RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: A5
Target: Ara h 1 (peanut allergen)
Type of nucleic acid: ssDNA
Sequence: 5′TCGCACATTCCGCTTCTACCGGGGGGGATCGCAATGTCCGGTGATCATTGGGGTGGGGTGTTCGCACACACGGACTTACG3′
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: A6
Target: Ara h 1 (peanut allergen)
Type of nucleic acid: ssDNA
Sequence: 5′TCGCACATTCCGCTTCTACCGCCGCACAATCGGGTTGGGCAGGGAGGGCACGTGTGGCGCTTCGCACACACGGACTTACG3′
Sequence length: 80
GC content: 0.6375
Affinity: Kd: 1210 ± 60 nM
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: A7
Target: Ara h 1 (peanut allergen)
Type of nucleic acid: ssDNA
Sequence: 5′TCGCACATTCCGCTTCTACCGCCGCACAATCGGGTTGGGCGGGGAGGGCACGTGTGGCGCTTCGCACACACGGACTTACG3′
Sequence length: 80
GC content: 0.65
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-3 (80nt)
Target: Salmonella enterica (S. enteritidis)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGTCGGCAACAAGGTCACCCGGAGAAGATCGGTGGTCAAACTGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.55
Affinity: Not reported
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 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: SE-3 (60nt)
Target: Salmonella enterica (S. enteritidis)
Type of nucleic acid: ssDNA
Sequence: 5'TCGGCAACAAGGTCACCCGGAGAAGATCGGTGGTCAAACTGCATAGGTAGTCCAGAAGCC3′
Sequence length: 60
GC content: 0.55
Affinity: Kd: 7.8 ± 6.1 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 first 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: SE-20 (80nt)
Target: Salmonella enterica (S. enteritidis)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGCACAAAGGCTCGCGCATGGTGTGTACGTTCTTACAGAGGTGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.5375
Affinity: Kd: 28 ± 3.8 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: 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-20 (60nt)
Target: Salmonella enterica (S. enteritidis)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGCACAAAGGCTCGCGCATGGTGTGTACGTTCTTACAGAGGT3'
Sequence length: 60
GC content: 0.5333333333333333
Affinity: Kd: 7.1 ± 0.62 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 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-34 (80nt)
Target: Salmonella enterica (S. enteritidis)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGTGCCGCTAAACGCCGGCTCATCGTTATGCTTTTCATTGCAGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.525
Affinity: Kd: 56 ± 7.1 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: 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 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: ST-1 (80nt)
Target: Salmonella typhimurium (S. typhimurium)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGGAGTTAATCAATACAAGGCGGGAACATCCTTGGCGGTGCCGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.5375
Affinity: Kd: 37 ± 2.7 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: 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 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: ST-1 (40nt)
Target: Salmonella typhimurium (S. typhimurium)
Type of nucleic acid: ssDNA
Sequence: 5′GAGTTAATCAATACAAGGCGGGAACATCCTTGGCGGTGCC3′
Sequence length: 40
GC content: 0.525
Affinity: Kd: 5.3 ± 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 first 20 bases and 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: ST-6 (60nt)
Target: Salmonella typhimurium (S. typhimurium)
Type of nucleic acid: ssDNA
Sequence: 5′GCCTCTAAGGCTCACCTTGAAGCGCCCGGACTAAGCTGCTCGCATAGGTAGTCCAGAAGCC3′
Sequence length: 61
GC content: 0.5901639344262295
Affinity: Kd: 13 ± 1.1 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 first 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: ST-12 (80nt)
Target: Salmonella typhimurium (S. typhimurium)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGGTGGTTTGATCACTATTGGGCCTTTGTGATGTCGGTAGTCGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.5125
Affinity: Kd: 15.4 ±1.8 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: 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: ST-12 (60nt)
Target: Salmonella typhimurium (S. typhimurium)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGGTGGTTTGATCACTATTGGGCCTTTGTGATGTCGGTAGT3′
Sequence length: 59
GC content: 0.4915254237288136
Affinity: Kd: 4.5 ± 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 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: ST-33 (60nt)
Target: Salmonella typhimurium (S. typhimurium)
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGGTGGGAGAGATGCTATACAATCTTGTAAGGCGATGGACCG3′
Sequence length: 60
GC content: 0.5166666666666667
Affinity: Kd: 51 ± 4.3 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 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: A-1
Target: Hepatoma HepG2 cells, Human
Type of nucleic acid: ssDNA
Sequence: 5'CAGCTCAGAAGCTTGATCCTGTGTAACTCAATAAGCTAGGTGGGTGGGGGACACTACCCGGGGGTGGTTGGGTGACTCGAAGTCGTGCATCTGCA3'
Sequence length: 95
GC content: 0.5578947368421052
Affinity: Kd: 450 ± 360 nM
Pool type: 5'-CAGCTCAGAAGCTTGATCCTGTG-N50-GACTCGAAGTCGTGCATCTGCA-3'
Pool random region: 50
Binding buffer/conditions: D-PBS(+) supplemented with 1 mg/ml bovine serum albumin (BSA). To decrease non-specific binding, the binding buffer was supplemented with 20% FBS and 1 mg/ml BSA after round 6.
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: Dection and Therapeutic: " ssDNA aptamers recognizing human hepatoma HepG2 cells were isolated using cell-SELEX. Our previous study reported a new targeted DDS for cancer therapy that delivers titanium dioxide (TiO2) nanoparticles to tumor tissues with subsequent generation of hydroxyl radicals from TiO2 nanoparticles activated by external ultrasound irradiation.34 The construction of the TiO2 nanoparticle–aptamer conjugate will be able to provide sonodynamic cancer therapy with enhanced treatment specificity and efficacy."
Reference (2013, Bioorg Med Chem Lett ): Ninomiya, K., Kaneda, K., Kawashima, S., Miyachi, Y., Ogino, C., & Shimizu, N. (2013). Cell-SELEX based selection and characterization of DNA aptamer recognizing human hepatocarcinoma. Bioorganic & medicinal chemistry letters, 23(6), 1797–1802. https://doi-org.ezproxy.lib.utexas.edu/10.1016/j.bmcl.2013.01.040