txt</p><p>Resource Description: This is a partial genome assembly of Calonectria henricotiae CB077, also accessioned on NCBI GenBank as PGSE00000000.  The sequences were generated using an Illumina MiSeq, depth of coverage 30x.</p></li><br><li><p>Resource Title: Genome assembly, Calonectia leucothoes CBS 109166.</p> <p>File Name: Cleucothes _contigs_032017REV1.txt</p><p>Resource Description: Draft genome assembly from Calonectria leucothoes CBS 109166, also accessioned on NCBI GenBank as NAJI00000000.  The sequences were generated using an Illumina MiSeq, average depth of coverage 124x.</p></li><br><li><p>Resource Title: Genome assembly, Calonectria naviculata CBS 101121.</p> <p>File Name: Cnaviculata_CBS101121 contig list_031017_FINAL2 (1).txt</p><p>Resource Description: Draft genome assembly of Calonectria naviculata CBS 101121, also accessioned on NCBI GenBank as NAGG00000000.  The genomes was generated using an Illumina MiSeq, average depth of coverage 84x.</p></li><br><li><p>Resource Title: Calonectria pseudonaviculata CBS 139707, Gene model predictions (CDs).</p> <p>File Name: CpseudonaviculataPredicted_CT1_CDS.txt</p><p>Resource Description: CDs file of gene models predicted using Coding Quarry 2</p></li><br><li><p>Resource Title: Calonectria pseudonaviculata CBS 139707, GFF file for gene model predictions.</p> <p>File Name: CpseudonaviculataCT1<em>PredictedPass.gff3</em>.txt</p><p>Resource Description: Gene model predictions and GFF file generated using CodingQuarry2.</p></li><br><li><p>Resource Title: Draft genome assembly, Calonectria henricotiae CBS 138102 (aka CB045).</p> <p>File Name: CB45Jelly1b_FINAL111717_FINAL.txt</p><p>Resource Description: This datatset contains a draft genome assembly for Calonectria henricotiae CBS 138102; these data are also accessioned on NCBI GenBank as JYJY00000000.</p></li><br><li><p>Resource Title: Genome assembly, Calonectria pseudonaviculata CBS 139394.</p> <p>File Name: CBS 139394.txt</p><p>Resource Description: This file contains the draft genome assembly for Calonectria pseudonaviculata CBS 139394.  The assembly is accessioned with NCBI GenBank, JYJY00000000</p></li><br><li><p>Resource Title: Draft genome assembly, Calonectria pseudonaviculata CBS 114417.</p> <p>File Name: cbs114417contigs_FINAL_final112017.txt</p></li><br><li><p>Resource Title: Draft genome assembly, Calonectria pseudonaviculata cpsCT13.</p> <p>File Name: cpsCT13_Final_FINAL111717.txt</p></li><br><li><p>Resource Title: Draft genome assembly Calonectria pseudonaviculata ICMP 14368.</p> <p>File Name: ICMP14368FINAL112017_final.txt</p></li><br><li><p>Resource Title: Draft genome assembly, Calonectria pseudonaviculata NC-BB1.</p> <p>File Name: NCBB1contigs_FINAL_final112017.txt</p></li><br><li><p>Resource Title: Draft genome assembly, Calonectria pseudonaviculata ODA1.</p> <p>File Name: ODA1contigs_FINAL112117final.txt</p></li><br><li><p>Resource Title: Draft genome assembly, Calonectria henricotiae NL017.</p> <p>File Name: NL017contigs_FINAL111717.txt</p></li></ul><p></p>

Tags: ars, data-gov, np303
Organization: Department of Agriculture