Alternative splicing regulation appears to play a crucial role in grape berry development and is also potentially involved in adaptation responses to the environment

Table 1 Genes showing similar splicing regulation between Gw and Ri during the whole developmental period examined

			IL - Gw				ILD - Gw			IL - Ri				ILD - Ri
Gene ID^a	GENE NAME – biological process/function	AS^b (region)^c	S1	S2	S3	S4	S1 vs S2 (FDR)	S2 vs S3 (FDR)	S3 vs S4 (FDR)	S1	S2	S3	S4	S1 vs S2 (FDR)	S2 vs S3 (FDR)	S3 vs S4 (FDR)
Vitvi04g00220	E3 UBIQUITIN LIGASE	IR (3’UTR)	_	0.20	0.35	_	_	−0.15 (3.4 E-02)	_	_	0.15	0.30	0.69	_	−0.15 (5.1 E-02)	−0.40 (3.8 E-12)
Vitvi05g00755	*XBAT35* – protein ubiquitination	ES (CDS)	_	0.38	0.22	0.09	_	0.15 (6.9 E-02)	0.14 (5.4 E-05)	_	0.41	0.22	0.07	_	0.19 (2.7 E-04)	0.15 (1.7 E-06)
Vitvi08g01266	*PRA1* – intracellular transport	A3SS (3’UTR)	_	0.59	0.77	_	_	−0.18 (3.3 E-03)	_	_	0.74	0.83	0.95	_	−0.09 (1.6 E-02)	−0.12 (1.3 E-03)
Vitvi09g00196	*RNP1* – RNA processing/splicing	IR (5’UTR)	_	_	0.42	0.26	_	_	0.16 (1.3 E-03)	_	0.54	0.35	_	_	0.20 (2.0 E-03)	_
Vitvi12g00303	*MAN2* – metabolic process	ES (5’UTR)	0.58	0.38	_	_	0.21 (2.9 E-02)	_	_	0.53	0.33	_	_	0.20 (2.2 E-02)	_	_
Vitvi12g00303	*MAN2* – metabolic process	IR (5’UTR)	_	_	0.90	0.74			0.16 (1.3 E-02)	_	_	0.87	0.65	_	_	0.22 (5.6 E-03)
Vitvi19g00539	*CNOT9* – transcription/translation	ES (CDS)	_	0.46	0.15	_	_	0.32 (6.4 E-03)	_	_	0.28	0.09	_	_	0.19 (4.8 E-05)	_

The examined stages were S1 (green berry at 6 weeks post-flowering), S2 (hard berry at mid-véraison), S3 (soft berry at mid-véraison) and S4 (mid-ripening). The values of IL and ILD (significant at FDR ≤ 0.05) were means of three biological replicates
^aaccording to the VCost.v3 genome annotation
^bAS type, comprising A3SS, A5SS, ES and IR events
^cregion affected by the AS event (3′-UTR, 5′-UTR or CDS)

ISSN: 1471-2229