RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: Lbi-17
Target: Listeria (L. monocytogenes)
Type of nucleic acid: ssDNA
Sequence: 5′AGTATACGTATTACCTGCAGCGAGGGAAGAAGGGCCAGCACAGATCAGATCAATCGCTCCGCGATATCTCGGAGATCTTGC3′
Sequence length: 81
GC content: 0.5185185185185185
Affinity: Kd: 35.7 ± 8.02 μM
Pool type: 5′-AGTATACGTATTACCTGCAGC-N40-CGATATCTCGGAGATCTTGC-3′
Pool random region: 40
Binding buffer/conditions: 1xPBST, 0.05%Tween20 in 1xPBS
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: Diagnostic and Detection: " The purpose of this study was to identify biotinylated single-stranded (ss) DNA aptamers with binding specificity to Listeria and use these for capture and subsequent qPCR detection of the organism. Biotinylated ssDNA aptamers are promising ligands for food-borne pathogen concentration prior to detection using molecular methods."
Reference (2013, J Biotechnol ): Suh, S. H., & Jaykus, L. A. (2013). Nucleic acid aptamers for capture and detection of Listeria spp. Journal of biotechnology, 167(4), 454–461. https://doi.org/10.1016/j.jbiotec.2013.07.027
Aptamer: Lbi-203
Target: Listeria (L. monocytogenes)
Type of nucleic acid: ssDNA
Sequence: 5′AGTATACGTATTACCTGCAGCATAGAGTAGAAGCTACACTACGTAATCACAGACAGATCCACGATATCTCGGAGATCTTGC3′
Sequence length: 81
GC content: 0.4320987654320987
Affinity: Not reported
Pool type: 5′-AGTATACGTATTACCTGCAGC-N40-CGATATCTCGGAGATCTTGC-3′
Pool random region: 40
Binding buffer/conditions: 1xPBST, 0.05%Tween20 in 1xPBS
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: Diagnostic and Detection: " The purpose of this study was to identify biotinylated single-stranded (ss) DNA aptamers with binding specificity to Listeria and use these for capture and subsequent qPCR detection of the organism. Biotinylated ssDNA aptamers are promising ligands for food-borne pathogen concentration prior to detection using molecular methods."
Reference (2013, J Biotechnol ): Suh, S. H., & Jaykus, L. A. (2013). Nucleic acid aptamers for capture and detection of Listeria spp. Journal of biotechnology, 167(4), 454–461. https://doi.org/10.1016/j.jbiotec.2013.07.027
Aptamer: A3
Target: Ara h 1 (peanut allergen)
Type of nucleic acid: ssDNA
Sequence: 5′TCGCACATTCCGCTTCTACCGGGGGGGATATGCACGTCGCGACAGTGTGATTGGGTGGGCTTCGCACACACGGACTTACG3′
Sequence length: 80
GC content: 0.6
Affinity: Not reported
Pool type: 5′-TCGCACATTCCGCTTCTACC-N40-TTCGCACACACGGACTTACG-3′
Pool random region: 40
Binding buffer/conditions: Electrophoresis buffer: (A) 25 mM trizma base, 192 mM glycine, and 5 mM K2HPO4 (TGK pH 8.3) and (B) 8.1 mM Na2HPO4, 1.1 mM KH2PO4, 1 mM MgCl2, 2.7 mM KCl, 40 mM NaCl (PBS pH 7.4)
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 8.3
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " In this paper we report for the first time the selection of aptamers against one of the most important peanut allergens, Ara h 1. The selected aptamer was used for bioassay development on a home-built fiber optic surface plasmon resonance (FO-SPR) biosensor platform for detecting Ara h 1 protein in both buffer and food matrix samples demonstrating its real potential for the development of novel, more accurate aptamer-based biosensors."
Reference (2013, Biosens Bioelectron ): Tran, D. T., Knez, K., Janssen, K. P., Pollet, J., Spasic, D., & Lammertyn, J. (2013). Selection of aptamers against Ara h 1 protein for FO-SPR biosensing of peanut allergens in food matrices. Biosensors & bioelectronics, 43, 245–251. https://doi.org/10.1016/j.bios.2012.12.022
Aptamer: SE-6 (79nt)
Target: Salmonella enterica (S. enteritidis)
Type of nucleic acid: ssDNA
Sequence: 5'CTCCTCTGACTGTAACGTACCAAAATGTTGGATTGGATGTTGTACTGGGTTGCATAGGTAGTCCAGAAGCC'3
Sequence length: 71
GC content: 0.4647887323943662
Affinity: Kd: 53 ± 7 nM (affinity for 80nt)
Pool type: 5′-CTCCTCTGACTGTAACCACG-N40-GCATAGGTAGTCCAGAAGCC-3′
Pool random region: 40
Binding buffer/conditions: 500 μl DPBS buffer
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: Therapeutic: " Salmonella is one of the most dangerous and common food-borne pathogens. The overuse of antibiotics for disease prevention has led to the development of multidrug resistant Salmonella. Now, more than ever, there is a need for new antimicrobial drugs to combat these resistant bacteria. Studies have shown that synthetic pools combined from individual aptamers have the capacity to inhibit growth of S. enteritidis and S. typhimurium in bacterial cultures; this was the result of a decrease in their membrane potential."
Additional information: aptamer has good antibacterial potential
Reference (2013, J Med Chem ): Kolovskaya, O. S., Savitskaya, A. G., Zamay, T. N., Reshetneva, I. T., Zamay, G. S., Erkaev, E. N., Wang, X., Wehbe, M., Salmina, A. B., Perianova, O. V., Zubkova, O. A., Spivak, E. A., Mezko, V. S., Glazyrin, Y. E., Titova, N. M., Berezovski, M. V., & Zamay, A. S. (2013). Development of bacteriostatic DNA aptamers for salmonella. Journal of medicinal chemistry, 56(4), 1564–1572. https://doi.org/10.1021/jm301856j
Aptamer: SE-6 (54nt)
Target: Salmonella enterica (S. enteritidis)
Type of nucleic acid: ssDNA
Sequence: 5'TACCAAAATGTTGGATTGGATGTTGTACTGGGTTGCATAGGTAGTCCAGAAGCC'3
Sequence length: 54
GC content: 0.4444444444444444
Affinity: Kd: 6.3 ± 0.58 nM (affinity for 60nt)
Pool type: 5′-CTCCTCTGACTGTAACCACG-N40-GCATAGGTAGTCCAGAAGCC-3′
Pool random region: 40
Binding buffer/conditions: 500 μl DPBS buffer
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Truncated by removing the first 25 bases
Application as quoted in the referenced paper: Therapeutic: " Salmonella is one of the most dangerous and common food-borne pathogens. The overuse of antibiotics for disease prevention has led to the development of multidrug resistant Salmonella. Now, more than ever, there is a need for new antimicrobial drugs to combat these resistant bacteria. Studies have shown that synthetic pools combined from individual aptamers have the capacity to inhibit growth of S. enteritidis and S. typhimurium in bacterial cultures; this was the result of a decrease in their membrane potential."
Additional information: aptamer has good antibacterial potential
Reference (2013, J Med Chem ): Kolovskaya, O. S., Savitskaya, A. G., Zamay, T. N., Reshetneva, I. T., Zamay, G. S., Erkaev, E. N., Wang, X., Wehbe, M., Salmina, A. B., Perianova, O. V., Zubkova, O. A., Spivak, E. A., Mezko, V. S., Glazyrin, Y. E., Titova, N. M., Berezovski, M. V., & Zamay, A. S. (2013). Development of bacteriostatic DNA aptamers for salmonella. Journal of medicinal chemistry, 56(4), 1564–1572. https://doi.org/10.1021/jm301856j
Aptamer: SE-11 (60nt)
Target: Salmonella enterica (S. enteritidis)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGAACGATTCAAGAACTGTTGGTTGTCGGCTTATTTTCGGCA3′
Sequence length: 60
GC content: 0.4666666666666667
Affinity: Kd: 6.9 ± 0.4 nM
Pool type: 5′-CTCCTCTGACTGTAACCACG-N40-GCATAGGTAGTCCAGAAGCC-3′
Pool random region: 40
Binding buffer/conditions: 500 μl DPBS buffer
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Trucated by removing the last 20 bases
Application as quoted in the referenced paper: Therapeutic: " Salmonella is one of the most dangerous and common food-borne pathogens. The overuse of antibiotics for disease prevention has led to the development of multidrug resistant Salmonella. Now, more than ever, there is a need for new antimicrobial drugs to combat these resistant bacteria. Studies have shown that synthetic pools combined from individual aptamers have the capacity to inhibit growth of S. enteritidis and S. typhimurium in bacterial cultures; this was the result of a decrease in their membrane potential."
Additional information: aptamer can be used as affitity probe in flow cytometry or biosensors
Reference (2013, J Med Chem ): Kolovskaya, O. S., Savitskaya, A. G., Zamay, T. N., Reshetneva, I. T., Zamay, G. S., Erkaev, E. N., Wang, X., Wehbe, M., Salmina, A. B., Perianova, O. V., Zubkova, O. A., Spivak, E. A., Mezko, V. S., Glazyrin, Y. E., Titova, N. M., Berezovski, M. V., & Zamay, A. S. (2013). Development of bacteriostatic DNA aptamers for salmonella. Journal of medicinal chemistry, 56(4), 1564–1572. https://doi.org/10.1021/jm301856j
Aptamer: CYN17
Target: Cytotoxin CNY
Type of nucleic acid: ssDNA
Sequence: 5′ATACCAGCTTATTCAATTCACCACCACAACACACGCACAGCTAGGACCGGTCGTAGGTATATCTGTTGTTCATGCGCGAGATAGTAAGTGCAATCT3'
Sequence length: 96
GC content: 0.4583333333333333
Affinity: Kd: 57.41 nM
Pool type: 5′-ATACCAGCTTATTCAATT-N60-AGATAGTAAGTGCAATCT-3
Pool random region: 60
Binding buffer/conditions: 50 mM Tris, pH 7.5, 150 mM NaCl, 2 mM MgCl2
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: Biosensor: " Contamination of freshwater with cyanotoxin cylindrospermopsin (CYN) represents a significant global concern for public health. The sensitive detection of CYN is necessary to effectively manage and control the treatment of water resources. Here we report a novel, highly sensitive label-free aptasensor for CYN analysis, using aptamers as specific receptors. the aptasensor showed high specificity toward other coexistent cyanobacterial toxins of microcystin-LR and Anatoxin-a. Further biosensor designs will be generated using those aptamers for simple and sensitive CYN monitoring"
Additional information: Not applicable
Reference (2014, Anal Chem ): Elshafey, R., Siaj, M., & Zourob, M. (2014). In vitro selection, characterization, and biosensing application of high-affinity cylindrospermopsin-targeting aptamers. Analytical chemistry, 86(18), 9196–9203. https://doi.org/10.1021/ac502157g
Aptamer: SDA
Target: Recombinant human E-selectin/IgG-Fc-chimeras
Type of nucleic acid: ssDNA
Sequence: 5′GCCTGTTGTGAGCCTCCTAACGATTTGGATTTGGGGTGGAGGGTATGGTTTGTGCTGGCGTTCTCATTTCCCATGCTTATTCTTGTCTCCC3′
Sequence length: 91
GC content: 0.5054945054945055
Affinity: Kd: 98±16 nM
Pool type: 5′-GCCTGTTGTGAGCCTCCTAAC-N50-CATGCTTATTCTTGTCTCCC-3′
Pool random region: 50
Binding buffer/conditions: 3 mM MgCl2 in phosphate buffered saline (PBS), pH 7.5, 1 mg bovine serum albumin (BSA)/mL
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.5
Molecular weight of target: 30 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " Recent studies have demonstrated that selectin deficiency significantly reduces metastasis formation in vivo. We selected an E- and P-Selectin specific DNA Aptamer (SDA) via SELEX. When adhesion of HT29 cells to TNFα-stimulated E-selectin presenting human pulmonary microvascular endothelial cells was analyzed, inhibition via SDA could be demonstrated. In conclusion, SDA is a potential new therapeutic agent that antagonizes selectin-mediated adhesion during metastasis formation in human malignancies."
Additional information: The author mentioned that the SDA aptamer is also highly selective for p-selectin based on sequence homologies and supporting binding affinity tests, although the SELEX procedure was solely conducted on the E-selectin.
Reference (2014, PLoS One ): Faryammanesh, R., Lange, T., Magbanua, E., Haas, S., Meyer, C., Wicklein, D., Schumacher, U., & Hahn, U. (2014). SDA, a DNA aptamer inhibiting E- and P-selectin mediated adhesion of cancer and leukemia cells, the first and pivotal step in transendothelial migration during metastasis formation. PloS one, 9(4), e93173. https://doi.org/10.1371/journal.pone.0093173
Aptamer: A10-2
Target: Golgi protein-73 (GP 73)
Type of nucleic acid: ssDNA
Sequence: 5'ACGCTCGGATGCCACTACAGTTGGTTTTTTTTTGTTATTTAGAGTAAAAACCTTGTGTGTAGTGACTCATGGACGTGCTGGTGAC3'
Sequence length: 85
GC content: 0.4235294117647059
Affinity: Kd: 127.4 ± 18.65 nM.
Pool type: 5′-ACGCTCGGATGCCACTACAG-N45-CTCATGGACGTGCTGGTGAC-3′
Pool random region: 45
Binding buffer/conditions: BSA dissolved in binding buffer (20 mM HEPES, 120 mM NaCl, 5 mM KCl, 1 mM CaCl2, and 1 mM MgCl2, pH 7.3
Divalent salt: MgCl/CaCl
Buffer type: Other Buffers
pH: 7.3
Molecular weight of target: 68 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic: " As one tumor marker of HCC, Golgi Protein 73 (GP73) is given more promise in the early diagnosis of HCC, and aptamers have been developed to compete with antibodies as biorecognition probes in different detection system. In this study, we utilized GP73 to screen specific ssDNA aptamers by SELEX technique. Significantly, the identified aptamer A10-2 could distinguish normal and cancerous liver tissues. So, our results indicate that the aptamer A10-2 might be developed into one molecular probe to detect HCC from normal liver specimens."
Reference (2015, Biomed Res Int ): Du, J., Hong, J., Xu, C., Cai, Y., Xiang, B., Zhou, C., & Xu, X. (2015). Screening and Identification of ssDNA Aptamer for Human GP73. BioMed research international, 2015, 610281. https://doi.org/10.1155/2015/610281
Aptamer: HCT-35
Target: Colon carcinoma cell lines (HCT-8), Human
Type of nucleic acid: ssDNA
Sequence: 5'GGCAGGAAGACAAACAGTGGTTTTGTTTTTGGTGTTTTTTTGGGGTCTGTGGTGCTGT3'
Sequence length: 58
GC content: 0.4482758620689655
Affinity: Kd: 34.4 ± 6.6 nM
Pool type: 5'-GGCAGGAAGACAAACA-N40-GGTCTGTGGTGCTGT-3'
Pool random region: 40
Binding buffer/conditions: 1 L of Dulbecco's phosphate-buffered saline (DPBS, Invitrogen Co., USA), 100 mg transfer ribonucleic acid (Sigma Co., USA), 4.5 g of glucose, and 5 mL of 1 M MgCl2
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: Diagnostic: " Colorectal cancer (CRC) is the most frequently diagnosed cancer around the world, causing about 700,000 deaths every year. These results demonstrated that the integrated microfluidic system is able to rapidly screen aptamers with high affinity and selectivity within a shorter period of time. This technology is promising for screening of aptamer targeting agents for these cancer cells, which could be useful for early diagnosis of CR-CSC/CRC or even target therapeutics."
Reference (2015, Sci Rep ): Hung, L. Y., Wang, C. H., Che, Y. J., Fu, C. Y., Chang, H. Y., Wang, K., & Lee, G. B. (2015). Screening of aptamers specific to colorectal cancer cells and stem cells by utilizing On-chip Cell-SELEX. Scientific reports, 5, 10326. https://doi.org/10.1038/srep10326
Aptamer: ApPABP#3
Target: 6xHIS–LiPABP protein (rLiPABP)
Type of nucleic acid: ssDNA
Sequence: 5'GCGGATGAAGACTGGTGTGGACAGTTCTACGAGGATTACGCTGTTACTAAGTGTGGGGGCCCTAAATACGACGAAC3'
Sequence length: 76
GC content: 0.5131578947368421
Affinity: Kd: 5.4 ± 1.1 nM
Pool type: 5'-GCGGATGAAGACTGGTCT-40N-GTTGCTCGTATTTAGGGC-3'
Pool random region: 40
Binding buffer/conditions: 20 mM Tris-HCl pH 7.4, 1 mM MgCl2, 150 mM NaCl, 5 mM KCl, 0.2% BSA, 26°C for 30 minutes
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: 65 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Therapeutic: " Development of high-affinity molecules with the ability to recognize specifically Leishmania proteins is essential for the progress of this kind of study. Results presented here demonstrate that aptamers represent new reagents for characterization of LiPABP and that they can affect LiPABP activity. At this respect, the use of these aptamers as therapeutic tool affecting the physiological role of PABP has to be analyzed."
Reference (2015, PLoS One ): Guerra-Pérez, N., Ramos, E., García-Hernández, M., Pinto, C., Soto, M., Martín, M. E., & González, V. M. (2015). Molecular and Functional Characterization of ssDNA Aptamers that Specifically Bind Leishmania infantum PABP. PloS one, 10(10), e0140048. https://doi.org/10.1371/journal.pone.0140048
Aptamer: ApPABP#7
Target: 6xHIS–LiPABP protein (rLiPABP)
Type of nucleic acid: ssDNA
Sequence: 5'GCGGATGAAGACTGGTGTCCAGAGTGAACACAAAGAAATTGAAATACGTAAGCTCCGGGCCCTAAATACGAGCAAC3'
Sequence length: 76
GC content: 0.4736842105263157
Affinity: Kd: 6.0 ± 2.6 nM
Pool type: 5'-GCGGATGAAGACTGGTCT-40N-GTTGCTCGTATTTAGGGC-3'
Pool random region: 40
Binding buffer/conditions: 20 mM Tris-HCl pH 7.4, 1 mM MgCl2, 150 mM NaCl, 5 mM KCl, 0.2% BSA, 26°C for 30 minutes
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: 65 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Therapeutic: " Development of high-affinity molecules with the ability to recognize specifically Leishmania proteins is essential for the progress of this kind of study. Results presented here demonstrate that aptamers represent new reagents for characterization of LiPABP and that they can affect LiPABP activity. At this respect, the use of these aptamers as therapeutic tool affecting the physiological role of PABP has to be analyzed."
Reference (2015, PLoS One ): Guerra-Pérez, N., Ramos, E., García-Hernández, M., Pinto, C., Soto, M., Martín, M. E., & González, V. M. (2015). Molecular and Functional Characterization of ssDNA Aptamers that Specifically Bind Leishmania infantum PABP. PloS one, 10(10), e0140048. https://doi.org/10.1371/journal.pone.0140048
Aptamer: CEA A01
Target: Gastrointestinal carcinoembryonic antigen
Type of nucleic acid: ssRNA
Sequence: 5'GGGUCGUGUCGGAUCCAGGCACGACGCAUAGCCUUGGGAGCGAGGAAAGCUUCUAAGGUAACGAU3'
Sequence length: 65
GC content: 0.5692307692307692
Affinity: Kd: 16.5 nM
Pool type: 5'-ATCGTTACCTTAGAAGCTT-N30-GGATCCGACACGACCCTATAGTGAGTCGTATTA-3'
Pool random region: 30
Binding buffer/conditions: RSB-100 buffer (10 mM Tris-HCl, 5 mM MgCl2, 100 mM NaCl, 0.01% NP-40, pH 7.5), 25C for 30 minutes
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.5
Molecular weight of target: 20148.8 G/mol
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Therapeutic: " Gastric cancer is the third most common cause of death from cancer in the world and it remains difficult to cure in Western countries, primarily because most patients present with advanced disease. Currently, CEA, CA50 and CA72-4 are commonly used as tumor markers for gastric cancer by immunoassays. Taking together, these novel RNA aptamers targeting gastrointestinal cancer biomarker CEA, CA50 and CA72-4 will aid further development and standardization of clinical diagnostic method with better sensitivity and specificity, and potentially future therapeutics development of gastric cancer."
Reference (2015, PLoS One ): Pan, Q., Law, C., Yung, M., Han, K. C., Pon, Y. L., & Lau, T. (2018). Novel RNA aptamers targeting gastrointestinal cancer biomarkers CEA, CA50 and CA72-4 with superior affinity and specificity. PloS one, 13(10), e0198980. https://doi.org/10.1371/journal.pone.0198980
Aptamer: Q2
Target: Fluoroquinolones
Type of nucleic acid: ssDNA
Sequence: 5'ATACCAGCTTATTCAATTGCAGGGTATCTGAGGCTTGATCTACTAAATGTCGTGGGGCATTGCTATTGGCGTTGATACGTACAATCGTAATCAGTTAG3'
Sequence length: 98
GC content: 0.4183673469387755
Affinity: Kd: 0.11 ± 0.06 nM
Pool type: 5′-ATACCAGCTTATTCAATT-N10-TGAGGCTCGATC-N40-ACAATCGTAATCAGTTAG-3′
Pool random region: 50
Binding buffer/conditions: Binding buffer (100 mM NaCl, 20 mM Tris–HCl pH 7.6, 2 mM MgCl2, 1 mM CaCl2)
Divalent salt: MgCl/CaCl
Buffer type: Tris Buffers
pH: 7.6
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Biosensor: " Quinolones are antibiotics that are accredited in human and veterinary medicine but are regularly used in high quantities also in industrial livestock farming. Using the Capture-SELEX procedure, we here describe the selection of an aptamer pool with enhanced binding qualities for fluoroquinolones, a widely used group of antibiotics in both human and veterinary medicine. Together, our data suggest that these aptamers may be applicable as molecular receptors in biosensors or as catcher molecules in filter systems for improved monitoring and treatment of polluted water."
Additional information: 5′fluorescein (FAM) primers
Reference (2015, Biosens Bioelectron ): Reinemann, C., Freiin von Fritsch, U., Rudolph, S., & Strehlitz, B. (2016). Generation and characterization of quinolone-specific DNA aptamers suitable for water monitoring. Biosensors & bioelectronics, 77, 1039–1047. https://doi.org/10.1016/j.bios.2015.10.069
Aptamer: Q8
Target: Fluoroquinolones
Type of nucleic acid: ssDNA
Sequence: 5'ATACCAGCTTATTCAATTAGTTGTGTATTGAGGTTTGATCTAGGCATAGTCAACAGAGCACGATCGATCTGGCTTGTTCTACAATCGTAATCAGTTAG3'
Sequence length: 98
GC content: 0.3877551020408163
Affinity: Kd: 0.20 ± 0.09 nM
Pool type: 5′-ATACCAGCTTATTCAATT-N10-TGAGGCTCGATC-N40-ACAATCGTAATCAGTTAG-3′
Pool random region: 50
Binding buffer/conditions: Binding buffer (100 mM NaCl, 20 mM Tris–HCl pH 7.6, 2 mM MgCl2, 1 mM CaCl2)
Divalent salt: MgCl/CaCl
Buffer type: Tris Buffers
pH: 7.6
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Biosensor: " Quinolones are antibiotics that are accredited in human and veterinary medicine but are regularly used in high quantities also in industrial livestock farming. Using the Capture-SELEX procedure, we here describe the selection of an aptamer pool with enhanced binding qualities for fluoroquinolones, a widely used group of antibiotics in both human and veterinary medicine. Together, our data suggest that these aptamers may be applicable as molecular receptors in biosensors or as catcher molecules in filter systems for improved monitoring and treatment of polluted water."
Additional information: 5′fluorescein (FAM) primers
Reference (2015, Biosens Bioelectron ): Reinemann, C., Freiin von Fritsch, U., Rudolph, S., & Strehlitz, B. (2016). Generation and characterization of quinolone-specific DNA aptamers suitable for water monitoring. Biosensors & bioelectronics, 77, 1039–1047. https://doi.org/10.1016/j.bios.2015.10.069
Aptamer: SEB 1
Target: Staphylococcal enterotoxin B (SEB)
Type of nucleic acid: ssDNA
Sequence: 5'ATAGGAGTCACGACGACCAGAACTCGTGTCGTTGTAGTCTGTTGTCAGTTCTGATCTATGCAATGTGCGTCTACCTCTTGACTAAT3'
Sequence length: 86
GC content: 0.4534883720930232
Affinity: Not reported
Pool type: 5'-ATAGGAGTCACGACGACCAGAA-N40-TATGTGCGTCTACCTCTTGACTAAT-3'
Pool random region: 40
Binding buffer/conditions: binding buffer (5 mM Tris–HCl with 1 M NaCl, pH 7.5)
Buffer type: Tris Buffers
pH: 7.5
Molecular weight of target: 28 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " In the present study, we introduce a novel hybrid sandwich-ALISA employing chicken IgY and ssDNA aptamers for the detection of staphylococcal enterotoxin B (SEB). To evaluate the reliability and ease of access, developed method was evaluated onto several food and clinical samples originated from India were undertaken and results of the developed method showed very promising for detection of SEB in tested samples."
Reference (2015, Sci Rep ): Mudili, V., Makam, S. S., Sundararaj, N., Siddaiah, C., Gupta, V. K., & Rao, P. (2015). A novel IgY-Aptamer hybrid system for cost-effective detection of SEB and its evaluation on food and clinical samples. Scientific reports, 5, 15151. https://doi.org/10.1038/srep15151 (Retraction published Sci Rep. 2022 Jun 29;12(1):10939)