- freely available
Genes 2012, 3(1), 88-89; https://doi.org/10.3390/genes3010088
- In section 2.3 of our paper , we wrote “for three of the genes (efp, glnA and gyrB) we were unable to build valid multiple sequence alignments because of a lack of orthologues with detectable nucleotide sequence similarity. For example, blastn searches against the NCBI non-redundant nucleotide database, using X. albilineans gyrB (XALc_0004) as the query, yielded no significant matches in Xylella species”. This statement was misleading as there are in fact orthologues of efp, glnA and gyrB in species of both Xanthomonas and Xylella.
- In section 2.3 of our paper , we wrote “Second, Pieretti’s analysis … appears to be partly based on alignments of non-orthologous gene sequences (e.g. their gyrB sequences are not orthologous between Xylella and Xanthomonas species)”. This statement was incorrect; there is no evidence to suggest that any non-orthologous sequences were aligned in the phylogenetic analyses performed by Pieretti et al. .
- In section 2.4 of our paper  we wrote “the last common ancestor of X. albilineans and Xylella fastidiosa was also the ancestor of the other xanthomonads”. In fact it remains unanswered whether or not Xylella forms a monophyletic group with X. albilineans and the other Group 1 Xanthomonas species. Therefore, it would be more appropriate to write that the last common ancestor of X. albilineans and Xylella fastidiosa may have been also the ancestor of the other xanthomonads.
- Studholme, D.J.; Wasukira, A.; Paszkiewicz, K.; Aritua, V.; Thwaites, R.; Smith, J.; Grant, M. Draft Genome Sequences of Xanthomonas sacchari and Two Banana-Associated Xanthomonads Reveal Insights into the Xanthomonas Group 1 Clade. Genes 2011, 2, 1050–1065. [Google Scholar] [CrossRef]
- Pieretti, I.; Royer, M.; Barbe, V.; Carrere, S.; Koebnik, R.; Cociancich, S.; Couloux, A.; Darrasse, A.; Gouzy, J.; Jacques, M.A.; Lauber, E.; Manceau, C.; Mangenot, S.; Poussier, S.; Segurens, B.; Szurek, B.; Verdier, V.; Arlat, M.; Rott, P. The complete genome sequence of Xanthomonas albilineans provides new insights into the reductive genome evolution of the xylem-limited Xanthomonadaceae. BMC Genomics 2009, 10, 616. [Google Scholar]
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