Abstract

The goal of this research is to use Raman spectroscopy techniques to study the sequence dependent conformations of tetraplex DNA and RNA molecules under various conditions, such as in crystals and solutions. Our initial effort focussed on characterizing the short I motif structures of d(C4) crystal which is known to consist solely of I-motif tetraplexes with all cytosines involved in C:C+ base pairs. Single crystals were examined with Raman microspectroscopy. We have also examined these tetraplexes in soultion state. the bes . This should provide an excellent case for the assignment of Raman bands. The behavior of tetraplexes and C-rich oligonucleotides is dependent on pH. Near the pKa for cytosine N3 (pH 4.3), we would expect a transition from """"""""single-stranded"""""""" species to intercalated C:C+ tetraplexes. Initial results indicate that these transitions can be monitored spectroscopically in aqueous solution. Currently experiments are bing carried out on C-rich sequences including d(TAACCC), d(AACCC), and d(CCCT).

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Center for Research Resources (NCRR)
Type
Biotechnology Resource Grants (P41)
Project #
2P41RR002594-12
Application #
2602459
Study Section
Project Start
Project End
Budget Start
1996-10-01
Budget End
1997-09-30
Support Year
12
Fiscal Year
1997
Total Cost
Indirect Cost

  Institution

Name
Massachusetts Institute of Technology
Department
Type
DUNS #
City
Cambridge
State
MA
Country
United States
Zip Code
02139

  Publications

Shih, Wei-Chuan; Bechtel, Kate L; Rebec, Mihailo V (2015) Noninvasive glucose sensing by transcutaneous Raman spectroscopy. J Biomed Opt 20:051036
Dudzik, Jonathan; Chang, Wen-Chi; Kannan, A M et al. (2013) Cross-linked glucose oxidase clusters for biofuel cell anode catalysts. Biofabrication 5:035009
Sathyavathi, R; Dingari, Narahara Chari; Barman, Ishan et al. (2013) Raman spectroscopy provides a powerful, rapid diagnostic tool for the detection of tuberculous meningitis in ex vivo cerebrospinal fluid samples. J Biophotonics 6:567-72
Dingari, Narahara Chari; Barman, Ishan; Saha, Anushree et al. (2013) Development and comparative assessment of Raman spectroscopic classification algorithms for lesion discrimination in stereotactic breast biopsies with microcalcifications. J Biophotonics 6:371-81
Cooper, Kimberly L; Oh, Seungeun; Sung, Yongjin et al. (2013) Multiple phases of chondrocyte enlargement underlie differences in skeletal proportions. Nature 495:375-8
Sung, Yongjin; Tzur, Amit; Oh, Seungeun et al. (2013) Size homeostasis in adherent cells studied by synthetic phase microscopy. Proc Natl Acad Sci U S A 110:16687-92
Lau, Condon; Mirkovic, Jelena; Yu, Chung-Chieh et al. (2013) Early detection of high-grade squamous intraepithelial lesions in the cervix with quantitative spectroscopic imaging. J Biomed Opt 18:76013
Soares, Jaqueline S; Barman, Ishan; Dingari, Narahara Chari et al. (2013) Diagnostic power of diffuse reflectance spectroscopy for targeted detection of breast lesions with microcalcifications. Proc Natl Acad Sci U S A 110:471-6
Byun, HeeSu; Hillman, Timothy R; Higgins, John M et al. (2012) Optical measurement of biomechanical properties of individual erythrocytes from a sickle cell patient. Acta Biomater 8:4130-8
Dingari, Narahara Chari; Barman, Ishan; Myakalwar, Ashwin Kumar et al. (2012) Incorporation of support vector machines in the LIBS toolbox for sensitive and robust classification amidst unexpected sample and system variability. Anal Chem 84:2686-94

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