Comparison of three magnetic bead surface functionalities for RNA extraction and detection

ACS Applied Materials and Interfaces

Volumn 7, Issue 11, 2015, Pages 6062-6069

  Adams, Nicholas M ^a,b   Bordelon, Hali ^a   Wang, Kwo Kwang A ^b   Albert, Laura E ^a   Wright, David W ^b   Haselton, Frederick R ^a  

^a VANDERBILT UNIVERSITY   (United States)

^b VANDERBILT UNIVERSITY   (United States)

Author keywords

nucleic acid extraction; oligo (dT) magnetic particles; RNA extraction; sequence specific magnetic particles; silica coated magnetic particles

Indexed keywords

BIOMARKERS; EXTRACTION; GENES; MAGNETISM; OLIGONUCLEOTIDES; RECOVERY; RNA; SILICA; SURFACE CHEMISTRY; VIRUSES;

ACID EXTRACTION; BIOLOGICAL SAMPLES; MAGNETIC PARTICLE; MOLECULAR DETECTION; OLIGONUCLEOTIDE SEQUENCES; RESPIRATORY SYNCYTIAL VIRUS; RNA EXTRACTION; SURFACE FUNCTIONALITIES;

POLYMERASE CHAIN REACTION;

VIRUS RNA;

CHEMISTRY; COMPARATIVE STUDY; EVALUATION STUDY; GENETICS; HUMAN RESPIRATORY SYNCYTIAL VIRUS; IMMUNOMAGNETIC SEPARATION; ISOLATION AND PURIFICATION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PROCEDURES; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS;

BASE SEQUENCE; IMMUNOMAGNETIC SEPARATION; MOLECULAR SEQUENCE DATA; REPRODUCIBILITY OF RESULTS; RESPIRATORY SYNCYTIAL VIRUSES; RNA, VIRAL; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS, RNA;

EID: 84925799406     PISSN: 19448244     EISSN: 19448252     Source Type: Journal    
DOI: 10.1021/am506374t     Document Type: Article

References (31)

1. Gubala, V.; Harris, L. F.; Ricco, A. J.; Tan, M. X.; Williams, D. E. Point of Care Diagnostics: Status and Future Anal. Chem. 2012, 84 (2) 487-515
2. Ritzi-Lehnert, M. Development Of Chip-Compatible Sample Preparation for Diagnosis of Infectious Diseases Expert Rev. Mol. Diagn 2012, 12 (2) 189-206
3. Berensmeier, S. Magnetic Particles for the Separation and Purification of Nucleic Acids Appl. Microbiol. Biotechnol. 2006, 73 (3) 495-504
4. Hwang, K. Y.; Kwon, S. H.; Jung, S. O.; Namkoong, K.; Jung, W. J.; Kim, J. H.; Suh, K. Y.; Huh, N. Solid Phase DNA Extraction with a Flexible Bead-Packed Microfluidic Device to Detect Methicillin-Resistant Staphylococcus Aureus in Nasal Swabs Anal. Chem. 2012, 84 (18) 7912-8
5. Karle, M.; Miwa, J.; Czilwik, G.; Auwarter, V.; Roth, G.; Zengerle, R.; von Stetten, F. Continuous Microfluidic DNA Extraction Using Phase-Transfer Magnetophoresis Lab Chip 2010, 10 (23) 3284-3290
6. Bordelon, H.; Adams, N. M.; Klemm, A. S.; Russ, P. K.; Williams, J. V.; Talbot, H. K.; Wright, D. W.; Haselton, F. R. Development of a Low-Resource RNA Extraction Cassette Based on Surface Tension Valves ACS Appl. Mater. Interfaces 2011, 3 (6) 2161-2168
7. Bordelon, H.; Russ, P. K.; Wright, D. W.; Haselton, F. R. A Magnetic Bead-Based Method for Concentrating DNA From Human Urine for Downstream Detection PLoS One 2013, 8 (7) e68369
8. Davis, K. M.; Swartz, J. D.; Haselton, F. R.; Wright, D. W. Low-Resource Method for Extracting the Malarial Biomarker Histidine-Rich Protein II To Enhance Diagnostic Test Performance Anal. Chem. 2012, 84 (14) 6136-6142
9. Knepp, J. H.; Geahr, M. A.; Forman, M. S.; Valsamakis, A. Comparison of Automated and Manual Nucleic Acid Extraction Methods for Detection of Enterovirus RNA J. Clin. Microbiol. 2003, 41 (8) 3532-3536
10. Riemann, K.; Adamzik, M.; Frauenrath, S.; Egensperger, R.; Schmid, K. W.; Brockmeyer, N. H.; Siffert, W. Comparison of Manual and Automated Nucleic Acid Extraction from Whole-Blood Samples J. Clin. Lab. Anal. 2007, 21 (4) 244-248
11. Avison, M. B. Measuring Gene Expression; Taylor & Francis: New York, 2007; p 324.
12. Jacobsen, C. S. Microscale Detection of Specific Bacterial DNA in Soil With a Magnetic Capture-Hybridization and PCR Amplification Assay Appl. Environ. Microbiol. 1995, 61 (9) 3347-52
13. Mrazek, F.; Petrek, M. Processing of mRNA from Human Leukocytes by Biomagnetical Separation: Comparison with Current Methods of RNA Isolation Acta Univ. Palacki. Olomuc., Fac. Med. 1999, 142, 23-8
14. Alberts, B.; Johnson, A.; Lewis, J.; Raff, M.; Roberts, K.; Walter, P. From DNA to RNA. In Molecular Biology of the Cell, 5 th ed.; Garland Science: New York, 2007.
15. Albretsen, C.; Kalland, K.-H.; Haukanes, B.-I.; Håvarstein, L.-S.; Kleppe, K. Applications of Magnetic Beads with Covalently Attached Oligonucleotides in Hybridization: Isolation and Detection of Specific Measles Virus Mrna From a Crude Cell Lysate Anal. Biochem. 1990, 189 (1) 40-50
16. Legler, T. J.; Liu, Z.; Heermann, K. H.; Hempel, M.; Gutensohn, K.; Kiesewetter, H.; Pruss, A. Specific Magnetic Bead-Based Capture of Free Fetal DNA from Maternal Plasma Transfus. Apher. Sci. 2009, 40 (3) 153-7
17. Amagliani, G.; Omiccioli, E.; Campo, A.; Bruce, I. J.; Brandi, G.; Magnani, M. Development of a Magnetic Capture Hybridization-PCR Assay for Listeria Monocytogenes Direct Detection in Milk Samples J. Appl. Microbiol. 2006, 100 (2) 375-83
18. Adams, N. M.; Wang, K. K.; Caprioli, A. C.; Thomas, L. C.; Kankia, B.; Haselton, F. R.; Wright, D. W. Quadruplex Priming Amplification for the Detection of mRNA from Surrogate Patient Samples Analyst 2014, 139 (7) 1644-52
19. Hill, H. D.; Mirkin, C. A. The Bio-Barcode Assay for the Detection of Protein and Nucleic Acid Targets Using DTT-Induced Ligand Exchange Nat. Protoc. 2006, 1 (1) 324-36
20. Nam, J. M.; Stoeva, S. I.; Mirkin, C. A. Bio-Bar-Code-Based DNA Detection with PCR-Like Sensitivity J. Am. Chem. Soc. 2004, 126 (19) 5932-3
21. Cane, P. A.; Pringle, C. R. Respiratory Syncytial Virus Heterogeneity During an Epidemic: Analysis By Limited Nucleotide Sequencing (SH Gene) and Restriction Mapping (N Gene) J. Gen. Virol. 1991, 72 (Pt 2) 349-57
22. World Health Organization, CDC Protocol of RealtimeRTPCR for Influenza A (H1N1). (2009.
23. Adams, N. M.; Creecy, A. E.; Majors, C. E.; Wariso, B. A.; Short, P. A.; Wright, D. W.; Haselton, F. R. Design Criteria for Developing Low-Resource Magnetic Bead Assays Using Surface Tension Valves Biomicrofluidics 2013) 7, 014104
24. Hickey, T. M.; Hamori, E. Direct Measurement of Fast Rate of Double Helix Formation J. Mol. Biol. 1971, 57 (2) 359
25. Sur, K.; McFall, S. M.; Yeh, E. T.; Jangam, S. R.; Hayden, M. A.; Stroupe, S. D.; Kelso, D. M. Immiscible Phase Nucleic Acid Purification Eliminates PCR Inhibitors with a Single Pass of Paramagnetic Particles Through a Hydrophobic Liquid J. Mol. Diagn. 2010, 12 (5) 620-628
26. Boom, R.; Sol, C. J.; Salimans, M. M.; Jansen, C. L.; Wertheim-van Dillen, P. M.; van der Noordaa, J. Rapid And Simple Method for Purification of Nucleic Acids J. Clin. Microbiol. 1990, 28 (3) 495-503
27. Riccelli, P. V.; Merante, F.; Leung, K. T.; Bortolin, S.; Zastawny, R. L.; Janeczko, R.; Benight, A. S. Hybridization of Single-Stranded DNA Targets to Immobilized Complementary DNA Probes: Comparison of Hairpin Versus Linear Capture Probes Nucleic Acids Res. 2001, 29 (4) 996-1004
28. Dai, H.; Meyer, M.; Stepaniants, S.; Ziman, M.; Stoughton, R. Use of Hybridization Kinetics for Differentiating Specific from Non-Specific Binding to Oligonucleotide Microarrays Nucleic Acids Res. 2002, 30 (16) e86-e86
29. Stevens, P. W.; Henry, M. R.; Kelso, D. M. DNA Hybridization on Microparticles: Determining Capture-Probe Density and Equilibrium Dissociation Constants Nucleic Acids Res. 1999, 27 (7) 1719-1727
30. Erickson, D.; Li, D.; Krull, U. J. Modeling of DNA Hybridization Kinetics for Spatially Resolved Biochips Anal. Biochem. 2003, 317 (2) 186-200
31. Adams, N. M.; Olmsted, I. R.; Haselton, F. R.; Bornhop, D. J.; Wright, D. W. The Effect of Hybridization-Induced Secondary Structure Alterations on RNA Detection Using Backscattering Interferometry Nucleic Acids Res. 2013, 41 (9) e103