Mechanism of chimera formation during the Multiple Displacement Amplification reaction

BMC Biotechnology

Volumn 7, Issue , 2007, Pages

  Lasken, Roger S ^a   Stockwell, Timothy B ^a  

^a J CRAIG VENTER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DATA STRUCTURES; DNA; DNA SEQUENCES; ESCHERICHIA COLI; MICROORGANISMS; MOLECULAR WEIGHT;

CHIMERA FORMATION; GENOME AMPLIFICATION; MULTIPLE DISPLACEMENT AMPLIFICATION (MDA);

GENETIC ENGINEERING;

ARTICLE; BACTERIAL CELL; BACTERIAL GENOME; CHIMERA; CONTROLLED STUDY; DNA SEQUENCE; DNA STRAND; DNA SYNTHESIS; ESCHERICHIA COLI; GENE AMPLIFICATION; GENE DELETION; GENE REARRANGEMENT; NONHUMAN; NUCLEOTIDE SEQUENCE; PREDICTION; CHROMOSOME MAP; GENE LIBRARY; GENETICS; METHODOLOGY; MOLECULAR GENETICS; NUCLEIC ACID AMPLIFICATION;

BASE SEQUENCE; CHIMERA; CHROMOSOME MAPPING; ESCHERICHIA COLI; GENE LIBRARY; GENOME, BACTERIAL; MOLECULAR SEQUENCE DATA; NUCLEIC ACID AMPLIFICATION TECHNIQUES; SEQUENCE ANALYSIS, DNA;

EID: 34247489656     PISSN: None     EISSN: 14726750     Source Type: Journal    
DOI: 10.1186/1472-6750-7-19     Document Type: Article

References (21)

1. Dean FB Nelson JR Giesler TL Lasken RS Rapid amplification of plasmid and phage DNA using Phi 29 DNA polymerase and multiply-primed rolling circle amplification Genome Res 2001 11 1095 1099 311129 11381035 10.1101/gr.180501
2. Dean FB Hosono S Fang L Wu X Faruqi AF Bray-Ward P Sun Z Zong Q Du Y Du J Comprehensive human genome amplification using multiple displacement amplification Proc Natl Acad Sci USA 2002 99 5261-5266 122757 11959976 10.1073/pnas.082089499
3. Buckley PG Mantripragada KK Benetkiewicz M Tapia-Paez I Diaz De Stahl T Rosenquist M Ali H Jarbo C De Bustos C Hirvela C A full-coverage, high-resolution human chromosome 22 genomic microarray for clinical and research applications Hum Mol Genet 2002 11 3221-3229 10.1093/hmg/ 11.25.3221 12444106
4. Lasken RS Egholm M Whole genome amplification: Abundant supplies of DNA from precious samples or clinical specimens Trends Biotechnol 2003 21 531-535 10.1016/j.tibtech.2003.09.010 14624861
5. Hosono S Faruqi AF Dean FB Du Y Sun Z Wu X Du J Kingsmore SF Egholm M Lasken RS Unbiased whole-genome amplification directly from clinical samples Genome Res 2003 13 954-964 430878 12695328 10.1101/gr.816903
6. Raghunathan A Ferguson HR Bornarth CJ Driscoll M Lasken RS Genomic DNA amplification from a single bacterium Appl Environ Microbiol 2005 71 3342-3347 1151817 15933038 10.1128/AEM.71.6.3342-3347.2005
7. Kvist T Ahring BK Lasken RS Westermann P Specific single-cell isolation and genomic amplification of uncultured microorganisms Appl Microbiol Biotechnol 2007 74 4 926-35 Epub 2006 Nov 16 10.1007/s00253-006-0725-7 17109170
8. Lasken RS Whole Genome Amplification UK: Scion Pulishing Ltd 2005
9. Zhang K Martiny AC Reppas NB Barry KW Malek J Chisholm SW Church GM Sequencing genomes from single cells by polymerase cloning Nat Biotechnol 2006 24 680-686 10.1038/nbt1214 16732271
10. Ishoy T Kvist T Westermann P Ahring BK An improved method for single cell isolation of prokaryotes from meso-, thermo- and hyperthermophilic environments using micromanipulation Appl Microbiol Biotechnol 2006 69 510-514 10.1007/s00253-005-0014-x 16034558
11. Abulencia CB Wyborski DL Garcia JA Podar M Chen W Chang SH Chang HW Watson D Brodie EL Hazen TC Keller M Environmental Whole-Genome Amplification To Access Microbial Populations in Contaminated Sediments Appl Environ Microbiol 2006 72 3291-3301 1472342 16672469 10.1128/ AEM.72.5.3291-3301.2006
12. Margulies M Egholm M Altman W Attiya S Bader J Bemben L Genome sequencing in microfabricated high-density picolitre reactors Nature 2005 15;437 7057 376-380
13. Lee CS Davis RW Davidson N A physical study by electron microscopy of the terminally repetitive, circularly permuted DNA from the coliphage particles of Escherichia coli 15 J Mol Biol 1970 48 1-22 10.1016/ 0022-2836(70)90215-9 4915293
14. Kornberg A Baker TA DNA Replication W.H. Freeman and Company 1991
15. Blanco L Bernad A Lazaro JM Martin G Garmendia C Salas M Highly efficient DNA synthesis by the phage phi 29 DNA polymerase. Symmetrical mode of DNA replication J Biol Chem 1989 264 8935-8940 2498321
16. Lizardi PM Huang X Zhu Z Bray-Ward P Thomas DC Ward DC Mutation detection and single-molecule counting using isothermal rolling-circle amplification Nat Genet 1998 19 225-232 10.1038/898 9662393
17. Hawkins TL Detter JC Richardson PM Whole genome amplification - applications and advances Curr Opin Biotechnol 2002 13 65-67 10.1016/ S0958-1669(02)00286-0 11849960
18. Nelson JR Cai YC Giesler TL Farchaus JW Sundaram ST Ortiz-Rivera M Hosta LP Hewitt PL Mamone JA Palaniappan C Fuller CW TempliPhi, phi29 DNA polymerase based rolling circle amplification of templates for DNA sequencing Biotechniques 2002 Suppl 44-47 12083397
19. Esteban JA Salas M Blanco L Fidelity of phi 29 DNA polymerase. Comparison between protein-primed initiation and DNA polymerization J Biol Chem 1993 268 2719-2726 8428945
20. Inoue J Shigemori Yasushi Mikawa Tsutomu Improvements of rolling circle amplification (RCA) efficiency and accuracy using Thermus thermophilus SSB mutant protein Nucleic Acids Research 2006 34 e69 Published online 2006 May 2017. doi: 2010.1093/nar/gkl2350 1463899 16707659 10.1093/nar/ gkl350
21. Altschul SF Thomas L Madden Alejandro A Schäffer Zhang Jinghui Zhang Zheng Miller Webb David J Lipman Gapped BLAST and PSI-BLAST: A new generation of protein database search programs Nucleic Acids Research 1997 25 3389-3402 146917 9254694 10.1093/nar/25.17.3389