A highly specific tool for identification of Xanthomonas vasicola pv. musacearum based on five Xvm-specific coding sequences

Gloria Valentine Nakato^{1

2}, Emmanuel Wicker^{3

4}, Teresa A Coutinho², George Mahuku^{1

5}, David J Studholme⁶

Affiliations

¹ Pathology, International Institute of Tropical Agriculture, P.O. Box 7878, Kampala, Uganda.
² Department of Microbiology and Plant Pathology, Centre for Microbial Ecology and Genomics (CMEG), Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X28, Pretoria 0028, South Africa.
³ UMR IPME, Univ Montpellier, CIRAD, IRD, Montpellier, France.
⁴ CIRAD, UMR "Interactions Plantes-Microorganismes-Environnement"(IPME), 911, Avenue Agropolis, BP 64501, F-34394 Montpellier Cedex 5, France.
⁵ International Institute of Tropical Agriculture (IITA), P.O. Box, 34443, Dar es Salaam, Tanzania.
⁶ Biosciences, University of Exeter, Geoffrey Pope Building, Stocker Road, Exeter EX4 4QD, United Kingdom.

PMID: 30603713
PMCID: PMC6307341
DOI: 10.1016/j.heliyon.2018.e01080

A highly specific tool for identification of Xanthomonas vasicola pv. musacearum based on five Xvm-specific coding sequences

Gloria Valentine Nakato et al. Heliyon. 2018.

. 2018 Dec 27;4(12):e01080.

doi: 10.1016/j.heliyon.2018.e01080. eCollection 2018 Dec.

Authors

Gloria Valentine Nakato^{1

2}, Emmanuel Wicker^{3

4}, Teresa A Coutinho², George Mahuku^{1

5}, David J Studholme⁶

Affiliations

¹ Pathology, International Institute of Tropical Agriculture, P.O. Box 7878, Kampala, Uganda.
² Department of Microbiology and Plant Pathology, Centre for Microbial Ecology and Genomics (CMEG), Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Private Bag X28, Pretoria 0028, South Africa.
³ UMR IPME, Univ Montpellier, CIRAD, IRD, Montpellier, France.
⁴ CIRAD, UMR "Interactions Plantes-Microorganismes-Environnement"(IPME), 911, Avenue Agropolis, BP 64501, F-34394 Montpellier Cedex 5, France.
⁵ International Institute of Tropical Agriculture (IITA), P.O. Box, 34443, Dar es Salaam, Tanzania.
⁶ Biosciences, University of Exeter, Geoffrey Pope Building, Stocker Road, Exeter EX4 4QD, United Kingdom.

PMID: 30603713
PMCID: PMC6307341
DOI: 10.1016/j.heliyon.2018.e01080

Erratum in

Corrigendum to "A highly specific tool for identification of Xanthomonas vasicola pv. musacearum based on five Xvm-specific coding sequences" [Heliyon 4 (12) (December 2018) Article e01080].
Nakato GV, Wicker E, Coutinho TA, Mahuku G, Studholme DJ. Nakato GV, et al. Heliyon. 2023 Mar 16;9(3):e14606. doi: 10.1016/j.heliyon.2023.e14606. eCollection 2023 Mar. Heliyon. 2023. PMID: 37101495 Free PMC article.

Abstract

Xanthomonas vasicola pv. musacearum (Xvm) is a bacterial pathogen responsible for the economically important Xanthomonas wilt disease on banana and enset crops in Sub-Saharan Africa. Given that the symptoms are similar to those of other diseases, molecular diagnosis is essential to unambiguously identify this pathogen and distinguish it from closely related strains not pathogenic on these hosts. Currently, Xvm identification is based on polymerase chain reaction (PCR) with GspDm primers, targeting the gene encoding general secretory protein D. Experimental results and examination of genomic sequences revealed poor specificity of the GspDm PCR. Here, we present and validate five new Xvm-specific primers amplifying only Xvm strains.

Keywords: Bioinformatics; Microbiology; Molecular biology; Plant biology.

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Figures

**Fig. 1**
a). Gel documentation results for the Avirulence protein (KFA14425.1) - Xvm specific primers on 32 *Xanthomonas* species to include *Xanthomonas vasicola* pv. *musacearum* (NCPPB 2005, 2251, 4378, 4379, 4380, 4381, 4383, 4384, 4386, 4387, 4388, 4389, 4390, 4391, 4392, 4393, 4394, 4395, 4433 and 4434); *Xanthomonas vasicola* pv. *vasculorum* (NCPPB (206, 795 and1381), 201500744NE, CO-5, KS-444); *Xanthomonas vasicola* pv. *holcicola* (NCPPB 989, 1241 and 2417); *Xanthomonas oryzae* pv. *oryzae* (CIX3 and 63) and *Xanthomonas campestris* pv. *cannabis* (NCPPB 2877). (b)*. Gel documentation results for the Avirulence protein (KFA05711.1) - Xvm specific primers on 32 Xanthomonas species to include Xanthomonas vasicola pv.* musacearum *(NCPPB 2005, 2251, 4378, 4379, 4380, 4381, 4383, 4384, 4386, 4387, 4388, 4389, 4390, 4391, 4392, 4393, 4394, 4395, 4433 and 4434); Xanthomonas vasicola pv.* vasculorum *(NCPPB (206, 795 and1381),* 201500744NE, CO-5, KS-444); Xanthomonas vasicola pv. holcicola (NCPPB 989, 1241 and 2417); Xanthomonas oryzae pv. oryzae *(CIX3 and 63) and Xanthomonas campestris pv.* cannabis *(NCPPB 2877).* (c). Gel documentation results for the FIS transcriptional regulator - Xvm specific primers on 32 *Xanthomonas* species to include *Xanthomonas vasicola* pv. *musacearum* (NCPPB 2005, 2251, 4378, 4379, 4380, 4381, 4383, 4384, 4386, 4387, 4388, 4389, 4390, 4391, 4392, 4393, 4394, 4395, 4433 and 4434); *Xanthomonas vasicola* pv. *vasculorum* (NCPPB (206, 795 and1381), 201500744NE, CO-5, KS-444); *Xanthomonas vasicola* pv. *holcicola* (NCPPB 989, 1241 and 2417); *Xanthomonas oryzae* pv. *oryzae* (CIX3 and 63) and *Xanthomonas campestris* pv. *cannabis* (NCPPB 2877). (d)*. Gel documentation results for the histone-like nucleoid structuring protein - Xvm specific primers on 32 Xanthomonas species to include Xanthomonas vasicola pv.* musacearum *(NCPPB 2005, 2251, 4378, 4379, 4380, 4381, 4383, 4384, 4386, 4387, 4388, 4389, 4390, 4391, 4392, 4393, 4394, 4395, 4433 and 4434); Xanthomonas vasicola pv.* vasculorum *(NCPPB (206, 795 and1381),* 201500744NE, CO-5, KS-444); Xanthomonas vasicola pv. holcicola (NCPPB 989, 1241 and 2417); Xanthomonas oryzae pv. oryzae *(CIX3 and 63) and Xanthomonas campestris pv.* cannabis *(NCPPB 2877).* (e). *Gel documentation results for the Xenobiotic response element - Xvm specific primers on 32 Xanthomonas species to include Xanthomonas vasicola pv.* musacearum *(NCPPB 2005, 2251, 4378, 4379, 4380, 4381, 4383, 4384, 4386, 4387, 4388, 4389, 4390, 4391, 4392, 4393, 4394, 4395, 4433 and 4434); Xanthomonas vasicola pv.* vasculorum *(NCPPB (206, 795 and1381),* 201500744NE, CO-5, KS-444); Xanthomonas vasicola pv. holcicola *(NCPPB 989, 1241 and 2417); Xanthomonas oryzae pv.* oryzae *(CIX3 and 63) and Xanthomonas campestris pv.* cannabis *(NCPPB 2877).*

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Cited by

Trends in Molecular Diagnosis and Diversity Studies for Phytosanitary Regulated Xanthomonas.
Catara V, Cubero J, Pothier JF, Bosis E, Bragard C, Đermić E, Holeva MC, Jacques MA, Petter F, Pruvost O, Robène I, Studholme DJ, Tavares F, Vicente JG, Koebnik R, Costa J. Catara V, et al. Microorganisms. 2021 Apr 16;9(4):862. doi: 10.3390/microorganisms9040862. Microorganisms. 2021. PMID: 33923763 Free PMC article. Review.
SNP-based genotyping and whole-genome sequencing reveal previously unknown genetic diversity in Xanthomonas vasicola pv. musacearum, causal agent of banana xanthomonas wilt, in its presumed Ethiopian origin.
Nakato GV, Studholme DJ, Blomme G, Grant M, Coutinho TA, Were EM, Wicker E, Mahuku G. Nakato GV, et al. Plant Pathol. 2021 Apr;70(3):534-543. doi: 10.1111/ppa.13308. Epub 2020 Nov 27. Plant Pathol. 2021. PMID: 33776147 Free PMC article.

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A highly specific tool for identification of Xanthomonas vasicola pv. musacearum based on five Xvm-specific coding sequences

Affiliations

A highly specific tool for identification of Xanthomonas vasicola pv. musacearum based on five Xvm-specific coding sequences

Authors

Affiliations

Erratum in

Abstract

Figures

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