Table 1.

Genes selected for initial studies of pH regulation in T. virens

Protein ID	Sequence	Function	Species
40391	s ACGCCGAGACGCTCTATGAAC	Transcription factor PacC	T. virens, this study
	as GGTGGTGCGACAAGAGTTCC
33825	s CGAGACAGACCAGGGAGAGC	L-ornithine N5-monooxygenase SidA (2.5E-124)	Aspergillus nidulans
	as GAGTGTCGCTCAACCCATGA
43838	s GTTGGGTACAACGGCTTGGA	Siderophore-transporter (9.02E-57)	Aspergillus nidulans
	as CAAGAAGGCGTTGGAGATGG
111866	s CCGATTTGGTGGCTTCAGAT	Chitinase (0)	Trichoderma harzianum
	as ATTGGTGCCGACATCATTCC
67662	as ATTGGTGCCGACATCATTCC	ATPase, P-type (0)	Fusarium oxysporum
	s GCTGACCTCCGACTGATTGAAG
87714	as GCCAGTGGCATCATCAAAGA	Acid phosphatase (6.50E-95)	Aspergillus nidulans
	s GCCTTTGACCGCTTTGTTGT
53036	as AGTTGGGCTCAGAAGGGTGA	Alpha-L-arabinofuranosidase (0)	Aspergillus nidulans
	s TTCGCCGAAGATGCTACGTT
59192	as ATGTGTGAACACCGCCATTG	P-ATPase	T. virens
	s CTGGCCGTCATTCTCCTCAA
	as GGGTTTCTGCCTTGACGGTA
72838	s CCAGGCACCAAGAATAAGGTCAT	Xylanase (8.00E-76)	Aspergillus nidulans
	as GCCAGTGGATGGGTTGTAGG
76958	s GTGTCATCTGGGTCGTTGGTT	Glucose permease (0)	Trichoderma harzianum
	as AGGGACCTGAGCAGATTCGAT
81777	s GCACCAGCAAACCGGAAGC	Aspartyl protease (0)	Trichoderma harzianum
	as GTAACCGGTGGCAGTGAAGC
86768	s GGTCTCGGTGTCGGTTTCG	High affinity sugar/H+ symporter (0)	Aspergillus niger
	as GCAAGAAGCGAGGAGGATACC

Candidate genes whose expression might depend on pH and/or PacC were chosen from published studies in Aspergillus nidulans[28], Fusarium oxysporum[5] and T. harzianum[35]. A T. virens P-type ATPase (ID 59192) was already available from a differential library for transcripts expressed preferentially in cultures grown on autoclaved R. solani material. Protein ID numbers refer to the T. virens v1.0 sequence. E values (in parentheses) are from BLASTP searches of the T. virens genome with the corresponding genes indicated in the next column (species, GenBank accession).