RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: QA-41
Target: Soft-shelled turtle iridovirus (STIV)
Type of nucleic acid: ssDNA
Sequence: 5'GACGCTTACTCAGGTGTGACTCGTGTTCGGGTTATTGCTCCTCCTTATTGTCACCTGGATGTATGATCGTGTAGCGAAGGACGCAGAGAAGTCTC3'
Sequence length: 95
GC content: 0.5052631578947369
Affinity: Not reported
Pool type: 5'-GACGCTTACTCAGGTGTGACTCG-N50-CGAAGGACGCAGAGAAGTCTC-3'
Pool random region: 50
Binding buffer/conditions: 100 mM NaCl, 2.5 mM MgCl2, 20 mM Tris–HCl (pH 7.5)
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Drug Delivery: " Soft-shelled turtle iridovirus (STIV) causes severe systemic disease in farmed soft-shelled turtles (Trionyx sinensis). We generated DNA aptamers that bound STIV with a high level of specificity, providing an alternative means for investigating STIV pathogenesis, drug development, and medical therapies for STIV infection. These DNA aptamers may thus be suitable antiviral candidates for the control of STIV infections."
Reference (2015, BMC Vet Res ): Li, P., Zhou, L., Yu, Y., Yang, M., Ni, S., Wei, S., & Qin, Q. (2015). Characterization of DNA aptamers generated against the soft-shelled turtle iridovirus with antiviral effects. BMC Veterinary Research, 11.  https://doi.org/10.1186/s12917-015-0559-6
Aptamer: A4
Target: Beta-Site amyloid precursor protein cleaving enzyme 1 (BACE1)
Type of nucleic acid: ssDNA
Sequence: 5'GCAATGGTACGGTACTTCCTGTGTTATTGTTATGTTTTTTCAGTGTAGTCAAAAGTGCACGCTACTTTGCTAA3'
Sequence length: 73
GC content: 0.3835616438356164
Affinity: Kd: 15.3497 ± 2.0262 nM
Pool type: 5′-GCAATGGTACGGTACTTCC-N30-CAAAAGTGCACGCTACTTTGCTAA-3′
Pool random region: 30
Binding buffer/conditions: 0.45 g of glucose, 10 mg of yeast tRNA, 5 mg of salmon sperm DNA, 0.1 g of BSA, and 0.5 ml of 1 M MgCl2 in 100 ml of 1 x phosphate-buffered saline [PBS]
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " Increased levels of brain Aβ have been implicated in the pathogenesis of Alzheimer's disease (AD). Thus, β-secretase represents a primary target for inhibitor drug development in AD. These findings support the preliminary feasibility of an aptamer evolved from a SELEX strategy to function as a potential BACE1 inhibitor. To our knowledge, this is the first study to acquire a DNA aptamer that exhibited binding specificity to BACE1 and inhibited its activity."
Reference (2015, PLoS One ): Liang, H., Shi, Y., Kou, Z., Peng, Y., Chen, W., Li, X., Li, S., Wang, Y., Wang, F., & Zhang, X. (2015). Inhibition of BACE1 Activity by a DNA Aptamer in an Alzheimer's Disease Cell Model. PLoS ONE, 10. https://doi.org/10.1371/journal.pone.0140733
Aptamer: R4-14
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGCGGTACCGGCCTATTCATACTTGAAACCTGCACTCTTAATGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.5
Affinity: Not reported
Pool type: 5′-CTCCTCTGACTGTAACCACG-N40-GCATAGGTAGTCCAGAAGCC-3′
Pool random region: 40
Binding buffer/conditions: Dulbecco's phosphate buffered saline with CaCl2 and MgCl2 (DPBS)
Divalent salt: MgCl/CaCl
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " The main objectives of the present study were to obtain DNA aptamers binding to the oocyst wall of C. parvum, and to use the aptamers to detect the presence of this parasite in foods. DNA aptamers were selected against C. parvum oocysts using SELEX (Systematic Evolution of Ligands by EXponential enrichment). The high sensitivity and specificity of the developed aptasensor suggests that this novel method is very promising for the detection and identification of C. parvum oocysts on spiked fresh fruits, as compared to conventional methods such as microscopy and PCR."
Reference (2015, PLoS One ): Iqbal, A., Labib, M., Muharemagic, D., Sattar, S., Dixon, B. R., & Berezovski, M. V. (2015). Detection of Cryptosporidium parvum Oocysts on Fresh Produce Using DNA Aptamers. PloS one, 10(9), e0137455. https://doi.org/10.1371/journal.pone.0137455
Aptamer: FA1
Target: Human immunodeficiency virus reverse transcriptase (HIV-1 RT)
Type of nucleic acid: FANA XNA
Sequence: 5'AAAAGGTAGTGCTGAATTCGGGGCCATTAAGATATTCGTCGAAGTTCGGTTGTTTCCCTTCGCTATCCAGTTGGCCT3'
Sequence length: 77
GC content: 0.4675324675324675
Affinity: Kd: 0.004 ± 0.003 nM
Pool type: 5′-AGGCCAACTGGATAGCGAA-N40-CGAATTCAGCACTACCTTTTGGCAAACGCTAATAAGGG-3′
Pool random region: 40
Binding buffer/conditions: 50 mM Tris–HCl (pH 8), 80 mM KCl, 2 mM MgCl2 and 1 mM DTT
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 8
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " Using a Systematic Evolution of Ligands by Exponential Enrichment (SELEX) protocol capable of selecting xeno-nucleic acid (XNA) aptamers, a 2'-deoxy-2'-fluoroarabinonucleotide (FANA) aptamer (referred to as FA1) to HIV-1 reverse transcriptase (HIV-1 RT) was selected. FA1 showed strong inhibition of HIV-1 RT in extension assays while no specific binding to avian myeloblastosis or Moloney murine leukemia RTs was detected. A complete DNA version of FA1 showed low binding to HIV-1 RT, emphasizing the unique properties of FANA in HIV-1 RT binding."
Additional information: Note that FANA is structurally distinct from the 2′-fluororibonucleotides described above as the sugar ring in FANA typically adopts a C2'/O4'-endo conformation as opposed to a C3'-endo conformation for 2′-fluoro-ribonucleotides, and the fluorine group in FANA is in the β as opposed to α conformation
Reference (2015, Nucleic Acids Res ): Alves Ferreira-Bravo, I., Cozens, C., Holliger, P., & DeStefano, J. J. (2015). Selection of 2'-deoxy-2'-fluoroarabinonucleotide (FANA) aptamers that bind HIV-1 reverse transcriptase with picomolar affinity. Nucleic acids research, 43(20), 9587–9599. https://doi.org/10.1093/nar/gkv1057
Aptamer: FA2
Target: Human immunodeficiency virus reverse transcriptase (HIV-1 RT)
Type of nucleic acid: FANA XNA
Sequence: 5'AAAAGGTAGTGCTGAATTCGGCCGACAATGATATTCGACGAAGCTCGGTTGTTTCCCTTTTCGCTATCCAGTTGGCCT3'
Sequence length: 78
GC content: 0.4743589743589743
Affinity: Kd: 0.016 ± 0.006        
Pool type: 5′-AGGCCAACTGGATAGCGAA-N40-CGAATTCAGCACTACCTTTTGGCAAACGCTAATAAGGG-3′
Pool random region: 40
Binding buffer/conditions: 50 mM Tris–HCl (pH 8), 80 mM KCl, 2 mM MgCl2 and 1 mM DTT
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 8
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " Using a Systematic Evolution of Ligands by Exponential Enrichment (SELEX) protocol capable of selecting xeno-nucleic acid (XNA) aptamers, a 2'-deoxy-2'-fluoroarabinonucleotide (FANA) aptamer (referred to as FA1) to HIV-1 reverse transcriptase (HIV-1 RT) was selected. FA1 showed strong inhibition of HIV-1 RT in extension assays while no specific binding to avian myeloblastosis or Moloney murine leukemia RTs was detected. A complete DNA version of FA1 showed low binding to HIV-1 RT, emphasizing the unique properties of FANA in HIV-1 RT binding."
Additional information: Note that FANA is structurally distinct from the 2′-fluororibonucleotides described above as the sugar ring in FANA typically adopts a C2'/O4'-endo conformation as opposed to a C3'-endo conformation for 2′-fluoro-ribonucleotides, and the fluorine group in FANA is in the β as opposed to α conformation
Reference (2015, Nucleic Acids Res ): Alves Ferreira-Bravo, I., Cozens, C., Holliger, P., & DeStefano, J. J. (2015). Selection of 2'-deoxy-2'-fluoroarabinonucleotide (FANA) aptamers that bind HIV-1 reverse transcriptase with picomolar affinity. Nucleic acids research, 43(20), 9587–9599. https://doi.org/10.1093/nar/gkv1057
Aptamer: AFLA53
Target: Aflatoxin B1 (AFB1)
Type of nucleic acid: ssDNA
Sequence: 5'CTCGTCTCGTTCTCTCAGTCTGGTTAGCACGGGACCCAGGCTATTGGCAACTTCTAGTCCGACACGAAGAAGAAGGAGGA3'
Sequence length: 80
GC content: 0.5375
Affinity: Kd: 48.29 ± 9.45 nm
Pool type: 5'-CTCGTCTCGTTCTCTCAGTC-N40-GACACGAAGAAGAAGGAGGA-3'
Pool random region: 40
Binding buffer/conditions: 1X binding buffer (1X BB; 5 mM MgCl2 in Dulbecco's phosphate buffered saline, pH 7.4 ± 0.2)
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " Aflatoxins are naturally occurring mycotoxins that contaminate food and agro commodities, leading to acute and chronic health conditions in human and animals. In the present work, an attempt was made to generate high-affinity single stranded DNA aptamers that specifically bind to Aflatoxin B1 (AFB1) by a modified Systemic Evolution of Ligands by Exponential Enrichment (SELEX) procedure with the aid of Immunoaffinity columns. These findings indicate, immunoaffinity based SELEX can pave an alternative approach to screen aptamers against mycotoxin detection and purification."
Reference (2016, Front Microbiol ): Setlem, K., Mondal, B., Ramlal, S., & Kingston, J. (2016). Immuno Affinity SELEX for Simple, Rapid, and Cost-Effective Aptamer Enrichment and Identification against Aflatoxin B1. Frontiers in microbiology, 7, 1909. https://doi.org/10.3389/fmicb.2016.01909
Aptamer: ER_Apt1
Target: Estrogen receptor alpha (ERα)
Type of nucleic acid: ssDNA
Sequence: 5′ATACCAGTCTATTCAATTCCCGGCATGGTTGCGGAGCAGGAGTATAACACTACCATTGAGATAGTATGTGCAATCA3'
Sequence length: 76
GC content: 0.4342105263157895
Affinity: Kd: 1.15 ± 1.01 × 10^-8 M−1
Pool type: 5′-ATACCAGTCTATTCAATT–N40-AGATAGTATGTGCAATCA- 3′
Pool random region: 40
Binding buffer/conditions: 20-mM Tris-Cl, pH 7.5, 120-mM NaCl, 5-mM KCl, 1-mM MgCl2, and 1-mM CaCl2
Divalent salt: MgCl/CaCl
Buffer type: Tris Buffers
pH: 7.5
Molecular weight of target: 67 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Therapeutic: " Estrogen receptor alpha (ERα) also known as NR3A1 (nuclear receptor subfamily 3, group A, member 1) is a ligand-activated transcription factor. It is an important biomarker for breast cancer metastasis. In the present study, we report a novel DNA aptamer candidate against estrogen receptor (ER) alpha structure. Cytochemical and immunohistochemistry assay indicates its potential use as a diagnostic agent against ERα positive carcinomas. The nucleotide aptamer sequences described in the present study can be used for the detection, treatment, prophylaxis and diagnosis of ERα-related disorder."
Reference (2016, Transl Res ): Sett, A., Borthakur, B. B., Sharma, J. D., Kataki, A. C., & Bora, U. (2017). DNA aptamer probes for detection of estrogen receptor α positive carcinomas. Translational research : the journal of laboratory and clinical medicine, 183, 104–120.e2. https://doi.org/10.1016/j.trsl.2016.12.008
Aptamer: ER_Apt3
Target: Estrogen receptor alpha (ERα)
Type of nucleic acid: ssDNA
Sequence: 5′ATACCAGTCTATTCAATTACAGGACCATCGCAACCGATTGATACGGGTGAGCATGTGGAGATAGTATGTGCAATCA3′
Sequence length: 76
GC content: 0.4342105263157895
Affinity: Not reported
Pool type: 5′-ATACCAGTCTATTCAATT–N40-AGATAGTATGTGCAATCA- 3′
Pool random region: 40
Binding buffer/conditions: 20-mM Tris-Cl, pH 7.5, 120-mM NaCl, 5-mM KCl, 1-mM MgCl2, and 1-mM CaCl2
Divalent salt: MgCl/CaCl
Buffer type: Tris Buffers
pH: 7.5
Molecular weight of target: 67 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Therapeutic: " Estrogen receptor alpha (ERα) also known as NR3A1 (nuclear receptor subfamily 3, group A, member 1) is a ligand-activated transcription factor. It is an important biomarker for breast cancer metastasis. In the present study, we report a novel DNA aptamer candidate against estrogen receptor (ER) alpha structure. Cytochemical and immunohistochemistry assay indicates its potential use as a diagnostic agent against ERα positive carcinomas. The nucleotide aptamer sequences described in the present study can be used for the detection, treatment, prophylaxis and diagnosis of ERα-related disorder."
Reference (2016, Transl Res ): Sett, A., Borthakur, B. B., Sharma, J. D., Kataki, A. C., & Bora, U. (2017). DNA aptamer probes for detection of estrogen receptor α positive carcinomas. Translational research : the journal of laboratory and clinical medicine, 183, 104–120.e2. https://doi.org/10.1016/j.trsl.2016.12.008
Aptamer: ER_Apt4
Target: Estrogen receptor alpha (ERα)
Type of nucleic acid: ssDNA
Sequence: 5′ATACCAGTCTATTCAATTGGACGCCGTTGTCACCATTTGCTTCTGGATGCGTCGTTGCAGATAGTATGTGCAATCA3′
Sequence length: 76
GC content: 0.4473684210526316
Affinity: Not reported
Pool type: 5′-ATACCAGTCTATTCAATT–N40-AGATAGTATGTGCAATCA- 3′
Pool random region: 40
Binding buffer/conditions: 20-mM Tris-Cl, pH 7.5, 120-mM NaCl, 5-mM KCl, 1-mM MgCl2, and 1-mM CaCl2
Divalent salt: MgCl/CaCl
Buffer type: Tris Buffers
pH: 7.5
Molecular weight of target: 67 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Therapeutic: " Estrogen receptor alpha (ERα) also known as NR3A1 (nuclear receptor subfamily 3, group A, member 1) is a ligand-activated transcription factor. It is an important biomarker for breast cancer metastasis. In the present study, we report a novel DNA aptamer candidate against estrogen receptor (ER) alpha structure. Cytochemical and immunohistochemistry assay indicates its potential use as a diagnostic agent against ERα positive carcinomas. The nucleotide aptamer sequences described in the present study can be used for the detection, treatment, prophylaxis and diagnosis of ERα-related disorder."
Reference (2016, Transl Res ): Sett, A., Borthakur, B. B., Sharma, J. D., Kataki, A. C., & Bora, U. (2017). DNA aptamer probes for detection of estrogen receptor α positive carcinomas. Translational research : the journal of laboratory and clinical medicine, 183, 104–120.e2. https://doi.org/10.1016/j.trsl.2016.12.008
Aptamer: BM4
Target: Mannose-capped lipoarabinomannan (ManLAM) of Bacillus Calmette–Guérin (BCG)
Type of nucleic acid: ssDNA
Sequence: 5'GCGGAATTCTAATACGACTCACTATAGGGAACAGTCCGAGCCCGCGCAGCGGGTCGACTTCATTCCTCACCATGGGTCAATGCGTCATA3'
Sequence length: 89
GC content: 0.5393258426966292
Affinity: Not reported
Pool type: 5'-GCGGAATTCTAATACGACTCACTATAGGGAACAGTCCGAGCC-N31-GGGTCAATGCGTCATA-3'
Pool random region: 31
Binding buffer/conditions: 20 mM Tris-HCl, 0.15 M NaCl, 10 mM CaCl2, 6 mM MnCl2, pH 7.2 at 37 ˚C
Divalent salt: CaCl
Buffer type: Tris Buffers
pH: 7.2
Molecular weight of target: 72–95 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Theruputic: " Because Mycobacterium bovis, termed bacillus Calmette-Guérin (BCG), the only available used tuberculosis (TB) vaccine, retains immunomodulatory properties that limit its protective immunogenicity, there are continuous efforts to identify the immunosuppression mechanism as well as new strategies for improving the immunogenicity of BCG. Here, an ssDNA aptamer "antibody" BM2 specifically bound to the mannose-capped lipoarabinomannan (ManLAM) of BCG was selected. We report a new mechanism of the interaction between ManLAM and CD44 on macrophages and CD4(+) T cells and reveal that ManLAM-binding membrane molecule CD44 is a novel target for the enhancement of BCG immunogenicity, and BM2 has strong potential as an immune enhancer for BCG."
Reference (2016, J Am Chem Soc ): Sun, X., Pan, Q., Yuan, C., Wang, Q., Tang, X. L., Ding, K., Zhou, X., & Zhang, X. L. (2016). A Single ssDNA Aptamer Binding to Mannose-Capped Lipoarabinomannan of Bacillus Calmette-Guérin Enhances Immunoprotective Effect against Tuberculosis. Journal of the American Chemical Society, 138(36), 11680–11689. https://doi.org/10.1021/jacs.6b05357
Aptamer: C1 (FOXM1 Apt)
Target: Forkhead box protein M1 (FOXMI) DNA-binding domain (DBD)
Type of nucleic acid: ssDNA
Sequence: 5′AGCAATGGTACGGTACTTCCTCACTTCACACCGCATCTCTACGTCCGGTTGCGCTTTCCTTTGTGCCACGCTACTTTGCTAA3′
Sequence length: 82
GC content: 0.5121951219512195
Affinity: Kd: 172.1 ± 26.55 nM
Pool type: 5′-AGCAATGGTACGGTACTTCC-42N-GTGCCACGCTACTTTGCTAA-3′
Pool random region: 42
Binding buffer/conditions: 20 mM Hepes, 120 mM NaCl, 5 mM KCl, 1 mM CaCl2, 1 mM MgCl2, pH 7.35
Divalent salt: MgCl/CaCl
Buffer type: Other Buffers
pH: 7.3
Molecular weight of target:  not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection, Therapeutic, and Diagnostic: " Inhibiting FOXM1 transcriptional activities is proposed as a potential therapeutic strategy for cancer treatment. In this study, we obtained a FOXM1-specific single stranded DNA aptamer (FOXM1 Apt) by SELEX with a recombinant FOXM1 DBD protein as the target of selection. Our results suggest that the obtained FOXM1 Apt could be used as a probe for FOXM1 detection and an inhibitor of FOXM1 transcriptional functions in cancer cells at the same time, providing a potential reagent for cancer diagnosis and treatment in the future."
Reference (2017, Sci Rep ): Xiang, Q., Tan, G., Jiang, X., Wu, K., Tan, W., & Tan, Y. (2017). Suppression of FOXM1 Transcriptional Activities via a Single-Stranded DNA Aptamer Generated by SELEX. Scientific reports, 7, 45377. https://doi.org/10.1038/srep45377
Aptamer: Apt-2
Target: Vibrio parahaemolyticus (V. parahaemolyticus)
Type of nucleic acid: ssDNA
Sequence: 5'TCAGCACGTATAAGCATGAATTGACCAACCTAAACTTATTCATTTTCCAGCACCTCTAATATTACTGGCTCCACTGAGAGATCC3'
Sequence length: 84
GC content: 0.4047619047619047
Affinity: Kd: 10.3 ± 4.5 nM
Pool type: 5'-TCAGCACGT-N60-TCCACTGAGAGATCC-3'
Pool random region: 60
Binding buffer/conditions: Binding Buffer (1X BB): 137 mM NaCl, 2.7 mM KCl, 10 mM Na2HPO4, 2 mM KH2PO4, 4 mg/L BSA, 0.05% v/v Tween-20.
Buffer type: PBS/phosphate buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Biosensor: " Here, we developed an advanced cell-SELEX strategy featuring functionalized graphene oxide (GO) and isothermal rolling circle amplification (RCA) to select aptamers against a prevailing foodborne pathogen, Vibrio parahaemolyticus. Simple procedure, high efficiency, and free from expensive thermal cycler (required by PCR amplification) will enable the established strategy to find its applications in aptamer selecting against fungi, stem and cancerous cells as well."
Reference (2018, Anal Chim Acta ): Song, S., Wang, X., Xu, K., Li, Q., Ning, L., & Yang, X. (2019). Selection of highly specific aptamers to Vibrio parahaemolyticus using cell-SELEX powered by functionalized graphene oxide and rolling circle amplification. Analytica chimica acta, 1052, 153–162. https://doi.org/10.1016/j.aca.2018.11.047
Aptamer: HA5–68
Target: Paclitaxel-resistant ovarian cancer cells (A2780T)
Type of nucleic acid: ssDNA
Sequence: 5'TTAAGGAGCAGCGTGGAGGATATCGGTGTTTATGGTGTCTGTCTTCCTCCAGTTTCCTTCTGCGCCTT3'
Sequence length: 68
GC content: 0.5
Affinity: Kd: 4.5 ± 1.6 nM
Pool type: 5′-AAGGAGCAGCGTGGAGGATA-N45-TTAGGGTGTGTCGTCGTGGT-3′
Pool random region: 45
Binding buffer/conditions: PBS with 4.5 g L−1 glucose, 1 MMm mg mL−1 bovine serum albumin (BSA), 0.1 mg mL−1 Herring sperm DNA, without any divalent ions
Buffer type: PBS/phosphate buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Truncated 19 nucleotides from 3′ end of ha5 aptamer
Application as quoted in the referenced paper: Diagnostic: " New ligands for drug-resistant ovarian cancer cells have potential for the development of diagnosis and therapy of ovarian cancer. In present work, we reported two aptamers, HF3-58 and HA5-68 generated by cell-SELEX, against a paclitaxel-resistant ovarian cancer cell line (A2780T). Owing to the structure stability and high resistance to nuclease, these two aptamers had good performance in the detection of drug-resistant ovarian cancer cells in human serum."
Additional information: Two primers were used for PCR amplification: fluorescein (FAM)-labeled forward primer (5′-FAM-AAG GAG CAG CGT GGA GGA TA-3′) and biotin-labeled reverse primer (5′-biotin-ACC ACG ACG ACA CAC CCT AA-3′).
Reference (2018, Talanta ): He, J., Wang, J., Zhang, N., Shen, L., Wang, L., Xiao, X., Wang, Y., Bing, T., Liu, X., Li, S., & Shangguan, D. (2019). In vitro selection of DNA aptamers recognizing drug-resistant ovarian cancer by cell-SELEX. Talanta, 194, 437–445. https://doi.org/10.1016/j.talanta.2018.10.028
Aptamer: Z100
Target: Zearalenone (ZEN)
Type of nucleic acid: ssDNA
Sequence: 5'ATACCAGCTTATTCAATTCTACCAGCTTTGAGGCTCGATCCAGCTTATTCAATTATACCAGCTTATTCAATTATACCAGCACAATCGTAATCAGTTAG3'
Sequence length: 98
GC content: 0.3673469387755102
Affinity: Kd: 15.2 ± 3.4 nM
Pool type: 5'-ATACCAGCTTATTCAATT-N10-TGAGGCTCGATC-N40-ACAATCGTAATCAGTTAG-3'
Pool random region: 50
Binding buffer/conditions: 50 mM Tris, 100 mM NaCl, 5 mM KCl, 2 mM MgCl2, 1 mM CaCl2, 0.02% vol Tween 20, pH 7.4
Divalent salt: MgCl/CaCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Application as quoted in the referenced paper: Detection: " Contamination of feed with zearalenone (ZEN) presents a significant risk to animal health. After 8 rounds of SELEX (systematic evolution of ligands by exponential enrichment) with an affinity-based monitor and counter-screening process, the ssDNA aptamer Z100 was obtained. Here, a visible, rapid, and cost-effective aptamer-based method is described for the detection of ZEN. This rapid and simple method for ZEN analysis has high sensitivity and can be applied for on-site detection of ZEN in animal feeds."
Reference (2018, J Agric Food Chem ): Zhang, Y., Lu, T., Wang, Y., Diao, C., Zhou, Y., Zhao, L., & Chen, H. (2018). Selection of a DNA Aptamer against Zearalenone and Docking Analysis for Highly Sensitive Rapid Visual Detection with Label-Free Aptasensor. Journal of agricultural and food chemistry, 66(45), 12102–12110. https://doi.org/10.1021/acs.jafc.8b03963
Aptamer: R12.45
Target: Atrazine
Type of nucleic acid: ssDNA
Sequence: 5'TGTACCGTCTGAGCGATTCGTACTTTATTCGGGAAGGGTATCAGCGGGGTTCAACAAGCCAGTCAGTGTTAAGGAGTGC3'
Sequence length: 79
GC content: 0.5063291139240507
Affinity: Not reported
Pool type: 5′-TGTACCGTCTGAGCGATTCGTAC-N34-AGCCAGTCAGTGTTAAGGAGTGC-3′
Pool random region: 34
Binding buffer/conditions: 100 mM NaCl, 20 mM Tris-HCl, and 5 mM MgCl2, pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Application as quoted in the referenced paper: Detection: " Atrazine is an herbicide that is widely used in crop production at about 70 million pounds per year in the United States. This study focuses on the identification and characterization of a single-stranded DNA (ssDNA) aptamer that binds to atrazine. SG assays and AuNPs assays showed nonconventional binding activities between the truncated R12.45 aptamer candidate and atrazine, which warrants future studies."
Reference (2018, ACS Omega ): Abraham, K. M., Roueinfar, M., Ponce, A. T., Lussier, M. E., Benson, D. B., & Hong, K. L. (2018). In Vitro Selection and Characterization of a Single-Stranded DNA Aptamer Against the Herbicide Atrazine. ACS omega, 3(10), 13576–13583. https://doi.org/10.1021/acsomega.8b01859