Genome-based population structure analysis of the strawberry plant pathogen Xanthomonas fragariae reveals two distinct groups that evolved independently before its species description

Gétaz, Michael; Krijger, Marjon; Rezzonico, Fabio; Smits, Theo; van der Wolf, Jan M.; Pothier, Joël F.

doi:10.1099/mgen.0.000189

Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-3746

Publication type:	Article in scientific journal
Type of review:	Peer review (publication)
Title:	Genome-based population structure analysis of the strawberry plant pathogen Xanthomonas fragariae reveals two distinct groups that evolved independently before its species description
Authors:	Gétaz, Michael Krijger, Marjon Rezzonico, Fabio Smits, Theo van der Wolf, Jan M. Pothier, Joël F.
DOI:	10.1099/mgen.0.000189 10.21256/zhaw-3746
Published in:	Microbial Genomics
Volume(Issue):	4
Issue:	7
Issue Date:	2018
Publisher / Ed. Institution:	Microbiology Society
ISSN:	2057-5858
Language:	English
Subject (DDC):	572: Biochemistry 634: Orchards, fruits and forestry
Abstract:	Xanthomonas fragariae is a quarantine organism in Europe, causing angular leaf spots on strawberry plants. It is spreading worldwide in strawberry-producing regions due to import of plant material through trade and human activities. In order to resolve the population structure at the strain level, we have employed high-resolution molecular typing tools on a comprehensive strain collection representing global and temporal distribution of the pathogen. Clustered regularly interspaced short palindromic repeat regions (CRISPRs) and variable number of tandem repeats (VNTRs) were identified within the reference genome of X. fragariae LMG 25863 as a potential source of variation. Strains from our collection were whole-genome sequenced and used in order to identify variable spacers and repeats for discriminative purpose. CRISPR spacer analysis and multiple-locus VNTR analysis (MLVA) displayed a congruent population structure, in which two major groups and a total of four subgroups were revealed. The two main groups were genetically separated before the first X. fragariae isolate was described and are potentially responsible for the worldwide expansion of the bacterial disease. Three primer sets were designed for discriminating CRISPR-associated markers in order to streamline group determination of novel isolates. Overall, this study describes typing methods to discriminate strains and monitor the pathogen population structure, more especially in the view of a new outbreak of the pathogen.
URI:	https://digitalcollection.zhaw.ch/handle/11475/6990
Related research data:	https://www.ebi.ac.uk/ena/browser/view/PRJEB25730
Fulltext version:	Accepted version
License (according to publishing contract):	CC BY-NC 4.0: Attribution - Non commercial 4.0 International
Departement:	Life Sciences and Facility Management
Organisational Unit:	Institute of Natural Resource Sciences (IUNR)
Published as part of the ZHAW project:	DROPSA: Strategies to develop effective, innovative and practical approaches to protect major European fruit crops from pests and pathogens
Appears in collections:	Publikationen Life Sciences und Facility Management

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Gétaz, M., Krijger, M., Rezzonico, F., Smits, T., van der Wolf, J. M., & Pothier, J. F. (2018). Genome-based population structure analysis of the strawberry plant pathogen Xanthomonas fragariae reveals two distinct groups that evolved independently before its species description. Microbial Genomics, 4(7). https://doi.org/10.1099/mgen.0.000189

Gétaz, M. et al. (2018) ‘Genome-based population structure analysis of the strawberry plant pathogen Xanthomonas fragariae reveals two distinct groups that evolved independently before its species description’, Microbial Genomics, 4(7). Available at: https://doi.org/10.1099/mgen.0.000189.

M. Gétaz, M. Krijger, F. Rezzonico, T. Smits, J. M. van der Wolf, and J. F. Pothier, “Genome-based population structure analysis of the strawberry plant pathogen Xanthomonas fragariae reveals two distinct groups that evolved independently before its species description,” Microbial Genomics, vol. 4, no. 7, 2018, doi: 10.1099/mgen.0.000189.

GÉTAZ, Michael, Marjon KRIJGER, Fabio REZZONICO, Theo SMITS, Jan M. VAN DER WOLF und Joël F. POTHIER, 2018. Genome-based population structure analysis of the strawberry plant pathogen Xanthomonas fragariae reveals two distinct groups that evolved independently before its species description. Microbial Genomics. 2018. Bd. 4, Nr. 7. DOI 10.1099/mgen.0.000189

Gétaz, Michael, Marjon Krijger, Fabio Rezzonico, Theo Smits, Jan M. van der Wolf, and Joël F. Pothier. 2018. “Genome-Based Population Structure Analysis of the Strawberry Plant Pathogen Xanthomonas Fragariae Reveals Two Distinct Groups That Evolved Independently before Its Species Description.” Microbial Genomics 4 (7). https://doi.org/10.1099/mgen.0.000189.

Gétaz, Michael, et al. “Genome-Based Population Structure Analysis of the Strawberry Plant Pathogen Xanthomonas Fragariae Reveals Two Distinct Groups That Evolved Independently before Its Species Description.” Microbial Genomics, vol. 4, no. 7, 2018, https://doi.org/10.1099/mgen.0.000189.