Table 2

Rolling circle amplification padlock probes and padlock probe-specific primers used in this study

OrganismPadlock probe or RCA primer nameSequencea
RCA15′-ATGGGCACCGAAGAAGCA-3′
RCA25′-CGCGCAGACACGATA-3′
C. guyanensisGuyaRCA5′-P-TACAAGAGTTTGTGGTTGGGGgatcatgcttcttcggtgcccatt acgaggtgcggatagctaccgcgcagacacgatagtctaAACTCAGACGACACGTTTAAG-3′
C. laciniataLaciRCA5′-P-TGCGGGGCGGCGGGCCTgatcatgcttcttcggtgcccatt acgaggtgcggatagctaccgcgcagacacgatagtctaCCCGGCGGCCACCCCT-3′
C. pluriseptataPlurRCA5′-P-GCGGCGGGCCTGCCGAAGgatcatgcttcttcggtgcccatt acgaggtgcggatagctaccgcgcagacacgatagtctaCCCGGTGAGGGGGAGGTT-3′
C. vermisporaVermRCA5′-P-GCTCCTCGCGGGGCGGCgatcatgcttcttcggtgcccatt acgaggtgcggatagctaccgcgcagacacgatagtctaGGACCCCCGGCGGCT-3′
P. europaeaEuroRCA5′-P-GGACCCCCGGCGGCCTCgatcatgcttcttcggtgcccatt acgaggtgcggatagctaccgcgcagacacgatagtctaGGGCCCGGGGTCCTTGC-3′
P. oxysporaOxysRCA5′-P-CCAGCGGGCCTGCCGAAGCgatcatgcttcttcggtgcccatt acgaggtgcggatagctaccgcgcagacacgatagtctaCCGGGCCCCAAAGGGACA-3′
P. reptansReptRCA5′-P-GTCCAACAACAAGCCGGGCTgatcatgcttcttcggtgcccatt acgaggtgcggatagctaccgcgcagacacgatagtctaCGCGAAGCTCCCGCCGG-3′
  • a P at the 5′ end of the probe indicates 5′ phosphorylation. The underlined uppercase sequences are the species-specific binding arms of the padlock probes. The padlock probe core consisting of the linker region and the RCA primer binding sites is shown in lowercase letters, linking to the 5′ (italic letters) and 3′ (roman letters) binding arms of the probes.