Difference between revisions of "Part:BBa K4897001"
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<partinfo>BBa_K4897001 short</partinfo> | <partinfo>BBa_K4897001 short</partinfo> | ||
| − | + | ===What is it?=== | |
| − | BS DNA-162 was designed by BS United China as a single-stranded DNA segment complementary to the 131 base pairs of the 16S rRNA gene of P. acne. The composition of the DNA has three categories: binding region (two ends), amplification region, and random region. The binding region is the key element in reacting with the P. acne 16s rRNA gene. The DNA ligase will perform the ligation of the single-stranded DNA meanwhile the phi29 will generate double-stranded DNA through amplification primers | + | BS DNA-162 was designed by BS United China as a single-stranded DNA segment complementary to the 131 base pairs of the 16S rRNA gene of P. acne. The composition of the DNA has three categories: binding region (two ends), amplification region, and random region. The binding region is the key element in reacting with the P. acne 16s rRNA gene [1]. The DNA ligase will perform the ligation of the single-stranded DNA meanwhile the phi29 will generate double-stranded DNA through amplification primers |
===Usage and Biology=== | ===Usage and Biology=== | ||
| − | BS DNA-162 would bind the bacterial DNA of P. acne and show great sensitivity and specificity. | + | |
| + | <html> | ||
| + | <table width="100%" border="10" cellspacing="0" cellpadding="0"> | ||
| + | <tr> | ||
| + | <td align="center"><img src="https://static.igem.wiki/teams/4897/wiki/parts/l-rca-mechanism.png" width="900" height="auto" /> </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td align="center">Fig. 1. The process of BS DNA binding to P. acne DNA.</td> | ||
| + | </tr> | ||
| + | </table> | ||
| + | </html> | ||
| + | |||
| + | BS DNA-162 is the red line like a padlock. The black sequence represents the P. acne’s DNA specific to the binding. The red boxes represent the binding regions of the two ends of BS DNA-162 (notice that the two ends are not connected). The purple boxes represent the random sequences generated. The Blue box represents the amplification region for RCA. | ||
| + | |||
| + | BS DNA-162 would bind the bacterial DNA of P. acne and show great sensitivity and specificity. | ||
===Characterization=== | ===Characterization=== | ||
<html> | <html> | ||
| − | <img src="https://static.igem.wiki/teams/4897/wiki/parts/bs-dna-162.png" width="200" height="auto" /> | + | <table width="100%" border="10" cellspacing="0" cellpadding="0"> |
| − | < | + | <tr> |
| − | + | <td align="center"><img src="https://static.igem.wiki/teams/4897/wiki/parts/bs-dna-162.png" width="200" height="auto" /> </td> | |
| + | </tr> | ||
| + | <tr> | ||
| + | <td align="center">Fig.2. Amplification results of using BS DNA-162</td> | ||
| + | </tr> | ||
| + | </table> | ||
</html> | </html> | ||
| + | |||
| + | Lane 1 is a 100 bp DNA ladder. Lane 2 is a positive control tested by synthetic and isolated P. acne DNA. Lane 3 is a positive result tested by samples from human faces through washing. | ||
The positive control and the positive result both have amplification results beyond 162, the initial size, suggesting successful DNA ligation and amplification. | The positive control and the positive result both have amplification results beyond 162, the initial size, suggesting successful DNA ligation and amplification. | ||
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<partinfo>BBa_K4897001 parameters</partinfo> | <partinfo>BBa_K4897001 parameters</partinfo> | ||
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| + | ===Reference=== | ||
| + | [1]Nakamura, M., Kametani, I., Higaki, S., & Yamagishi, T. (2003). Identification of Propionibacterium acnes by polymerase chain reaction for amplification of 16S ribosomal RNA and lipase genes. Anaerobe, 9(1), 5–10. https://doi.org/10.1016/s1075-9964(03)00061-1. | ||
Latest revision as of 13:44, 9 October 2023
BS DNA-162 (BS DNA 2.0) using in L-RCA for detecting P. acne
What is it?
BS DNA-162 was designed by BS United China as a single-stranded DNA segment complementary to the 131 base pairs of the 16S rRNA gene of P. acne. The composition of the DNA has three categories: binding region (two ends), amplification region, and random region. The binding region is the key element in reacting with the P. acne 16s rRNA gene [1]. The DNA ligase will perform the ligation of the single-stranded DNA meanwhile the phi29 will generate double-stranded DNA through amplification primers
Usage and Biology
 |
| Fig. 1. The process of BS DNA binding to P. acne DNA. |
BS DNA-162 is the red line like a padlock. The black sequence represents the P. acne’s DNA specific to the binding. The red boxes represent the binding regions of the two ends of BS DNA-162 (notice that the two ends are not connected). The purple boxes represent the random sequences generated. The Blue box represents the amplification region for RCA.
BS DNA-162 would bind the bacterial DNA of P. acne and show great sensitivity and specificity.
Characterization
 |
| Fig.2. Amplification results of using BS DNA-162 |
Lane 1 is a 100 bp DNA ladder. Lane 2 is a positive control tested by synthetic and isolated P. acne DNA. Lane 3 is a positive result tested by samples from human faces through washing.
The positive control and the positive result both have amplification results beyond 162, the initial size, suggesting successful DNA ligation and amplification.
Sequence and Features
- 10INCOMPATIBLE WITH RFC[10]Illegal SpeI site found at 83
- 12INCOMPATIBLE WITH RFC[12]Illegal NheI site found at 57
Illegal SpeI site found at 83 - 21INCOMPATIBLE WITH RFC[21]Illegal BamHI site found at 68
- 23INCOMPATIBLE WITH RFC[23]Illegal SpeI site found at 83
- 25INCOMPATIBLE WITH RFC[25]Illegal SpeI site found at 83
- 1000COMPATIBLE WITH RFC[1000]
Reference
[1]Nakamura, M., Kametani, I., Higaki, S., & Yamagishi, T. (2003). Identification of Propionibacterium acnes by polymerase chain reaction for amplification of 16S ribosomal RNA and lipase genes. Anaerobe, 9(1), 5–10. https://doi.org/10.1016/s1075-9964(03)00061-1.