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Annotation Data from: Genome Resources of Four Distinct Pathogenic Races Within Fusarium oxysporum f. sp. vasinfectum that Cause Vascular Wilt Disease of Cotton

posted on 2024-02-21, 18:46 authored by Subodh K. Srivastava, Kurt Zeller

[NOTE - Data file added 2022-11-02:

-FOV1 Annotations - FOV1.ONT.Miseq.polished.augustus.gz]

Whole genome sequence (WGS) based identifications are being increasingly used by regulatory and public health agencies to facilitate the detection, investigation, and control of pathogens and pests. Fusarium oxysporum f. sp. vasinfectum is a significant vascular wilt pathogen of cultivated cotton and consists of several pathogenic races that are not each other’s closest phylogenetic relatives. We have developed WGS assemblies for isolates of F. oxysporum f. sp. vasinfectum race 1 (FOV1), race 4 (FOV4), race 5 (FOV5), and race 8 (FOV8) using a combination of Nanopore (MinION) and Illumina sequencing technology (Mi-Seq). This resulted in assembled contigs with more than 100× coverage for each of the F. oxysporum f. sp. vasinfectum races and estimated genome sizes of FOV1 52 Mb, FOV4 68 Mb, FOV5 68 Mb, and FOV8 55 Mb. The AUGUSTUS gene prediction program predicted 16,263 genes in FOV1, 20,259 genes in FOV4, 20,375 genes in FOV5 and 16,615 genes in FOV8. We were able to identify 525 genes unique to FOV1, 570 unique to FOV4, 1,242 unique to FOV5, and 383 unique to FOV8. We expect that these findings will help in comparative genomics and in the identification of unique genes as candidate targets for diagnostic marker and methods development to permit rapid differentiation of F. oxysporum f. sp. vasinfectum subgroups.

Subodh K. Srivastava (1, 2), Kurt A. Zeller (1), James H. Sobieraj (1,2) and Mark Nakhla (1) 1 - USDA APHIS PPQ, S&T, Beltsville Laboratory, Beltsville, MD, 20705, USA 2 - Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, 27695, USA

Resources in this dataset:

  • Resource Title: FOV4 Annotations.

    File Name: FOV4.ONT.Miseq.polished.augustus.gz

  • Resource Title: FOV5 Annotations.

    File Name: FOV5.ONT.Miseq.polished.augustus.gz

  • Resource Title: FOV8 Annotations.

    File Name: FOV8.ONT.Miseq.polished.augustus.gz

  • Resource Title: FOV1 Annotations.

    File Name: FOV1.ONT.Miseq.polished.augustus.gz




Data contact name

Zeller, Kurt

Data contact email


Ag Data Commons

Temporal Extent Start Date



  • Not specified

Geographic Coverage


ISO Topic Category

  • biota
  • farming

National Agricultural Library Thesaurus terms

races; Fusarium oxysporum f. sp. vasinfectum; vascular wilt; cotton; nucleotide sequences; public health; pathogens; pests; phylogeny; nanopores; genes; prediction; genomics

OMB Bureau Code

  • 005:32 - Animal and Plant Health Inspection Service

Primary article PubAg Handle

Pending citation

  • No

Public Access Level

  • Public

Preferred dataset citation

Srivastava, Subodh K.; Zeller, Kurt (2022). Annotation Data from: Genome Resources of Four Distinct Pathogenic Races Within Fusarium oxysporum f. sp. vasinfectum that Cause Vascular Wilt Disease of Cotton. Ag Data Commons.

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