Genomics-informed design of loop-mediated isothermal amplification for detection of phytopathogenic Xanthomonas arboricola pv. pruni at the intraspecific level
Version of Record online: 2 JUL 2012
© 2012 The Authors. Plant Pathology © 2012 BSPP
Volume 62, Issue 2, pages 475–484, April 2013
How to Cite
Bühlmann, A., Pothier, J. F., Tomlinson, J. A., Frey, J. E., Boonham, N., Smits, T. H. M. and Duffy, B. (2013), Genomics-informed design of loop-mediated isothermal amplification for detection of phytopathogenic Xanthomonas arboricola pv. pruni at the intraspecific level. Plant Pathology, 62: 475–484. doi: 10.1111/j.1365-3059.2012.02654.x
- Issue online: 7 MAR 2013
- Version of Record online: 2 JUL 2012
Figure S1 Genomics-informed LAMP assay development approach followed in this study. Each box represents a single step in the search for reliable, selective diagnostic targets.
Figure S2 Phylogenetic tree obtained using MEGAv. 4·0 (Tamura et al., 2007) using neighbour-joiningmethod. The tree is based on trimmed gyrB DNA sequences ofthe 34 Xanthomonas strains used for specificity tests tovisualize genetic relatedness of the chosen strains. Robustness ofthe tree was confirmed by bootstrap test (1000 replicates) withbootstrap values indicated on branches. Scale bar indicatespercentage divergence. Sequences used were obtained from GenBank.Multiple pathovars tested are shown only once for simplicity (e.g.Xanthomonas arboricola pv. pruni, 29 strains; X.arboricola pv. corylina 12 strains). Several differentX. arboricola pv. corylina strains were tested because it has shown cross reactivity in qPCR and regular PCR assays.
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