Unfoldome variation upon plant-pathogen interactions: strawberry
infection by Colletotrichum acutatum
Elena Baraldi, Emanuela Coller, Lisa Zoli, Alessandro Cestaro, Silvio C. E. Tosatto,
Barbara Zambelli
SUPPLEMENTARY MATERIALS
Table SI-1 Details of oligo-probes analysis in F. vesca genome and gene predictions,
which produced the dataset of 8,896 genes, as reported in the text.
Probes
a
Matching with gene prediction a
29,760
F. vesca
24,718
F. x ananassa
4,854
M. domestica
188
Ambiguously matching with genome
11,582
Single alignment b
8,622
Multiple alignments c
2,960
No matchingd
9,114
Probes that align with a single position on the genome of one specie, associated to a
single gene prediction.
b
Probes that map on single genome regions without gene prediction.
c
Probes that align with more than one position on the genome, associated with different
gene predictions.
d Probes
that have no alignment on genome.
Table SI-2 provided in the file: Table_S-2.xls
F. vesca protein sequences, divided in the four sub-datasets WI/WH, RH/RI, WH/RH,
WI/RI (each one in a different worksheet), coded by differentially expressed genes
originated from the microarray analysis, as described in the text. Disorder prediction using
ESpritz and IUPRED is reported for infection datasets (WI/WH and RI/RH). Protein
sequences that show at least one long disordered sequence (≥30 consecutive disordered
residues) are highlighted in green. The proteins chosen for subsequent biochemical
studies are in red.
Table SI-3 Comparison of the expression profile of genes found in the present microarray
actualization and those reported in {Guidarelli, 2011 #3}.
Protein named
Expression
TIGR
Gene
dataa
codeb
codec

CO378880
28093
Trans-cinnamate 4-monooxygenase

AF041401
12591
Anthocyanidin 3-O-glucosyltransferase 2

AF041402
14611
Naringenin,2-oxoglutarate 3-dioxygenase

DY667879
02269
WRKY transcription factor 65

CO381295
32370
HMGCoA synthase

CO816979
15533
Acetyl-CoA acetyl transferase

EX659614
00244
Glycogenin 2GN2
WH/RH
WI/WH &
RI/RH
a Indicates
b Code
c
over-expressed proteins,  Indicates under-expressed proteins.
reported in {Guidarelli, 2011 #3}.
Gene prediction referred to the strawberry genome (F. vesca genome v1.0 hybrid- as
described in this work).
c
Protein name, as derived from this work, referred to the F. vesca genome.
Table SI-4 - Disorder abundance among proteins of WI/WH and RI/RH datasets,
expressed as a percentage of residues predicted as disordered (ID residues), and of
proteins containing long disordered sequences (LDS). Predictions were made using
different ESpritz tools and IUPRED, and compared to the average values calculated for
the entire F. vesca genome, reported in the D2P2 database {Oates, 2013 #79}.
Figure SI-1 SDS-PAGE of FAM32A-like, PCD-4, SMP and PRKRIP purified proteins. The
proteins were stained with Coomassie Brilliant Blue R-250.