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Table 6 Primers and thermal profiles used for real-time quantitative PCR of the different nitrifying and denitrifying genes in bacterial communities in a calcareous desert soil

From: Saline and alkaline stresses alter soil properties and composition and structure of gene-based nitrifier and denitrifier communities in a calcareous desert soil

Target gene

Primer

Sequence (5′–3′)

Thermal profile

References

amoA-AOA

Arch-amoAF

5′-STAATGGTCTGGCTTAGACG-3’

95 °C for 5 min; 40 cycles of 95 °C for 10 s, 55 °C for 20 s, and 72 °C for 30 s.

Hu et al. [78]

Arch-amoAR

5′-GCGGCCATCCATCTGTATGT-3’

amoA-AOB

amoA-1F

5′-GGGGTTTCTACTGGTGGT-3’

95 °C for 5 min; 40 cycles of 95 °C for 10 s, 55 °C for 20 s, and 72 °C for 30 s.

Ebie et al. [79]

amoA-2R

5′- CCCCTCKGSAAAGCCTTCTTC − 3’

nirK

F1aCu

5′-ATCATGGTSCTGCCGCG-3′

95 °C 2 min, 1 cycle; 95 °C 20 s, 63 °C 30 s, 72 °C 30 s, 85 °C 10 s, 35 cycles.

Hallin and Lindgren [80]

R3Cu

5′-GCCTCGATCAGRTTGTGGTT-3′

nirS

cd3aF

5′-GTSAACGTSAAGGARACSGG-3’

95 °C 2 min, 1 cycle; 95 °C 45 s, 55 °C 45 s, 72 °C 45 s, 85 °C 20 s, 40 cycles.

Dong et al. [81]

R3cd

5′-GASTTCGGRTGSGTCTTGA-3’

nosZ

nosZ-1126F

5′-GGGCTBGGGCCRTTGCA-3’

95 °C 2 min, 1 cycle; 95 °C 20 s, 60 °C 30 s, 72 °C 30 s, 40 cycles.

Wu et al. [82]

nosZ-1381R

5′-GAAGCGRTCCTTSGARAACTTG-3’