Table 1 Primers and PCR conditions for identifying Encephalitozoon spp. by targeting the ITS region, Cryptosporidium spp. by targeting the SSU rRNA gene, and G. duodenalis by targeting the bg gene

Encephalitozoon spp.

ITS

MSP-1

TGAATG(G/T)GTCCCTGT

~ 300

94 °C for 3 min; 35 cycles of 94 °C for 45 s, 58 °C for 45 s, and 72 °C for 1 min; 72 °C for 7 min

[31]

MSP-2 A

TCACTCGCCGCTACT

MSP-3

GGAATTCACACCGCCCGTC(A/G)(C/T)TAT

MSP-4 A

CCAAGCTTATGCTTAAGT(C/T)(A/C)AA(A/G)GGGT

Cryptosporidium spp.

SSU rRNA

F1

TTCTAGAGCTAATACATGCG

830

94 °C for 3 min; 35 cycles of 94 °C for 45 s, 55 °C for 45 s, and 72 °C for 1 min; 72 °C for 7 min

[33, 34]

R1

CCCATTTCCTTCGAAACAGGA

F2

GGAAGGGTTGTATTTATTAGATAAAG

R2

AAGGAGTAAGGAACAACCTCCA

Giardia duodenalis

bg

bg-F1

AAGCCCGACGACCTCACCCGCAGTGC

511

95 °C for 15 min; 35 cycles of 95 °C for 30 s, 55 °C for 30 s, and 72 °C for 1 min; 72 °C for 7 min

[32]

bg-R1

GAGGCCGCCCTGGATCTTCGAGACGAC

bg-F2

GAACGAGATCGAGGTCCG

bg-R2

CTCGACGAGCTTCGTGTT

E. bieneusi

ITS

EBITS3

GGTCATAGGGATGAAGAG

390

94 °C for 3 min; 35 cycles of 94 °C for 30 s, 57 °C (55 °C for 2nd PCR) for 30 s, and 72 °C for 40 s; 72 °C for 10 min

[35]

EBTIS4

TTCGAGTTCTTTCGCGCTC

EBITS1

GCTCTGAATATCTATGGCT

EBITS2.4

ATCGCCGACGGATCCAAGTG