RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: RAID3
Target: Soluble pleiotropic cytokine interleukin-6 receptor (sIL-6R) and interleukin-6 receptor domain 3 (IL-6R D3)
Type of nucleic acid: 2'-fluoro-RNA
Sequence: 5'AAUGCGAAGAAAGAGGUCUGAGACAUUCUGGGAGAACUGUGGGAGUGGAGGGUGGAUGGUUCUCUUCUGGAGUUGACGUUGCUU3'
Sequence length: 84
GC content: 0.5
Affinity: Kd: 54.7 ± 5 nM
Pool type: 5'-AATGCGAAGAAAGAGGTCTGAGACATTCT-N60-CTTCTGGAGTTGACGTTGCTT-3'
Pool random region: 60
Binding buffer/conditions: 1 × PBS (137 mM NaCl; 2.7 mM KCl; 6.5 mM Na2HPO4; 1.5 mM KH2PO4) supplemented with 3 mM MgCl2
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: The shortened variant of f4. To test the susceptibility of raid3 for post-selective modification, we subjected a 2'-f-pymodified version of raid3 (raid3 2'-f-py).
Application as quoted in the referenced paper: Therapeutic: " Classic IL-6 signaling is believed to contribute to tissue regeneration and anti-inflammatory processes, whereas trans-signaling is considered to be mainly pro-inflammatory and plays a significant role in autoimmune and chronic inflammatory diseases as well as inflammation-driven cancers. Here we report the selection, characterization and post-selective modification of a 34 nucleotide (nt) RNA aptamer for a non-dominant, novel target site (domain 3) of the interleukin-6 receptor (IL-6R)."
Additional information: Modified RAID3 with 2′-F-Py for stability against abundant serum nucleases like RNase A; In the first 3 cycles of selection, immobilized sIL-6R was used to ensure enrichment of unmodified RNA aptamers that bind to the native soluble cytokine receptor. Domain 3 of the IL-6R was used as the target for 8 additional selection cycles, aiming at aptamers specific for this site of the receptor.
Reference (2015, RNA Biol ): Mittelberger, F., Meyer, C., Waetzig, G. H., Zacharias, M., Valentini, E., Svergun, D. I., Berg, K., Lorenzen, I., Grötzinger, J., Rose-John, S., & Hahn, U. (2015). RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity. RNA biology, 12(9), 1043–1053. https://doi.org/10.1080/15476286.2015.1079681
Aptamer: F2
Target: Soluble pleiotropic cytokine interleukin-6 receptor (sIL-6R) and interleukin-6 receptor domain 3 (IL-6R D3)
Type of nucleic acid: ssRNA
Sequence: 5'AAUGCGAAGAAAGAGGUCUGAGACAUUCUCAACGAACUAUGAGGAAAGGGACCGUGCGAGGGUUGGGUUAGGGUUUGGAGCCACGGUCCUUCUGGAGUUGACGUUGCUU3'
Sequence length: 109
GC content: 0.5137614678899083
Affinity: Kd: 97.7 ± 18.3 nM
Pool type: 5'-AATGCGAAGAAAGAGGTCTGAGACATTCT-N60-CTTCTGGAGTTGACGTTGCTT-3'
Pool random region: 60
Binding buffer/conditions: 1 × PBS (137 mM NaCl; 2.7 mM KCl; 6.5 mM Na2HPO4; 1.5 mM KH2PO4) supplemented with 3 mM 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: Therapeutic: " Classic IL-6 signaling is believed to contribute to tissue regeneration and anti-inflammatory processes, whereas trans-signaling is considered to be mainly pro-inflammatory and plays a significant role in autoimmune and chronic inflammatory diseases as well as inflammation-driven cancers. Here we report the selection, characterization and post-selective modification of a 34 nucleotide (nt) RNA aptamer for a non-dominant, novel target site (domain 3) of the interleukin-6 receptor (IL-6R)."
Additional information: In the first 3 cycles of selection, immobilized sIL-6R was used to ensure enrichment of unmodified RNA aptamers that bind to the native soluble cytokine receptor. Domain 3 of the IL-6R was used as the target for 8 additional selection cycles, aiming at aptamers specific for this site of the receptor.
Reference (2015, RNA Biol ): Mittelberger, F., Meyer, C., Waetzig, G. H., Zacharias, M., Valentini, E., Svergun, D. I., Berg, K., Lorenzen, I., Grötzinger, J., Rose-John, S., & Hahn, U. (2015). RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity. RNA biology, 12(9), 1043–1053. https://doi.org/10.1080/15476286.2015.1079681
Aptamer: F3
Target: Soluble pleiotropic cytokine interleukin-6 receptor (sIL-6R) and interleukin-6 receptor domain 3 (IL-6R D3)
Type of nucleic acid: ssRNA
Sequence: 5'AAUGCGAAGAAAGAGGUCUGAGACAUUCUGAAGAGAGAAAGCCAGUAGAGGGAAGAGGGAUGAGGGACGUGGGAAUCUUGGUAAUCAGUCUUCUGGAGUUGACGUUGCUU3'
Sequence length: 110
GC content: 0.4727272727272727
Affinity: Kd: 179 ± 117 nM
Pool type: 5'-AATGCGAAGAAAGAGGTCTGAGACATTCT-N60-CTTCTGGAGTTGACGTTGCTT-3'
Pool random region: 60
Binding buffer/conditions: 1 × PBS (137 mM NaCl; 2.7 mM KCl; 6.5 mM Na2HPO4; 1.5 mM KH2PO4) supplemented with 3 mM 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: Therapeutic: " Classic IL-6 signaling is believed to contribute to tissue regeneration and anti-inflammatory processes, whereas trans-signaling is considered to be mainly pro-inflammatory and plays a significant role in autoimmune and chronic inflammatory diseases as well as inflammation-driven cancers. Here we report the selection, characterization and post-selective modification of a 34 nucleotide (nt) RNA aptamer for a non-dominant, novel target site (domain 3) of the interleukin-6 receptor (IL-6R)."
Additional information: In the first 3 cycles of selection, immobilized sIL-6R was used to ensure enrichment of unmodified RNA aptamers that bind to the native soluble cytokine receptor. Domain 3 of the IL-6R was used as the target for 8 additional selection cycles, aiming at aptamers specific for this site of the receptor.
Reference (2015, RNA Biol ): Mittelberger, F., Meyer, C., Waetzig, G. H., Zacharias, M., Valentini, E., Svergun, D. I., Berg, K., Lorenzen, I., Grötzinger, J., Rose-John, S., & Hahn, U. (2015). RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity. RNA biology, 12(9), 1043–1053. https://doi.org/10.1080/15476286.2015.1079681
Aptamer: ABA1 (Ang2-binding aptamer 1)
Target: Angiopoietin-2 (Ang2), Human
Type of nucleic acid: ssDNA
Sequence: 5'AGCAGCACAGAGGTCAGATGACTTGTAGGGTTCGGCTGGTCAGGGTGTCCAAGTCTGTGGCCTATGCGTGCTACCGTGAA3′
Sequence length: 80
GC content: 0.5625
Affinity: Kd: 20.5 ± 7.33 nM
Pool type: 5′-AGCAGCACAGAGGTCAGATG-40N-CCTATGCGTGCTACCGTGAA-3′
Pool random region: 40
Binding buffer/conditions: 20 mM HEPES, 150 mM NaCl, 1 mM MgCl2, 1 mM CaCl2, pH 7.4
Divalent salt: MgCl/CaCl
Buffer type: Other Buffers
pH: 7.4
Molecular weight of target: N/a
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Research and Detection: " Affinity reagent pairs that recognize distinct epitopes on a target protein can greatly improve the sensitivity and specificity of molecular detection. nfortunately, aptamer pairs are difficult to generate, primarily because conventional selection methods preferentially yield aptamers that recognize a dominant "hot spot" epitope. Our array-based discovery platform for multivalent aptamers (AD-MAP) overcomes this problem to achieve efficient discovery of aptamer pairs. As a proof of concept, we have used AD-MAP to discover novel DNA aptamer pairs that bind to human angiopoeitin-2 (Ang2), an important protein mediator of angiogenesis for colon, prostate and breast cancers"
Reference (2015, Anal Chem ): Cho, M., Oh, S. S., Nie, J., Stewart, R., Radeke, M. J., Eisenstein, M., Coffey, P. J., Thomson, J. A., & Soh, H. T. (2015). Array-based discovery of aptamer pairs. Analytical chemistry, 87(1), 821–828. https://doi.org/10.1021/ac504076k
Aptamer: ABA65
Target: Angiopoietin-2 (Ang2), Human
Type of nucleic acid: ssDNA
Sequence: 5'AGCAGCACAGAGGTCAGATGTTTGGGGTGGTTGGGGGTTGTTGTTTTGGGGGTGGAGGGTCCTATGCGTGCTACCGTGAA3′
Sequence length: 80
GC content: 0.5625
Affinity: Kd: 37.6 ± 5.92 nM
Pool type: 5′-AGCAGCACAGAGGTCAGATG-40N-CCTATGCGTGCTACCGTGAA-3′
Pool random region: 40
Binding buffer/conditions: 20 mM HEPES, 150 mM NaCl, 1 mM MgCl2, 1 mM CaCl2, pH 7.4
Divalent salt: MgCl/CaCl
Buffer type: Other Buffers
pH: 7.4
Molecular weight of target: N/a
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Research and Detection: " Affinity reagent pairs that recognize distinct epitopes on a target protein can greatly improve the sensitivity and specificity of molecular detection. nfortunately, aptamer pairs are difficult to generate, primarily because conventional selection methods preferentially yield aptamers that recognize a dominant "hot spot" epitope. Our array-based discovery platform for multivalent aptamers (AD-MAP) overcomes this problem to achieve efficient discovery of aptamer pairs. As a proof of concept, we have used AD-MAP to discover novel DNA aptamer pairs that bind to human angiopoeitin-2 (Ang2), an important protein mediator of angiogenesis for colon, prostate and breast cancers"
Reference (2015, Anal Chem ): Cho, M., Oh, S. S., Nie, J., Stewart, R., Radeke, M. J., Eisenstein, M., Coffey, P. J., Thomson, J. A., & Soh, H. T. (2015). Array-based discovery of aptamer pairs. Analytical chemistry, 87(1), 821–828. https://doi.org/10.1021/ac504076k
Aptamer: R1-4
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGAGATTGCGGATTGCCCACGTGGAAAGTGATTTGTTCGTCCGGCATAGGTAGTCCAGAAGCC3′
Sequence length: 81
GC content: 0.5308641975308642
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: R4-1
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGTCTTGGGGCAGGCATGAGGTGTGGCAGAGGTAAGGGATAAGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.55
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: R4-3
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGCACACAAACTGAATTCTCAGGATGTGGTGATGGTTTGCATGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.4875
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: R4-6
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGGTGGTCCCGCAAAATGCACGACGAGTCTTGCTTCTGATCTGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.5375
Affinity: ∆I: 177.5 ± 6.1 μA
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: R4-8
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGCTAGGTCACGCTTAGGATGAATAACGCCCTCTTGGTTACAGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.5125
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: R4-9
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGCTCTGTGGCGCTTGGGATGATCAACGGCCTCTTGGTTACGGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.5625
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: R4-10
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGCACTGCATCCTCACTACCGAGCCCATCATCGCACGGATCGCGCATAGGTAGTCCAGAAGCC3′
Sequence length: 81
GC content: 0.5802469135802469
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: R4-11
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGCGAACTAAAGGGCGGAGTCCAGACAGAAGTGGTTGTAGCTGCATAGGTAGTCCAGAAGCC3′
Sequence length: 80
GC content: 0.5375
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: R4-12
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGATTGTGACTGTGAAGGTCCAGATTGGGCAATCCGTTGTAAGCATAGGTAGTCCAGAAGCC3′
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: R8-2
Target: Cryptosporidium parvum (C.parvum) oocysts
Type of nucleic acid: ssDNA
Sequence: 5′CTCCTCTGACTGTAACCACGTCTTCCGTAGCGTCAGTGTAGTGCCTCAAATCGCAATGTGCATAGGTAGTCCAGAAGCC3′
Sequence length: 79
GC content: 0.5189873417721519
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