Genomic characterization of plant cell wall degrading enzymes and in silico analysis of xylanses and polygalacturonases of Fusarium virguliforme

Table 3 Orthologous GH11 xylanases and GH28 polygalacturonases of Fusarium virguliforme

Gene Name^a	Gene ID^a	E value^a	qRT-PCR Primer Sequence^a	Amplicon^a	Tm (°C)^{b a}	AE^{c a}	R^2a
GH11 xylanase
FvXyn11A	g5088	1.0 × 10^-77	F- CTGTCATCACTACCCGAAGAC	104 bp	61.4	0.648	0.99
FvXyn11A	g5088	1.0 × 10^-77	R- CTGGGCTCGTTTGACTACAT	104 bp	61.7	0.648	0.99
FvXyn11B	g7311	6.0 × 10^-73	F- TCAACGCCTGGAAGAATGTC	100 bp	62.2	0.702	1.00
FvXyn11B	g7311	6.0 × 10^-73	R- ACAGTCATGGTGGCAGAAC	100 bp	61.9	0.702	1.00
GH28 polygalacturonase
FvPG1	g9942	5.0 × 10^-58	F- AAACGGCGGCAAGAAGAA	91 bp	62.3	0.802	0.98
FvPG1	g9942	5.0 × 10^-58	R- GACGGGCGTGTTCTTGATATAG	91 bp	62.3	0.802	0.98
FvPG2	g13315	1.0 × 10^-68	F- CCACTCTCTCAAGAACTCCAAC	110 bp	61.9	0.888	0.97
FvPG2	g13315	1.0 × 10^-68	R- CGAGATGAACATCGTAGACACC	110 bp	61.9	0.888	0.97
Reference gene
FvEF1A	g4748	0.0	F- GGGTAAGGAGGAGAAGACTCA	98 bp	62.0	0.748	1.00
FvEF1A	g4748	0.0	R- CACCGCACTGGTAGATCAAG	98 bp	62.0	0.748	1.00

^aE value for F. virgulifrome gene to query: P.funiculosum GH11 xylanase XYNC (Q9HFH0), F. phyllophilum FpPG (AAA74586.1), and F. graminearum EF1A (FGSG_08811.3) by BLASTN
^bTm of each primer was calculated by IDT Oligo Analyzer 3.1 with settings: 50 mM Na⁺, 3 mM Mg²⁺, 1 mM dNTP, and 200nM oligo
^cAmplification efficiency

ISSN: 1471-2180