Table 1. Seven expressed RXLR effectors showed Avr3b polymorphism.

Name	DGEa	Affya	ESTa	SP HMM valueb	SP Lengthb	RXLRc	dEERc	P7064d	P7074d	P7076d
Avh6		+		0.998	25	RFLR	DNEER	Polymorphic	None	None
Avh20		+		1.000	21	RLLR	DNEEER	Identical	Polymorphic	Polymorphic
Avh113	+	+		1.000	20	RFLR	EER	Identical	Polymorphic	Polymorphic
Avh238	+	+	+	0.999	19	RFLR	DGKTEER	Identical	Polymorphic	Polymorphic
Avh258	+			1.000	24	RHLK	DLTAESEER	Identical	Polymorphic	Polymorphic
Avh288	+	+	+	0.999	20	RRLK	DLTAHEEER	Identical	Polymorphic	Polymorphic
Avh307	+			1.000	17	RSLR	EER	Identical	Polymorphic	Polymorphic

a: Identification of expressed RXLR effectors by examination of three kinds of gene expression data: DGE, digital gene expression data generated by Solexa sequencing [35]; Affy, soybean Affymetrix array data [12], [31]; and ESTs [61], the expression sequence tags were obtained by BLAST in VBI P. sojae unigenes (VBI microbial database). “+” indicates that transcripts of the gene were detectable using the method. All these data were derived from P. sojae strain P6497 (Rps3b avirulent). b: SP HMM (signal peptide prediction HMM probability) and SP length (signal peptide) were predicted using SignalP v3.0 (http://www.cbs.dtu.dk/services/SignalP/). c: RXLR and dEER motifs were previously bioinformatically identified [42]. d: The sequences of RXLR effectors were obtained from three P. sojae lineages (P7064, P7074, and P7076) using 454 genome sequencing assembly (VBI microbial database)[31]; P7064 is an Avr3b avirulent lineage, and P7074 and P7076 are Avr3b virulent lineages. The translated amino acid sequences were compared with RXLR effectors in P6497. Polymorphism results defined as “identical” means that the amino acid sequences were perfectly identical; “none” means that the gene was missing in the genome assembly; and “polymorphic” represents mutations including SNPs, insertion, or deletion.