Introduction

After extensive research, we have found that information about circRNA is limited. Currently, there is not only a lack of effective methods for detecting circRNA, but also no standard protocol for synthesizing it. Therefore, we are providing a coherent platform for both the synthesis and detection of circRNA. Our platform includes following three sections:

1. CircRNA synthesis. (Figure 1)

2. Gold nanoparticle-based colorimetric assay. (Figure 2)

3. Lateral flow test. (Figure 3)

CircRNA synthesis

Figure 1. CircRNA synthesis process. We utilize restriction enzymes for traditional cloning (BBa_K4636040, BBa_K4636041), PCR primers (BBa_K4636001 - BBa_K4636006) for amplifying the target (BBa_K4636040, BBa_K4636041), a modified T7 promoter (BBa_K4636000) for efficient transcription of DNA to RNA. Finally, we use a splint (BBa_K4636013 - BBa_K4636018) to assist in the circularization procedure.

AuNP-based colorimetric assay

Figure 2. Process of gold nanoparticle-based colorimetric assay. We use RCA primers (BBa_K4636028 - BBa_K4636035) to conduct the RCA and generate long-repeated ssDNA for further detection using DNA probes (BBa_K4636007 - BBa_K4636012) on gold nanoparticles.

Lateral Flow Test

Figure 3. Process of lateral flow test. We utilize these modified RPA primers (BBa_K4636019 - BBa_K4636027, BBa_K4636042) to conduct RT-RPA, and the resulting amplicon can be detected using PCRD detection.

Basic parts

Item Number Name Description
1 BBa_K4636000 Modified T7 promoter The modified T7 promoter can be used to transcribe efficiency.
2 BBa_K4636001 cDNA of 0101802 cDNA of hsa_circ_0101802
3 BBa_K4636002 cDNA of 0004771 cDNA of hsa_circ_0004771
4 BBa_K4636003 PCR_0101802fw Insert_0004771 PCR forward primer
5 BBa_K4636004 PCR_0101802rv Insert_0004771 PCR reverse primer
6 BBa_K4636005 PCR_0004771fw Insert_0101802 PCR forward primer
7 BBa_K4636006 PCR_0004771rv Insert_0101802 PCR reverse primer
8 BBa_K4636007 Probe_0101802_bsj Probe recognizes back splicing junction of RCA product
9 BBa_K4636008 Probe_0101802_10 Probe for recognizing RCA product
10 BBa_K4636009 Probe_0101802_11 Probe for recognizing RCA product
11 BBa_K4636010 Probe_0004771_bsj Probe recognizes back splicing junction of RCA product
12 BBa_K4636011 Probe_0004771_11 Probe for recognizing RCA product
13 BBa_K4636012 Probe_0004771_12 Probe for recognizing RCA product
14 BBa_K4636013 Splint_1802_18 Splint helps the back splicing of linear RNA
15 BBa_K4636014 Splint_1802_16 Splint helps the back splicing of linear RNA
16 BBa_K4636015 Splint_1802_14 Splint helps the back splicing of linear RNA
17 BBa_K4636016 Splint_4771_18 Splint helps the back splicing of linear RNA
18 BBa_K4636017 Splint_4771_16 Splint helps the back splicing of linear RNA
19 BBa_K4636018 Splint_4771_14 Splint helps the back splicing of linear RNA
20 BBa_K4636019 RPA_0101802fw_1 With biotin modification, it can be used for lateral flow testing after RPA.
21 BBa_K4636020 RPA_0101802rv_1 With FAM modification, it can be used for lateral flow testing after RPA.
22 BBa_K4636021 RPA_0101802fw_2 With biotin modification, it can be used for lateral flow testing after RPA.
23 BBa_K4636022 RPA_0101802rv_2 With FAM modification, it can be used for lateral flow testing after RPA.
24 BBa_K4636023 RPA_0004771fw_1 With biotin modification, it can be used for lateral flow testing after RPA.
25 BBa_K4636024 RPA_0004771rv_1 With DIG modification, it can be used for lateral flow testing after RPA.
26 BBa_K4636025 RPA_0004771fw_2 With biotin modification, it can be used for lateral flow testing after RPA.
27 BBa_K4636026 RPA_0004771rv_2 With DIG modification, it can be used for lateral flow testing after RPA.
28 BBa_K4636027 RPA_0004771fw_3 With biotin modification, it can be used for lateral flow testing after RPA.
29 BBa_K4636042 RPA_0004771rv_3 With DIG modification, it can be used for lateral flow testing after RPA.
30 BBa_K4636028 RCA_indu_1802_1 RCA primers initiates the amplification process
31 BBa_K4636029 RCA_indu_1802_2 RCA primers initiates the amplification process
32 BBa_K4636030 RCA_indu_4771_1 RCA primers initiates the amplification process
33 BBa_K4636031 RCA_indu_4771_2 RCA primers initiates the amplification process
34 BBa_K4636032 RCA_45_1802_1 RCA primers initiates the amplification process
35 BBa_K4636033 RCA_45_1802_2 RCA primers initiates the amplification process
36 BBa_K4636034 RCA_45_4771_1 RCA primers initiates the amplification process
37 BBa_K4636035 RCA_45_4771_2 RCA primers initiates the amplification process
38 BBa_K4636036 PCRforAELA_fw Primer for AELA-PCR preparation
39 BBa_K4636037 PCRforAELA_rv Primer for AELA-PCR preparation
40 BBa_K4636038 AELA_PCR_fw Primer for AELA-PCR
41 BBa_K4636039 AELA_PCR_rv Primer for AELA-PCR

Composite part

Item Number Name Composite
1 BBa_K4636040 Insert_0101802 Modified T7 promoter + cDNA of 0101802
2 BBa_K4636041 Insert_0004771 Modified T7 promoter + cDNA of 0004771
3 BBa_K4636052 insert_ligation_0101802 Insert_0101802 + Insert_0101802
4 BBa_K4636053 insert_ligation_0004771 Insert_0004771 + Insert_0004771
5 BBa_K4636054 pUC19_insert_ligation_0101802 puc19 vector + insert_ligation_0101802
6 BBa_K4636055 pUC19_insert_ligation_0004771 puc19 vector + insert_ligation_0004771