Table 1 List of primers used in this study

Primer

Sequence (5'-3')

Description

PCR conditions

F1TerD F

AATCACCATGCGCCAATCT GCAACGCGCTCGA

Amplifies the 5' end of NGO0495 (putative terminase) without any restriction sites

94°C, 5 min.; 2× (94°C, 48° 45 sec, 72°C 1 min); 30× (94°C, 45 sec.; 63°C,45 sec.; 72°C, 3 min.); 72°C, 10 min.

F1TerD R

TCCGTGTCCCATGTGCCG TCATCCAACACCAT

Amplifies the 3' end of NGO0495 (putative terminase) without any restriction sites

F2Reg8L2

GCGAATTC GATGTCTGAA TTTAAAGACCGCCTGAAAG AG

Amplifies the 5' end of NGO1116 (putative repressor cI) with EcoRI site

94°C, 5 min.; 2×(94°C, 30 sec.; 48°C, 45 sec.; 72°C, 2 min.); 28× (94°C, 15 sec.; 50°C, 45 sec.; 72°C, 2 min.); 72°C, 10 min.

F2Reg8Rt

ATTCTGCAG TCACATCAAT CCAACACGCTCCACCAAA AG

Amplifies the 3' end of NGO1116 (putative repressor cI) with PstI site

F2TerD F

AATATTCGTCGTGCAGCG GCCCCATTGCCACG

Amplifies the 5' end of NGO1098 (putative terminase) without any restriction sites

94°C, 5 min; 30× (94°C, 45 sec.; 63°C, 45 sec.); 72°C, 3 min.; 72°C, 10 min.

F2TerD R

CGGGCTGTTCAAGCCTTG CCGGTACAAGGTTA

Amplifies the 3' end of NGO1098 (putative terminase) without any restriction sites

F2antrep F

GCCGGAATTC TCCAAGTT TTAAACTTTCAAC

Amplifies the 5' end of NGO1085 (putative antirepressor) with EcoRI site

94°C, 5 min.; 3×(94°C, 1 min.; 44°C, 45 sec.; 72°C, 3 min.); 27× (94°C, 1 min.; 59°C, 45 sec.; 72°C,3 min.); 72°C, 10 min

F2antrep R

TTATCTGCAG TTACCTTAC CGTAGCCTTGCC

Amplifies the 3' end of NGO1085 (putative antirepressor) with PstI site

F3dnaC F

ACGCGCTGGAAAAACGCA TC

Amplifies the 5' end of NGO1636 (putative replication protein DnaC) without any restriction sites

94°C, 2 min; 3× (94°C, 1 min.; 48°C, 45 sec.; 72°C, 3 min.28× (94°C, 45 sec.; 52°C, 45 sec.; 72°C, 2 min.); 72°C, 10 min.

F3dnaC R

TCCCAGTCGAACGGAATC AG

Amplifies the 3' end of NGO1636 (putative replication protein DnaC) without any restriction sites

Fag4cI F

TCACTTTACCAAGCGCAGT TT

Amplifies the 5' end of NGO1013 (putative repressor cI) without any restriction sites

94°C, 2 min; 3× (94°C, 1 min.; 48°C, 45 sec.; 72°C, 3 min), 28×(94°C, 45 sec.; 50°C, 45 sec.; 72°C, 2 min.); 72°C, 10 min.

Fag4cI R

AATTAGGCTTGAACCAAGC AG

Amplifies the 3' end of NGO1013 (putative repressor cI) without any restriction sites

Fag5cI F

TCTATCCAATCGAGGAACT GCC

Amplifies the 5' end of NGO0729 (putative repressor cI) without any restriction sites

94°C, 2 min; 28× (94°C, 45 sec.; 52°C, 45 sec.; 72°C, 2 min.); 72°C, 10 min.

Fag5cI R

CTACACGCCTTACAACCTT TCG

Amplifies the 3' end of NGO0729 (putative repressor cI) without any restriction sites

RNFGF1c

TATCTGCAGTCTAGAACTG GCTCAAACGCCAT

Amplifies the 5' end of NGO0477 (putative repressor cI)

94°C, 2 min; 28× (94°C, 45 sec.; 52°C, 45 sec.; 72°C, 2 min.); 72°C, 10 min.

FNGF1C1

GCGAATTCGATGCCTTTTA TTATCGATTACCAATGC

Amplifies the 3' end of NGO0477

HPPRL_F

CGCGGAATTCGACCCAGT CAAATATATTCC

Amplifies the 5' region of P_L promoter of phage HP1

94°C, 5 min; 27×(94°C, 45 sec.; 56°C, 45 sec.; 72°C, 1 min.); 72°C, 10 min.

HPPRL_R

CGGGATCCTCGCAAAAAT CGCCGAAAG

Amplifies the 3' region of P_L promoter of phage HP1

HPPR_F

CGGGATCCCAGGTAACAC AGTGATATAAC

Amplifies the 5' region of P_R promoter of Φ HP1

94°C, 5 min; 27× (94°C, 45 sec.; 56°C, 45 sec.; 72°C, 1 min.); 72°C, 10 min.

HPPR_R

CGCGGAATTCCCCGTATT GGTAAATAATGG

Amplifies the 3' region of P_R promoter of Φ HP1

HO488T4 F

GCGAATTCGATGGATACC CTGTTAAGCATCATCA

Amplifies the 5' region of putative holin of NgoΦ1

94°C, 2 min; 2× (94°C, 48° 45 sek, 72°C 1 min); 28 × (94°C, 45 sec.; 56°C, 45 sec.; 72°C, 1 min.); 72°C, 10 min.

HO488T4 B

ATTCTGCAGCTTAATATCC GAAGCCGTCGAAGT

Amplifies the 3' region of putative holin of NgoΦ1