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Table 2 Primers and PCR conditions used for TRFLP and amplification of surfactin and iturin from Bacillus sp. strain RMB7

From: Genetic, physiological and biochemical characterization of Bacillussp. strain RMB7 exhibiting plant growth promoting and broad spectrum antifungal activities

Gene/Antibiotic

Primer

Primer sequence (5’-3’)

PCR profile (30 cycles each)

Reference

16S rRNA

fD1rD1

AGAGTTTGATCCTGGCTCAG

Denaturing: 95’C 2 min.

[51]

Annealing: 55’C 30 sec.

AAGGAGGTGATCCAGCC

Extension: 72 °C 5’min.

Surfactin

Sfp-f

ATG AAG ATTTACGGAATTTA

Denaturing: 94 °C 1 min.

[52]

Annealing: 48 °C 1 min.

Sfp-r

TTATAAAAGCTCTTCGTACG

Extension: 72 °C 1 min.

Iturin A

ituD-f

ATG AAC ATCTTGCCTTTTTA

Denaturing: 94 °C 1 min.

[53]

Annealing: 50 °C 1 min.

ituD-r

TTATTTTAAAATCCGCAATT

Extension: 72 °C 1.5’min.

TRFLP-16S rDNA

VIC-63’F

CAGGCCTAACACATGCAAGTC

Denaturing: 94 °C 30 Sec.

[53],[54]

Annealing: 56 °C 30 Sec.

FAM-1389R

ACGGGCGGTGTGTACAAG

Extension: 72 °C 2 min.

TRFLP-Fungal ITS

FAM -ITS1

TCCGTAGGTGAACCTTGCGG

Denaturing: 94 °C 30 Sec.

[55]

Annealing: 55’C 30 Sec.

VIC- ITS4

TCCTCCGCTTATTGATATGC

Extension: 72 °C 30 Sec.