Effector identification in the lettuce downy mildew Bremia lactucae by massively parallel transcriptome sequencing
Article first published online: 1 FEB 2012
© 2012 THE AUTHORS. MOLECULAR PLANT PATHOLOGY © 2012 BSPP AND BLACKWELL PUBLISHING LTD
Molecular Plant Pathology
Volume 13, Issue 7, pages 719–731, September 2012
How to Cite
STASSEN, J. H. M., SEIDL, M. F., VERGEER, P. W. J., NIJMAN, I. J., SNEL, B., CUPPEN, E. and VAN DEN ACKERVEKEN, G. (2012), Effector identification in the lettuce downy mildew Bremia lactucae by massively parallel transcriptome sequencing. Molecular Plant Pathology, 13: 719–731. doi: 10.1111/j.1364-3703.2011.00780.x
- Issue published online: 26 JUL 2012
- Article first published online: 1 FEB 2012
Fig. S1 Phylogenetic relationship between NLPs [necrosis and ethylene-inducing peptide 1 (NEP1)-like proteins] from various oomycete plant pathogens. Four of the NLPs in the Bremia lactucae secretome provided full-length NLP domain matches and are included in the main tree, indicated in purple. The positions of fragments of the domains found in the complete B. lactucae transcriptome were determined separately (indicated in the main tree by stars), as they are difficult to locate based on the alignment of the full-length domain. Bremia lactucae NLPs are spread more widely across the oomycete NLP gene tree than are the Hyaloperonospora arabidopsidis NLPs (indicated in bold as clade or individual common names), and do not fall within H. arabidopsidis or Pythium ultimum subclades. Bremia lactucae NLPs cluster close to the two H. arabidopsidis NLPs outside of the H. arabidopsidis-specific subclade. NLP names indicated in blue belong to NLPs that have been shown to induce necrosis when expressed in tobacco leaves. Scale bar indicates 0.1 substitutions per amino acid. Stars indicate the location of subtrees that contain short fragments (incomplete assembly) of Bremia NLPs that were assessed separately.
Table S1 Number of reads from spore and infection sequencing pools per contig for those that show a five-fold or greater difference in the number of reads between spore and infection stages as determined from 5′ end sequences of the non-normalized sequencing pools. Differential expression was observed for contigs corresponding to protein models of all the indicated categories, except for those encoding for DnaJ domain proteins and NLPs [necrosis and ethylene-inducing peptide 1 (NEP1)-like proteins] for which no difference in abundance was found.
Table S2 Versions and sources of genomes used for analysis.
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