Part:BBa_K2243031

phiC31 attB_435F_phiC31 attP

To test the influence of attB/P sites of phiC311 to terminator ECK120034435 (abbreviation: 435) in the forward direction.

Usage

We constructed this part to characterize the recombination efficiency of the recombinase Streptomyces bacteria phage phiC31. It consists of the terminator ECK120034435 (abbreviation: 435) in the forward direction flanked by attB and attP sites of recombinase phiC31. Upon recombination, the orientation of the terminator changes. As a result, expression of downstream sequence is initiated.

Biology

The attP site of phiC31 is used to integrate phage DNA at the host attB site of Streptomyces bacterium smegmatis, generating the recombinant junctions attL and attR. DNA cleavage and re-ligation occur at the central crossover region at attB and attP, which allows the sequence to be flipped, excised, or inserted between recognition sites. We obtained the terminator, attB and attP sites by oligo synthesis.

Characterization

1. We first characterized the terminator strength using the following formula:

Ts=〖GFP〗of the random sequence/〖[GFP]〗with the terminator

Fig.1 Terminator Strength Induced with 0.1mM IPTG

Fig.2 Terminator Strength Induced with 1mM IPTG

And we sifted out 6 desirable unidirectional terminators without potential cryptic promotor in both orientations.

Fig.3 Terminator Strength Induced with 0.1M IPTG

Fig.4 Forward and Reverse Terminator Strength Ratio Induced with 0.1mM and 1mM IPTG

2. We then characterized the inversion efficiency of phiC31.

We transformed the testing system containing terminator ECK120034435 (abbreviation: 435) in the forward direction and expression system of phiC31 recombinase into one single cell to see if the inversions happened, and if the leakage expression of phiC31 would impact the system.

Microplate spectrophotometer was used to conduct preliminary measurements. Bacterial culture was added into 96-well plate(200ul for each well). OD600 and fluorescence intensity were measured. Background OD600 and fluorescence of plate, culture medium ,and autofluorescence should be eliminated through setting control groups. Fluorescence intensity/OD600 was cauculated using the net fluorescence intensity and net OD600. The transcription barrier strength of attBP/Terminator can be characterized quantitatively referring to the Ts formula.

Fig.5 Terminators flanked by one pair of attB/P sites Induced with 0.1M IPTG and 10mM Arabinose

The inversion efficiency was calculated according to the formula below.

Terminator Reference Table

Media:Peking_trt.xlsx

Sequence and Features

Assembly Compatibility:

• 10
  COMPATIBLE WITH RFC[10]
• 12
  COMPATIBLE WITH RFC[12]
• 21
  COMPATIBLE WITH RFC[21]
• 23
  COMPATIBLE WITH RFC[23]
• 25
  INCOMPATIBLE WITH RFC[25]

  Illegal NgoMIV site found at 4
  
• 1000
  INCOMPATIBLE WITH RFC[1000]

  Illegal BsaI site found at 24
  Illegal BsaI.rc site found at 155