Transcriptome responses of an ungrafted Phytophthora root rot tolerant avocado (Persea americana) rootstock to flooding and Phytophthora cinnamomi

Table 1 Summary of the differentially expressed avocado transcripts^a

Comparison	FI vs C	I vs C	F vs C	FI vs I	F vs I	F vs FI
22 h
Up-regulated	1134	4	1010	1057	954	0
Down-regulated	779	0	769	795	814	0
Ratio	1.46	na	1.31	1.33	1.17	na
r	−0.43	0.89	−0.38	−0.39	−0.38	0.90
48 h
Up-regulated	1217	16	1230	1129	0	1200
Down-regulated	1068	10	1000	1047	1	1006
Ratio	1.14	1.6	1.23	1.08	0	1.19
r	−0.55	0.86	−0.55	−0.48	0.90	−0.51
	22 vs 48 h (FI)	22 vs 48 h (I)	22 vs 48 h (C)	22 vs 48 h (F)
Up-regulated	45	30	0	7
Down-regulated	25	32	8	11
Ratio	1.8	0.94	0	0.64
r	0.80	0.82	0.90	0.82

^aAny duplicate probes were removed before calculating the number of significantly expressed transcripts. Comparisons are separated into time-points, with the number of up-regulated and down-regulated transcripts (Adj. P-value <0.05, log₂fold change >1 or < -1) shown for each comparison. Comparisons between time-points are also shown. The ratio of up-regulated to down-regulated genes is indicated. The Pearson correlation coefficient (r) is indicated for each comparison. Flooded and infected (FI), infected (I), flooded (F), and control (C)

ISSN: 1471-2229