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Genome Resource of Barley Bacterial Blight and Leaf Streak Pathogen Xanthomonas translucens pv. translucens strain UPB886

    Affiliations
    Authors and Affiliations
    • Verónica Roman-Reyna1 2
    • Emily K. Luna3
    • Céline Pesce4 5 6
    • Taca Vancheva4 5
    • Christine Chang7
    • Janet Ziegle7
    • Claude Bragard5
    • Ralf Koebnik4
    • Jillian M. Lang3
    • Jan E. Leach3
    • Jonathan M. Jacobs1 2
    1. 1Department of Plant Pathology, The Ohio State University, Columbus, OH, U.S.A.
    2. 2Infectious Disease Institute, The Ohio State University, Columbus, OH, U.S.A.
    3. 3Department of Bioagricultural Sciences and Pest Management, Colorado State University, Fort Collins, CO, U.S.A.
    4. 4IRD, Cirad, Université de Montpellier, IPME, Montpellier, France
    5. 5Earth & Life Institute, Université Catholique Louvain-la-Neuve, Louvain-la-Neuve, Belgium
    6. 6Department of Molecular, Cellular, and Biomedical Sciences, University of New Hampshire, Durham, NH, U.S.A.
    7. 7Pacific Biosciences, Menlo Park, CA, U.S.A.

    Published Online:https://doi.org/10.1094/PDIS-05-19-1103-A

    Abstract

    Xanthomonas translucens pv. translucens causes bacterial leaf streak and bacterial blight diseases of barley. This pathogen limits barley production globally but remains understudied, with limited genomic resources. To better understand the biology of this X. translucens subgroup, we sequenced the complete genome of the X. translucens pv. translucens strain UPB886.

    Genome Announcement

    The plant-pathogenic bacterial species Xanthomonas translucens cause diseases of cereals, grasses, and even some dicots (Facelli et al. 2009; Jones et al. 1916). The pathovar translucens within X. translucens is most often associated with barley infection. X. translucens pv. translucens is not a wheat pathogen but has been previously isolated from wheat leaves (Bragard et al. 1997; Curland et al. 2018). X. translucens pv. translucens has been reported on all continents and is genetically diverse, comprising three subgroups (A, B, and C) based on phylogeny of concatenated housekeeping genes (Curland et al. 2018). Here, we describe the complete genome sequence of the X. translucens pv. translucens group C strain UPB886 for a better comparative understanding of X. translucens host adaptation and biology.

    X. translucens pv. translucens UPB886 was isolated from barley in Iran in 1990 (Alizadeh et al. 1995). We validated that strain UPB886 has pathogenic virulence on barley but not on spring wheat (pathogenicity test not shown). DNA was extracted by a standard phenol/chloroform method (Booher et al. 2015). Strain UPB886 genomic DNA was sequenced using long-read, single-molecule real-time sequencing and assembled using HGAP v4 (PacBio, Menlo Park, CA, U.S.A.). Functional annotation of the two assembled contigs was done using Prokka v1.13.3, and secreted proteins were predicted based on SignalP algorithm as part of Prokka analysis (Petersen et al. 2011; Seemann 2014). Whole-genome comparison based on average nucleotide identity confirmed that this strain belonged to the X. translucens pv. translucens subgroup C and had a high degree of synteny with other X. translucens genomes (Table 1) (data not shown) (Curland et al. 2018; Rodriguez-R and Konstantinidis 2016).

    Table 1. Complete genomes summary of Xanthomonas translucens pvs. undulosa and translucens

    The X. translucens pv. translucens UPB886 genome encoded typical virulence factors found in Xanthomonas spp. The genome has 15 genes encoding extracellular plant cell-wall-degrading enzymes, 7 genes involving in copper resistance cluster, and 21 genes related to the type II secretion system. Type III secretion is critical for X. translucens pv. translucens pathogenesis (Pesce et al. 2017), and the strain UPB886 genome encoded 41 conserved type III-secreted proteins including transcriptional activator-like effectors (TALEs). The strain UPB886 genome had five TALEs (Table 2); three were shared with other X. translucens and assigned to classes TalCV, TalDD, and TalCT. The remaining two TALEs were unique to strain UPB886 and belong to classes TalAJ and TalEU (Falahi Charkhabi et al. 2017; Grau et al. 2016; Peng et al. 2016). X. translucens pv. translucens UPB886 provides a genomic resource to advance X. translucens research. This resource will allow further genetic diversity studies to understand the mechanisms underlying disease development, improve tools for diagnostics, and assist barley breeding programs.

    Table 2. RVD sequences of Xanthomonas translucens pvs. undulosa and translucens

    The whole genome was deposited at GenBank under BioSample accession number SAMN11831831.

    The author(s) declare no conflict of interest.

    Literature Cited

    The author(s) declare no conflict of interest.

    Funding: Funding was provided by the United States Department of Agriculture (USDA) National Institute of Food and Agriculture (NIFA) award number 2018-67013-28490 through the joint National Science Foundation-NIFA Plant Biotic Interactions Program to J. M. Jacobs, J. E. Leach, and J. M. Lang and a USDA-NIFA postdoctoral fellowship award number 2017-67012-26116, a Fulbright Scholar Award to Belgium, to J. M. Jacobs. This article is based upon work from COST Action CA16107 EuroXanth, supported by COST (European Cooperation in Science and Technology).