Year : 2009

Total records found: 27

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AptBacDB_ID ⇅ PMID/DOI ⇅ Year ⇅ Title ⇅ Aptamer name ⇅ Sequence (5′ to 3′) ⇅ Length ⇅ Library ⇅ Type ⇅ Target Organism ⇅ Target ⇅ Objective/Mechanism ⇅ Outcome/Inhibitory effect ⇅ No. of selection round SELEX ⇅ Determination of affinity method ⇅ Kd value ⇅ Activity Role ⇅ Method ⇅ Modification ⇅ Cytotoxicity (cell viability) ⇅ Stability⇅ Potential Candidate ⇅ Half-life ⇅ Patent ⇅
ABdb_0049 194980772009Combining use of a panel of ssDNA aptamers in the detection of Staphylococcus aureusSA20GCAATGGTACGGTACTTCC-GCGCCCTCTCACGTGGCACTCAGAGTGCCGGAAGTTCTGCGTTAT-CAAAAGTGCACGCTACTTTGCTAA885'-GCAATGGTACGGTACTTCC-N45-CAAAAGTGCACGCTACTTTGCTAA-3'ssDNAStaphylococcus aureus (S. aureus)Whole cellIdentify aptamers that bind to S. aureus strains, including 8325-4, 196, and 04018, and develop a probe to distinguish them from S. epidermidis, Streptococcus, and E. coli.EC50 = 70.86 ± 39.22nM and with Multiple aptamers: 479.98 ± 209.94nM.5Flow CytometryN/ADetectionSubtractive SELEX5'-FITC LabeledN/AN/AN/AN/AN/A
ABdb_0050 194980772009Combining use of a panel of ssDNA aptamers in the detection of Staphylococcus aureusSA23GCAATGGTACGGTACTTCC-GGGCTGGCCAGATCAGACCCCGGATGATCATCCTTGTGAGAACCA-CAAAAGTGCACGCTACTTTGCTAA885'-GCAATGGTACGGTACTTCC-N45-CAAAAGTGCACGCTACTTTGCTAA-3'ssDNAStaphylococcus aureus (S. aureus)Whole cellRecognition of different S. aureus strains and mixed aptamer probes distinguishes S. aureus strains, including 8325-4, 196 and 04018, from S. epidermidis, Streptococcus and E. coli.EC50 = 61.50 ± 22.43nM and with Multiple aptamers: 479.98 ± 209.94nM.5Flow CytometryN/ADetectionSubtractive SELEX5'-FITC LabeledN/AN/AN/AN/AN/A
ABdb_0051 194980772009Combining use of a panel of ssDNA aptamers in the detection of Staphylococcus aureusSA31GCAATGGTACGGTACTTCC-TCCCACGATCTCATTAGTCTGTGGATAAGCGTGGGACGTCTATGA-CAAAAGTGCACGCTACTTTGCTAA885'-GCAATGGTACGGTACTTCC-N45-CAAAAGTGCACGCTACTTTGCTAA-3'ssDNAStaphylococcus aureus (S. aureus)Whole cellRecognition of different S. aureus strains and mixed aptamer probes distinguishes S. aureus strains, including 8325-4, 196 and 04018, from S. epidermidis, Streptococcus and E. coli.EC50=82.86 ± 33.20nM and with Multiple aptamers: 479.98 ± 209.94nM.5Flow CytometryN/ADetectionSubtractive SELEX5'-FITC LabeledN/AN/AN/AN/AN/A
ABdb_0052 194980772009Combining use of a panel of ssDNA aptamers in the detection of Staphylococcus aureusSA34GCAATGGTACGGTACTTCC-CACAGTCACTCAGACGGCCGCTATTGTTGCCAGATTGCCTTTGGC-CAAAAGTGCACGCTACTTTGCTAA885'-GCAATGGTACGGTACTTCC-N45-CAAAAGTGCACGCTACTTTGCTAA-3'ssDNAStaphylococcus aureus (S. aureus)Whole cellRecognition of different S. aureus strains and mixed aptamer probes distinguishes S. aureus strains, including 8325-4, 196 and 04018, from S. epidermidis, Streptococcus and E. coli.EC50 =72.42 ± 35.23nM and with Multiple aptamers: 479.98 ± 209.94nM.5Flow CytometryN/ADetectionSubtractive SELEX5'-FITC LabeledN/AN/AN/AN/AN/A
ABdb_0053 194980772009Combining use of a panel of ssDNA aptamers in the detection of Staphylococcus aureusSA43GCAATGGTACGGTACTTCC-TCGGCACGTTCTCAGTAGCGCTCGCTGGTCATCCCACAGCTACGT-CAAAAGTGCACGCTACTTTGCTAA885'-GCAATGGTACGGTACTTCC-N45-CAAAAGTGCACGCTACTTTGCTAA-3'ssDNAStaphylococcus aureus (S. aureus)Whole cellRecognition of different S. aureus strains and mixed aptamer probes distinguishes S. aureus strains, including 8325-4, 196 and 04018, from S. epidermidis, Streptococcus and E. coli.EC50 = 210.70 ± 135.91nM and with Multiple aptamers: 479.98 ± 209.94nM.5Flow CytometryN/ADetectionSubtractive SELEX5'-FITC LabeledN/AN/AN/AN/AN/A
ABdb_0054 186712602009Preliminary development of DNA aptamer-Fc conjugate opsoninsα-PDGA 2FCATCCGTCACACCTGCTCTG-GTTCGCCCCGGTCAAGGAGA-GTGGTGTTGGCTCCCGTATC605'-CATCCGTCACACCTGCTCTG-N20-GTGGTGTTGGCTCCCGTATC-3'ssDNABacillus Anthracis (BA)Poly-alpha-D-glutamic acid (α-PDGA-coated magnetic beads (MBs)) part of the B.anthracis capsuleIdentify aptamers against α-PDGA-MBs and couple them to Fc fragments of murine IgG DNA to act as potential opsonins.Increase in phagocytic index (P.I.) up to threefold in the first 30 min of exposure to α-PDGA-MBs.5Colorimetric Peroxidase-Based Aptamer Plate Binding AssayN/ATherapeuticsMagnetic Bead (MB)-based SELEX5'-Amidation (NH₂) and 5'-BiotinylatedCell viability ranged from 90% to 95% in all experiments.N/ABest CandidateN/AN/A
ABdb_0055 186712602009Preliminary development of DNA aptamer-Fc conjugate opsoninsα-PDGA 5RGATACGGGAGCCAACACCAC-TAACTTGTTGCTGATCTTAT-CAGAGCAGGTGTGACGGATG605'-CATCCGTCACACCTGCTCTG-N20-GTGGTGTTGGCTCCCGTATC-3'ssDNABacillus Anthracis (BA)Poly-alpha-D-glutamic acid (α-PDGA-coated magnetic beads (MBs)) part of the B.anthracis capsuleIdentify aptamers against α-PDGA-MBs and couple them to Fc fragments of murine IgG DNA to act as potential opsonins.Increase in phagocytic index (P.I.) up to threefold in the first 30 min of exposure to α-PDGA-MBs.5Colorimetric Peroxidase-Based Aptamer Plate Binding AssayN/ATherapeuticsMagnetic Bead (MB)-based SELEX5'-Amidation (NH₂) and 5'-BiotinylatedCell viability ranged from 90% to 95% in all experiments.N/ABest CandidateN/AN/A
ABdb_0056 186712602009Preliminary development of DNA aptamer-Fc conjugate opsoninsα-PDGA 2RGATACGGGAGCCAACACCAC-TCTCCTTGACCGGGGCGAAC-CAGAGCAGGTGTGACGGATG605'-CATCCGTCACACCTGCTCTG-N20-GTGGTGTTGGCTCCCGTATC-3'ssDNABacillus Anthracis (BA)Poly-alpha-D-glutamic acid (α-PDGA-coated magnetic beads (MBs)) part of the B.anthracis capsuleIdentify aptamers against α-PDGA-MBs and couple them to Fc fragments of murine IgG DNA to act as potential opsonins.N/A5Colorimetric Peroxidase-Based Aptamer Plate Binding AssayN/ATherapeuticsMagnetic Bead (MB)-based SELEX5'-Amidation (NH₂) and 5'-BiotinylatedCell viability ranged from 90% to 95% in all experiments.N/AN/AN/AN/A
ABdb_0057 186712602009Preliminary development of DNA aptamer-Fc conjugate opsoninsα-PDGA 5FCATCCGTCACACCTGCTCTG-GATAAGATCAGCAACAAGTTA-GTGGTGTTGGCTCCCGTATC615'-CATCCGTCACACCTGCTCTG-N20-GTGGTGTTGGCTCCCGTATC-3'ssDNABacillus Anthracis (BA)Poly-alpha-D-glutamic acid (α-PDGA-coated magnetic beads (MBs)) part of the B.anthracis capsuleIdentify aptamers against α-PDGA-MBs and couple them to Fc fragments of murine IgG DNA to act as potential opsonins.N/A5Colorimetric Peroxidase-Based Aptamer Plate Binding AssayN/ATherapeuticsMagnetic Bead (MB)-based SELEX5'-Amidation (NH₂) and 5'-BiotinylatedCell viability ranged from 90% to 95% in all experiments.N/AN/AN/AN/A
ABdb_0058 197514192009Antibiotic resistance in bacteria: novel metalloenzyme inhibitorsMetallo-β-lactamase-targeting aptamersCGCGAGCTCCGCGCG-AACCAAACTTGGATCGGTGCACATGTCGAA-CGCGCGCATATGGCGC615'-CGCGAGCTCCGCGCG-N30-CGCGCGCATATGGCGC-3'ssDNABacillus Cereus 5/B/6 and Escherichia Coli (E. Coli) TAP56Metallo-β-lactamase active sitesIdentify aptamers that bind and inhibit the hydrolytic enzyme activity by interfering with the active-site metal ions of the β-lactamase enzyme.LC50 values in the presence of 5 μM cephalexin: 75 μM and 32 μM for B. cereus 5/B/6 and E. coli TAP56, respectively.21Metallo-β-lactamase activity assaysKi = 0.92 nMTherapeuticsSELEXN/AN/AN/AN/AN/AN/A
ABdb_0059 192656722009A novel lipopolysaccharide-antagonizing aptamer protects mice against endotoxemiaAptamer 19TAGGGAATTCGTCACGGATCC-GGCGTCCACTCCCAGCCGCTCACTAGTTTCTGCGTGGGTGA-CTGCAGGTCGACGCATGCGCCG845'-TAGGGAATTCGTCACGGATCC-N40-CTGCAGGTCGACGCATGCGCCG-3'ssDNAGram-negative BacteriaEndotoxin (Lipopolysaccharide (LPS))Identify aptamers that bind to and inhibit LPS-induced sepsis by decreasing NF-κB activation of monocytes.Survival rate of mice with LPS-induced sepsis increased from 10% to 75% after treatment.12Nitrocellulose Filter Binding AssayN/ADiagnostic/TherapeuticsSELEX5'-Radiolabelled ([γ-32P]-ATP-labeled)N/AN/ABest CandidateN/AN/A
ABdb_0060 192656722009A novel lipopolysaccharide-antagonizing aptamer protects mice against endotoxemiaAptamer 18TAGGGAATTCGTCACGGATCC-GGCGTCCACTCCCAGCCGGTCACTAGTTTCTGCGTGGGTGA-CTGCAGGTCGACGCATGCGCCG845'-TAGGGAATTCGTCACGGATCC-N40-CTGCAGGTCGACGCATGCGCCG-3'ssDNAGram-negative BacteriaEndotoxin (Lipopolysaccharide (LPS))Identify aptamers that bind to and inhibit LPS-induced sepsis by decreasing NF-κB activation of monocytes.N/A12Nitrocellulose Filter Binding AssayN/ADiagnostic/TherapeuticsSELEX5'-Radiolabelled ([γ-32P]-ATP-labeled)N/AN/AN/AN/AN/A
ABdb_0061 192656722009A novel lipopolysaccharide-antagonizing aptamer protects mice against endotoxemiaAptamer 31TAGGGAATTCGTCACGGATCC-GGAGAATAACGACAAAAGGTAAACTACAGGCCCGGAGC-CTGCAGGTCGACGCATGCGCCG815'-TAGGGAATTCGTCACGGATCC-N40-CTGCAGGTCGACGCATGCGCCG-3'ssDNAGram-negative BacteriaEndotoxin (Lipopolysaccharide (LPS))Identify aptamers that bind to and inhibit LPS-induced sepsis by decreasing NF-κB activation of monocytes.N/A12Nitrocellulose Filter Binding AssayN/ADiagnostic/TherapeuticsSELEX5'-Radiolabelled ([γ-32P]-ATP-labeled)N/AN/AN/AN/AN/A
ABdb_0062 192656722009A novel lipopolysaccharide-antagonizing aptamer protects mice against endotoxemiaAptamer 14TAGGGAATTCGTCACGGATCC-AAAAGTCCTTGCAAGATAGACGCAGCCAGCCGGGTAGTC-CTGCAGGTCGACGCATGCGCCG825'-TAGGGAATTCGTCACGGATCC-N40-CTGCAGGTCGACGCATGCGCCG-3'ssDNAGram-negative BacteriaEndotoxin (Lipopolysaccharide (LPS))Identify aptamers that bind to and inhibit LPS-induced sepsis by decreasing NF-κB activation of monocytes.N/A12Nitrocellulose Filter Binding AssayN/ADiagnostic/TherapeuticsSELEX5'-Radiolabelled ([γ-32P]-ATP-labeled)N/AN/AN/AN/AN/A
ABdb_0063 192656722009A novel lipopolysaccharide-antagonizing aptamer protects mice against endotoxemiaAptamer 25TAGGGAATTCGTCACGGATCC-CTTGGCGTTACTTACCTGTACGTCGTAGAG-CTGCAGGTCGACGCATGCGCCG735'-TAGGGAATTCGTCACGGATCC-N40-CTGCAGGTCGACGCATGCGCCG-3'ssDNAGram-negative BacteriaEndotoxin (Lipopolysaccharide (LPS))Identify aptamers that bind to and inhibit LPS-induced sepsis by decreasing NF-κB activation of monocytes.N/A12Nitrocellulose Filter Binding AssayN/ADiagnostic/TherapeuticsSELEX5'-Radiolabelled ([γ-32P]-ATP-labeled)N/AN/AN/AN/AN/A
ABdb_0064 192656722009A novel lipopolysaccharide-antagonizing aptamer protects mice against endotoxemiaAptamer 43TAGGGAATTCGTCACGGATCC-TGAACGACGTCGCATTAGCGAGTAGGTTTACGAAGTAAGA-CTGCAGGTCGACGCATGCGCCG835'-TAGGGAATTCGTCACGGATCC-N40-CTGCAGGTCGACGCATGCGCCG-3'ssDNAGram-negative BacteriaEndotoxin (Lipopolysaccharide (LPS))Identify aptamers that bind to and inhibit LPS-induced sepsis by decreasing NF-κB activation of monocytes.N/A12Nitrocellulose Filter Binding AssayN/ADiagnostic/TherapeuticsSELEX5'-Radiolabelled ([γ-32P]-ATP-labeled)N/AN/AN/AN/AN/A
ABdb_0065 192842972009The selection and application of ssDNA aptamers against MPT64 protein in Mycobacterium tuberculosisM64CA (aptamers 20, 34, 41, 46, and 50 )GGGAGCTCAGAATAAACGCTCAA-TTCGGGAATGATTATCAAATTTATGCCCTCTGAT-TTCGACATGAGGCCCGGATC775'-GGGAGCTCAGAATAAACGCTCAA-N35-TTCGACATGAGGCCCGGATC-3'ssDNAMycobacterium Tuberculosis (M.Tb.)MPT64 proteinIdentify an aptamer that binds to MPT64, and an aptamer-MPT64 was designed to detect M. tuberculosis by measuring MPT64 protein levels in culture filtrates.The sandwich assay scheme based on the aptamer-protein complex had a high sensitivity (86.3%) and specificity (88.5%).12N/AN/ADetectionSELEXBiotinylatedN/AN/AN/AN/AN/A
ABdb_0066 192842972009The selection and application of ssDNA aptamers against MPT64 protein in Mycobacterium tuberculosisAptamer 11 (named M64RA)GGGAGCTCAGAATAAACGCTCAA-TGGGAGCTGATGTCGCATGGGTTTTGATCACATGA-TTCGACATGAGGCCCGGATC785'-GGGAGCTCAGAATAAACGCTCAA-N35-TTCGACATGAGGCCCGGATC-3'ssDNAMycobacterium Tuberculosis (M.Tb.)MPT64 proteinIdentify an aptamer that binds to MPT64, and an aptamer-MPT64 was designed to detect M. tuberculosis by measuring MPT64 protein levels in culture filtrates.The sandwich assay scheme based on the aptamer-protein complex had a high sensitivity (86.3%) and specificity (88.5%).12N/AN/ADetectionSELEXBiotinylatedN/AN/AN/AN/AN/A
ABdb_0067 190498622009Selection, characterization, and application of DNA aptamers for the capture and detection of Salmonella enterica serovarsAptamer 33TTTGGTCCTTGTCTTATGTCCAGAATGC-TATGGCGGCGTCACCCGACGGGGACTTGACATTATGACAG-ATTTCTCCTACTGGGATAGGTGGATTAT965'-TTTGGTCCTTGTCTTATGTCCAGAATGC-N40-ATTTCTCCTACTGGGATAGGTGGATTAT-3'ssDNASalmonella Typhimurium (S. Typhimurium) DT104Outer membrane protein (OMP)Identify aptamers that capture and detect Salmonella enterica serovar. Typhimurium.In a pull-down assay format, detection limits were 10¹–10² CFU S. Typhimurium/9 mL rinsate, while in a recirculation format, detection limits were 10²–10³ CFU/25 mL rinsate.7Electrophoretic Mobility Shift Assay (EMSA)N/ABiosensorSELEX5'-FAM LabeledN/AN/ABest CandidateN/AN/A
ABdb_0068 190498622009Selection, characterization, and application of DNA aptamers for the capture and detection of Salmonella enterica serovarsAptamer 23TTTGGTCCTTGTCTTATGTCCAGAATGC-CCGCCTTTACTAAATTGACGAACATAGGAATCAATGAAGC-ATTTCTCCTACTGGGATAGGTGGATTAT965'-TTTGGTCCTTGTCTTATGTCCAGAATGC-N40-ATTTCTCCTACTGGGATAGGTGGATTAT-3'ssDNASalmonella Typhimurium (S. Typhimurium) DT104Outer membrane protein (OMP)Identify aptamers that capture and detect Salmonella enterica serovar. Typhimurium.N/A7Electrophoretic Mobility Shift Assay (EMSA)N/ABiosensorSELEX5'-FAM LabeledN/AN/AN/AN/AN/A
ABdb_0069 190498622009Selection, characterization, and application of DNA aptamers for the capture and detection of Salmonella enterica serovarsAptamer 24TTTGGTCCTTGTCTTATGTCCAGAATGC-GGGAGTCAGAACGCCTGGGCAAGCATAGTACTCGCCGGAA-ATTTCTCCTACTGGGATAGGTGGATTAT965'-TTTGGTCCTTGTCTTATGTCCAGAATGC-N40-ATTTCTCCTACTGGGATAGGTGGATTAT-3'ssDNASalmonella Typhimurium (S. Typhimurium) DT104Outer membrane protein (OMP)Identify aptamers that capture and detect Salmonella enterica serovar. Typhimurium.N/A7Electrophoretic Mobility Shift Assay (EMSA)N/ABiosensorSELEX5'-FAM LabeledN/AN/AN/AN/AN/A
ABdb_0070 190498622009Selection, characterization, and application of DNA aptamers for the capture and detection of Salmonella enterica serovarsAptamer 25TTTGGTCCTTGTCTTATGTCCAGAATGC-TAAAGAGGAATCGACAGGCATCAGAGTCCGTAATGCGGGG-ATTTCTCCTACTGGGATAGGTGGATTAT965'-TTTGGTCCTTGTCTTATGTCCAGAATGC-N40-ATTTCTCCTACTGGGATAGGTGGATTAT-3'ssDNASalmonella Typhimurium (S. Typhimurium) DT104Outer membrane protein (OMP)Identify aptamers that capture and detect Salmonella enterica serovar. Typhimurium.N/A7Electrophoretic Mobility Shift Assay (EMSA)N/ABiosensorSELEX5'-FAM LabeledN/AN/AN/AN/AN/A
ABdb_0071 190498622009Selection, characterization, and application of DNA aptamers for the capture and detection of Salmonella enterica serovarsAptamer 45TTTGGTCCTTGTCTTATGTCCAGAATGC-GAGGAAAGTCTATAGCAGAGGAGATGTGTGAACCGAGTAA-ATTTCTCCTACTGGGATAGGTGGATTAT965'-TTTGGTCCTTGTCTTATGTCCAGAATGC-N40-ATTTCTCCTACTGGGATAGGTGGATTAT-3'ssDNASalmonella Typhimurium (S. Typhimurium) DT104Outer membrane protein (OMP)Identify aptamers that capture and detect Salmonella enterica serovar. Typhimurium.N/A7Electrophoretic Mobility Shift Assay (EMSA)N/ABiosensorSELEX5'-FAM LabeledN/AN/ABest CandidateN/AN/A
ABdb_0072 195691562009Immediate detection of living bacteria at ultralow concentrations using a carbon nanotube based potentiometric aptasensorAptamerGGGAACAGUCCGAGCCUCACUGUUAUCCGAUAGCAGCGCGGGAUGAGGGUCAAUGCGUCAUAGGAUCCCGC71N/AssRNASalmonella Typhi (CECT 409)Type IVB Pili structural proteinsDevelop a potentiometric biosensor using an aptamer-SWCNT for selectively detecting a single CFU of ST in close to real time.Display detection range from 0.2 CFU/mL (1 CFU in 5 mL PBS) to 10(6) CFU/mL within 60sec.N/AN/AN/ABiosensorN/A3'-Amidation ((CH2)5-NH₂)N/AN/AN/AN/AN/A
ABdb_0073 195058162009A sensitive method to detect Escherichia coli based on immunomagnetic separation and real-time PCR amplification of aptamersE. coli specific RNA aptamerGGGAGAGCGGAAGCGUGCUGGGUCGCAGUUUGCGCGCGUUCCAAGUUCUCUCAUCACGGAAUACAUAACCCAGAGGUCGAU81N/AssRNAEscherichia Coli (E. Coli) DH5αWhole cellDevelop an aptamer-based, antibody-conjugated magnetic-bead sandwich assay to detect E. coli.Showed a wide dynamic range from 10¹ to 10(7) E. coli per ml and achieved a detection limit of 10 E. coli in a 1 ml sample.N/AN/AN/ABiosensorN/A2'-Fluoro pyrimidines (2'-F-RNA)N/AN/AN/AN/AN/A
ABdb_0074 192348742009Aptamer-based electrochemical biosensor for Botulinum neurotoxinBoNT/A aptamerATACCAGCTTATTCAATTGACATGACTGGGATTTTTGGCGAAATCGAAGGAAGCGGAGAGATAGTAAGTGCAATCT76N/AssDNAClostridium BotulinumBotulinum neurotoxins (BoNT)-light chain of type A (BoNT/A) toxoidDeveloped an aptamer-based electrochemical sensor for the detection of Botulinum neurotoxin.Achieved a limit of detection (LOD) of 40 pg/ml within 24 h.N/AN/A3.0 ± 0.8 × 10(9) M−1BiosensorSingle micro-bead SELEX5'-Biotinylated and 3'-Fluorescein LabeledN/AN/AN/AN/AN/A
ABdb_1957 190528512009Plastic-adherent DNA aptamer-magnetic bead and quantum dot sandwich assay for Campylobacter detectionC2 and C3N/AN/AN/AssDNACampylobacter Jejuni (ATCC 29428)Surface proteinIdentify aptamers against surface proteins from C. jejuni and develop a sandwich assay ( (C2 aptamer-MB-bacteria-C3 aptamer-QD complexes) for its detection.Exhibits detection limits as low as an average of 2.5 cfu equivalents in buffer and 10–250 cfu in various food matrices.5N/AN/ABiosensorSELEX5'-Amidation (NH₂)N/AN/AN/AN/AN/A