Self-quenching smart probes as a platform for the detection of sequence-specific UV-induced DNA photodamage

Analytical and Bioanalytical Chemistry

Volumn 397, Issue 7, 2010, Pages 2949-2957

  Oladepo, Sulayman A ^a,b   Loppnow, Glen R ^a  

^a UNIVERSITY OF ALBERTA   (Canada)

^b UNIVERSITY OF PITTSBURGH   (United States)

Author keywords

DNA damage; Fluorescence; Molecular beacons; Photoinduced intramolecular electron transfer; Self quenching DNA probes; Smart DNA probes

Indexed keywords

DNA DAMAGES; MOLECULAR BEACON; PHOTOINDUCED INTRAMOLECULAR ELECTRON TRANSFERS; SELF-QUENCHING; SMART DNA PROBES;

DAMAGE DETECTION; DNA; DNA SEQUENCES; ELECTRON TRANSITIONS; FLUORESCENCE; GENES; MASS SPECTROMETRY; OLIGONUCLEOTIDES; QUENCHING; RAMAN SPECTROSCOPY;

PROBES;

CHEMISTRY; CONFERENCE PAPER; CONFORMATION; DNA DAMAGE; EVALUATION; GENETIC PROCEDURES; METHODOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; OLIGONUCLEOTIDE PROBE; RADIATION EXPOSURE; SPECIES DIFFERENCE; SPECTROPHOTOMETRY; ULTRAVIOLET RADIATION; EVALUATION STUDY; PROCEDURES; RADIATION RESPONSE;

BASE SEQUENCE; DNA DAMAGE; MOLECULAR PROBE TECHNIQUES; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; OLIGONUCLEOTIDE PROBES; SPECIES SPECIFICITY; SPECTROPHOTOMETRY; ULTRAVIOLET RAYS;

OLIGONUCLEOTIDE PROBE;

EID: 77955981635     PISSN: 16182642     EISSN: 16182650     Source Type: Journal    
DOI: 10.1007/s00216-010-3896-0     Document Type: Conference Paper

References (32)

1. S Tyagi FR Kramer 1996 Nat Biotechnol 14 303 10.1038/nbt0396-303 1:CAS:528:DyaK28XhsFOjsr4%3D (Pubitemid 3035126)
2. G Bonnet S Tyagi A Libchaber FR Kramer 1999 Proc Natl Acad Sci USA 96 6171 10.1073/pnas.96.11.6171 1:CAS:528:DyaK1MXksFKks7k%3D (Pubitemid 29256638)
3. DL Sokol X Zhang P Lu AM Gewirtz 1998 Proc Natl Acad Sci USA 95 11538 10.1073/pnas.95.20.11538 1:CAS:528:DyaK1cXmsV2itbo%3D (Pubitemid 28460450)
4. G Leone H van Schijndel B van Gemen FR Kramer CD Schoen 1998 Nucleic Acids Res 26 2150 10.1093/nar/26.9.2150 1:CAS:528:DyaK1cXjtFymu7c%3D (Pubitemid 28291759)
5. LM Kundu LT Burgdorf O Kleiner A Batschauer T Carell 2002 Chembiochem 3 1053 10.1002/1439-7633(20021104)3:11<1053::AID-CBIC1053>3.0.CO;2-# 1:CAS:528:DC%2BD38Xos12rtr4%3D (Pubitemid 36008034)
6. S Yarasi C McConachie GR Loppnow 2005 Photochem Photobiol 81 467 10.1562/2004-09-02-RA-301.1 1:CAS:528:DC%2BD2MXjslGmtrY%3D (Pubitemid 40551527)
7. K Stohr B Hafner O Nolte J Wolfrum M Sauer D-P Herten 2005 Anal Chem 77 7195 10.1021/ac051447z (Pubitemid 41681385)
8. JP Knemeyer N Marme M Sauer 2000 Anal Chem 72 3717 10.1021/ac000024o 1:CAS:528:DC%2BD3cXks1Wgt7o%3D (Pubitemid 30646506)
9. A Misra P Kumar KC Gupta 2007 Anal Biochem 364 86 10.1016/j.ab.2007.02. 003 1:CAS:528:DC%2BD2sXjslSmu7g%3D (Pubitemid 46497952)
10. T Heinlein J-P Knemeyer O Piestert M Sauer 2003 J Phys Chem B 107 7957 10.1021/jp0348068 1:CAS:528:DC%2BD3sXltV2is7w%3D
11. Y Kim CJ Yang W Tan 2007 Nucleic Acids Res 35 7279 10.1093/nar/gkm771 1:CAS:528:DC%2BD1cXhtFGksg%3D%3D
12. S Misra M Shahid 2009 Bioorg Med Chem 17 5826 10.1016/j.bmc.2009.07.015 1:CAS:528:DC%2BD1MXps1Crsrg%3D
13. N Marme J-P Knemeyer 2007 Anal Bioanal Chem 388 1075 10.1007/s00216-007- 1365-1 1:CAS:528:DC%2BD2sXntleqt7Y%3D (Pubitemid 47150028)
14. I Nazarenko R Pires B Lowe M Obaidy A Rashtchian 2002 Nucleic Acids Res 30 2089 10.1093/nar/30.9.2089 1:CAS:528:DC%2BD38XktFGhu78%3D
15. S Steeken SV Jovanovic 1997 J Am Chem Soc 119 617 10.1021/ja962255b (Pubitemid 27086555)
16. CAM Seidel A Schulz M Sauer 1996 J Phys Chem 100 5541 10.1021/jp951507c 1:CAS:528:DyaK28XhsVGhur4%3D
17. Ruzsicska BP, Lemaire DGE (1995) In: Horspool WM, Song P-S (eds) CRC handbook of organic photochemistry and photobiology. CRC Press, New York, p 1289
18. A Friedrich G Habl M Sauer J Wolfrum J Hoheisel N Marme J-P Knemeyer 2007 Proc of SPIE 6444 64440M-1
19. A Misra P Kumar KC Gupta 2007 Nucleic Acids Symp Ser 51 311 10.1093/nass/nrm156
20. K Poon RB Macgregor Jr 1998 Biopolymers 45 427 10.1002/(SICI)1097- 0282(199805)45:6<427::AID-BIP2>3.0.CO;2-R 1:CAS:528:DyaK1cXit1GisL8%3D (Pubitemid 28158054)
21. GW Sen 1990 Nature 344 410 10.1038/344410a0 1:CAS:528:DyaK3cXitlWnsL4%3D (Pubitemid 20110090)
22. CC Hardin T Watson M Corregan C Bailey 1992 Biochemistry 31 833 10.1021/bi00118a028 1:CAS:528:DyaK38Xltlyltg%3D%3D
23. J-H Yang J-P Lai SD Douglas D Metzger X-H Zhu W-Z Ho 2002 J Virol Meth 102 119 10.1016/S0166-0934(02)00007-1 1:CAS:528:DC%2BD38XhsFWgt7s%3D (Pubitemid 34185477)
24. C Schildhkraut S Lifson 1965 Biopolymers 3 195 10.1002/bip.360030207
25. KJ Breslaeur R Frank LA Marky 1986 Proc Natl Acad Sci USA 83 3746 10.1073/pnas.83.11.3746
26. JG Wetmur Crit Rev Biochem Mol 1991 Biol 26 227 1:CAS:528: DyaK3MXmsV2jtrg%3D
27. N Sugimoto S Nakano M Katoh A Matsumura H Nakamuta T Ohmichi M Yoneyema M Sakasi 1995 Biochemistry 34 11211 10.1021/bi00035a029 1:CAS:528: DyaK2MXnsVKktLs%3D
28. N Sugimoto S Nakano M Yoneyama K Honda 1996 Nucleic Acids Res 24 4501 10.1093/nar/24.22.4501 1:CAS:528:DyaK28Xnt12rsbc%3D (Pubitemid 26388637)
29. R Owczarzy PM Vallone FJ Gallo TM Paner MJ Lane AS Benight 1997 Biopolymers 44 217 10.1002/(SICI)1097-0282(1997)44:3<217::AID-BIP3>3.0. CO;2-Y 1:CAS:528:DyaK1cXjs1Snu7o%3D (Pubitemid 28217083)
30. J SantaLucia Jr 1998 Proc Natl Acad Sci USA 95 1460 10.1073/pnas.95.4. 1460 1:CAS:528:DyaK1cXht1Wqsbc%3D (Pubitemid 28103414)
31. T Xia J SantaLucia Jr ME Burkard R Kierzek SJ Schoeder X Jiao C Cox DH Turner 1998 Biochemistry 37 14719 10.1021/bi9809425 1:CAS:528:DyaK1cXmt1Ckt7c%3D (Pubitemid 28487580)
32. R Owczarzy Y You BG Moreira JA Manthey L Huang MA Behlke JA Walder 2004 Biochemistry 43 3537 10.1021/bi034621r 1:CAS:528:DC%2BD2cXhslyqt74%3D (Pubitemid 38391709)