Difference between revisions of "Part:BBa K3593004"

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<partinfo>BBa_K3593004 short</partinfo>
 
<partinfo>BBa_K3593004 short</partinfo>
  
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The probe complementary to control line and tail of aptamer amplicons in our RPA-competitive-ALFA(aptamer lateral flow assay) test strip. The SH end can react with Au nano particle thus conjugate with the particle, lymphosized on conjugation pad for reporting of red color afterwards
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The probe complementary to control line and tail of aptamer amplicons in our RPA-competitive-ALFA(aptamer lateral flow assay) test strip. The SH end can react with Au nano particle thus conjugate with the particle, lymphosized on conjugation pad for reporting of red color afterwards.
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=Background=
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=Sequence and features=
 
=Sequence and features=
 
<partinfo>BBa_K3593004 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K3593004 SequenceAndFeatures</partinfo>
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==Design==
 
==Design==
 
Besides aptamers, we have some short single stranded DNA known as 'probes', which binds to other single stranded DNA. BBa_K3593004 is one of those so-called 'probes' in our design, and play important roles in our hardware, in which it binds to the amplicons in RPA and gives colour changes that users can notice and verify whether toxin exists or not. It has a strand consisting of a lot of thymine, which can bind strongly with our aptamer with a complementary strand to it. The use of 'Poly T' is used in several articles.[1][2][3]Its 3' end is conjugated to a C6 spacer and a thiol group[4], to be conjugated to Au nanoparticles. When these probes bind with aptamer, the Au nanoparticles are dispersed, and show a colour change from red to colourless.
 
Besides aptamers, we have some short single stranded DNA known as 'probes', which binds to other single stranded DNA. BBa_K3593004 is one of those so-called 'probes' in our design, and play important roles in our hardware, in which it binds to the amplicons in RPA and gives colour changes that users can notice and verify whether toxin exists or not. It has a strand consisting of a lot of thymine, which can bind strongly with our aptamer with a complementary strand to it. The use of 'Poly T' is used in several articles.[1][2][3]Its 3' end is conjugated to a C6 spacer and a thiol group[4], to be conjugated to Au nanoparticles. When these probes bind with aptamer, the Au nanoparticles are dispersed, and show a colour change from red to colourless.
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==Experiment data==
 
 
=References=
 
=References=
 +
1.Chao Zhu, Guilan Zhang, Yafei Huang, Shuming Yang, Shuyue Ren, Zhixian Gao, Ailiang Chen, Dual-competitive lateral flow aptasensor for detection of aflatoxin B1 in food and feedstuffs, Journal of Hazardous Materials https://doi.org/10.1016/j.jhazmat.2017.10.026 <br>
 +
2.Wu, S., Liu, L., Duan, N. et al. A test strip for ochratoxin A based on the use of aptamer-modified fluorescence upconversion nanoparticles. Microchim Acta 185, 497 (2018). https://doi.org/10.1007/s00604-018-3022-0<br>
 +
3.Delley CL, Liu L, Sarhan MF, Abate AR. Combined aptamer and transcriptome sequencing of single cells. Sci Rep. 2018 Feb 13;8(1):2919. doi: 10.1038/s41598-018-21153-y. PMID: 29440771; PMCID: PMC5811598.<br>
 +
4.Jauset-Rubio M, Svobodová M, Mairal T, et al. Aptamer Lateral Flow Assays for Ultrasensitive Detection of β-Conglutin Combining Recombinase Polymerase Amplification and Tailed Primers. Anal Chem. 2016;88(21):10701-10709. doi:10.1021/acs.analchem.6b03256<br>
 
<!-- Add more about the biology of this part here
 
<!-- Add more about the biology of this part here
 
===Usage and Biology===
 
===Usage and Biology===

Revision as of 00:46, 28 October 2020


modified ssDNA, Au nano particle reporter probe

The probe complementary to control line and tail of aptamer amplicons in our RPA-competitive-ALFA(aptamer lateral flow assay) test strip. The SH end can react with Au nano particle thus conjugate with the particle, lymphosized on conjugation pad for reporting of red color afterwards.

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
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]

Characterisation of this part

Design

Besides aptamers, we have some short single stranded DNA known as 'probes', which binds to other single stranded DNA. BBa_K3593004 is one of those so-called 'probes' in our design, and play important roles in our hardware, in which it binds to the amplicons in RPA and gives colour changes that users can notice and verify whether toxin exists or not. It has a strand consisting of a lot of thymine, which can bind strongly with our aptamer with a complementary strand to it. The use of 'Poly T' is used in several articles.[1][2][3]Its 3' end is conjugated to a C6 spacer and a thiol group[4], to be conjugated to Au nanoparticles. When these probes bind with aptamer, the Au nanoparticles are dispersed, and show a colour change from red to colourless.

References

1.Chao Zhu, Guilan Zhang, Yafei Huang, Shuming Yang, Shuyue Ren, Zhixian Gao, Ailiang Chen, Dual-competitive lateral flow aptasensor for detection of aflatoxin B1 in food and feedstuffs, Journal of Hazardous Materials https://doi.org/10.1016/j.jhazmat.2017.10.026
2.Wu, S., Liu, L., Duan, N. et al. A test strip for ochratoxin A based on the use of aptamer-modified fluorescence upconversion nanoparticles. Microchim Acta 185, 497 (2018). https://doi.org/10.1007/s00604-018-3022-0
3.Delley CL, Liu L, Sarhan MF, Abate AR. Combined aptamer and transcriptome sequencing of single cells. Sci Rep. 2018 Feb 13;8(1):2919. doi: 10.1038/s41598-018-21153-y. PMID: 29440771; PMCID: PMC5811598.
4.Jauset-Rubio M, Svobodová M, Mairal T, et al. Aptamer Lateral Flow Assays for Ultrasensitive Detection of β-Conglutin Combining Recombinase Polymerase Amplification and Tailed Primers. Anal Chem. 2016;88(21):10701-10709. doi:10.1021/acs.analchem.6b03256