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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’