TABLE 1.

SSU rRNA gene-specific LDR probes for differentiation of human malaria parasite species

Probea	Probe sequenceb	Lengthc
Polymorphica
Pf1	5′-TGT AGC ATT TCT TAG GGA ATG TTG ATT TTA TAT-3′	33
Pf2	5′-agg ccc ggc AAA AGT CAT CTT TCG AGG TGA CTT-3′	33
Pv	5′-gcc cgA AAA TAA GAA TTT TCT CTT CGG AGT TTA TTC-3′	36
Pm	5′-AAG AGA CAT TCT TAT ATA TGA GTG TTT CTT-3′	30
Po	5′-TAA GAA AAT TCC TTT CGG GGA AAT TTC-3′	27
Conserved
Common1	5′-/Phos/TAG AAT TGC TTC CTT CAG TAC CTT ATG-3′ Cy5	27
Common2	5′-/Phos/TTA GAT WGC TTC CTT CAG TRC CTT ATG-3′ Cy5	27

^aPolymorphic probe sequences are based on GenBank accession nos. M19173 for P. falciparum¹ (Pf1), M19172 for P. falciparum² (Pf2), U07367 for P. vivax (Pv), M54897 for P. malariae (Pm), and L48987 for P. ovale (Po). Conserved probe sequences are based on GenBank accession no. M19173 for Common1 and GenBank accession nos. M19172, U07367, M54897, and L48987 for Common2.

^bNucleotides in lowercase are nonspecific and were added to the rRNA gene LDR probes to reach a desired specific length. Nucleotide codes W and R correspond to T or A and G or A degeneracy, respectively.

^cLength in nucleotides.