| PATENTS AND LICENSES |
| No. |
Year |
Authors, Title, Journal |
3 |
2008 |
Ellagitannins as inhibitors of bacterial quorum sensing. Patent application has been filed by FIU. Serial No: 61/036,812 Involved K. Mathee, A. Adonizio, F. Ausubel, J. Clardy, B. Bennett and K. Downum |
2 |
2007 |
Nanoscale DNA detection system using species-specific and/or disease-specific probes for rapid identification. Patent application has been filed by
FIU, Serial No: 60/898,426. Involved: W. Choi, R. Roy, V. Prasad and K. Mathee
|
1 |
2000 |
Two new devices to grow and study bacteria as a biofilm. University of Tennessee-Memphis has licensed these inventions to Stovall Life
Science, Inc ( www.slscience.com). K. Mathee and a technician |
|
| No. |
Year |
Authors, Title, Journal |
4 |
2009 |
K. F. Kong, L. Schneper, and K. Mathee. Beta-lactam antibiotics: from antibiosis to resistance and bacteriology. Review. Acta Pathologica, Microbiologica, et Immunologica Scandinavica (Accepted). [Peer Reviewed] |
3 |
2009 |
M. Doud, E. Zeng, L. Schneper, G. Narasimhan, K. Mathee. Approaches to analyzing dynamic microbial communities such as those seen in cystic fibrosis lung. Human Genomics 3(3):246-256. [Peer Reviewed] |
2 |
2003 |
K. Mathee and G. Narasimhan. Detection of DNA-binding helix-turn-helix motifs in proteins using pattern dictionary method. Methods in Enzymology
370:250-264. |
1 |
1998 |
K. Hughes, and K. Mathee. The anti-sigma factors. Annual Review of Microbiology 52:231-286. |
|
| No. |
Year |
Authors, Title, Journal |
41 |
2009 |
K.F. Kong, S. Jayawardena, S. Leal, R. Sautter, and K. Mathee. Coregulation of antibiotic resistance, alginate production, and quorum sensing in Pseudomonas aeruginosa. Antimicrobial Agents and Chemotherapy (Provisionally Accepted; 45 pages, double-spaced). |
40 |
2009 |
M.S. Doud, M. Light, G. Gonzalez, G. Narsimhan, and K. Mathee. Combination of 16S rRNA variable regions provides a detailed analysis of bacterial community dynamics in the lungs of cystic fibrosis patients. Human Genomics (Accepted; 44 pages, double-spaced). |
39 |
2009 |
M. Herzberg, T. Rezene, C. Ziemba, O. Gillor, and K. Mathee. Impact of Higher Alginate Expression on Deposition of Pseudomonas aeruginosa in radial stagnation point flow and reverse osmosis systems. Environmental Science & Technology Journal 43(19):7376-7383. |
38 |
2009 |
M.S. Doud, R. Grimes-Zeppegno, E. Molina, N. Miller, D. Balachandar, L. Schneper, R. Poppiti, and K. Mathee A k2A-positive Klebsiella pneumoniae causes liver and brain abscess in a Saint Kitt's man. International Journal of Medical Sciences 6(6):301-304. |
37 |
2009 |
D. Balasubramanian, and K. Mathee. Comparative transcriptome analyses of Pseudomonas aeruginosa. Human Genomics 3(4):349-61.
|
36 |
2008 |
E. Zeng, G. Narasimhan, L. Schneper, and K. Mathee. A functional network of yeast genes using gene ontology information.
IEEE Conference on Bioinformatics and Biomedicine (BIBM2008) 343-346. |
35 |
2008 |
H. Vedala, D.H. Kim, M. Doud, K. Mathee, and W. Choi. Effect of environmental factors on electrical conductivity of single oligo-DNA molecule measured using
single-walled carbon nanotube nanoelectrodes. Nanotechnology 19:1-6 (265704) |
34 |
2008 |
J. Entry, D. Mills, K. Mathee, K. Jayachandran, R.E. Sojka and G. Narasimhan. Influence of irrigated agriculture on soil microbial diversity. Applied
Soil Ecology 40:146-154. |
33 |
2008 |
A. Adonizio, S. Leal, F. Ausubel, and K. Mathee. Attenuation of Pseudomonas aeruginosa virulence by medicinal plants in a Caenorhabditis elegans
model system. Journal of Medical Microbiology57:809-813 |
32 |
2008 |
K. Mathee, G. Narasimhan, C. Valdes, X. Qiu, J. M. Matewish , M. Koehrsen, A. Rokas, C. N. Yandava, R. Engels, E. Zeng, R. Olavarietta, M. Doud, R. Smith ,
P. Montgomery, J. White, P. A. Godfrey, C. Kodira, B. Birren, J. Galaganand S. Lory. Dynamics of Pseudomonas aeruginosa genome evolution.
Proceedings of National Academy of Sciences USA 105(8):3100-3105.
Highlighted by
- Genome Technology Online, Feb 20, 2008, “Survival through genome shapeshifting”
- Selected for review by Faculty of 1000 Biology
|
31 |
2008 |
S. Roy S, H. Vedala, A.D. Roy, D.H. Kim, M. Doud, K. Mathee, H.K. Shin, N. Shimamoto, V. Prasad and W. Choi. Direct electrical measurements on single-molecule
genomic DNA using single-walled carbon nanotubes. Nano Letters 8:26-30.
Highlighted by
- Nanowerk Spotlight, Dec 28, 2007, “DNA electronics in nanotechnology”
- NewScientist Tech, Dec 4, 2007, “Nanoelectrodes could provide bird flu test”
- NewScientist, “Nantube electrodes could provide avian flu test”
- NanoScienceWorks, jan 2008, “Nanotube electrodes can “match” DNA via signals”
- Technology Reviews, February 13, 2008, “Wiring up DNA”
- Nature Spotlight on a related article that appeared in Feb 2008 included our work.
|
30 |
2008 |
A. L. Adonizio, K.F. Kong, and K. Mathee. Inhibition of quorum sensing-controlled virulence factor production in Pseudomonas aeruginosa
by South Florida plant extracts. Antimicrobial Agents and Chemotherapy 52:198-203
|
29 |
2007 |
E. Zeng, K. Mathee, and G. Narasimhan. IEM: an algorithm for iterative enhancement of motifs using comparative genomics data. Comput Syst Bioinformatics
Conf. 6:227-35. |
28 |
2007 |
D.K. Mills, J.A. Entry, K. Mathee, and P.M. Gillevet. Mini-Review: Assessing Microbial Community Diversity Using Amplicon Length Heterogeneity PCR.
Soil Science Society of America Journal 71 March-April |
27 |
2007 |
S.Z. Miller, S. King, and K. Mathee. Forensic DNA analysis: An overview of human DNA analysis .International Journal of Forensic Science
(Revista de Ciencias Forenses) 1:31-38 |
26 |
2006 |
L.I. Moreno, D. K. Mills, J. Entry, R.T. Sautter, and K. Mathee. Microbial metagenome profiling using Amplicon Length Heterogeneity-Polymerase
Chain Reaction (ALH-PCR) proves more effective than elemental analysis in discriminating soil specimens. Journal of Forensic Science 51:1315-1322.
|
25 |
2006 |
D.K. Mills, J. A. Entry, J.D. Voss, P.M. Gillevet, and K. Mathee. An assessment of the hypervariable domains of the 16S rRNA genes for their value in
determining microbial community diversity: the paradox of traditional ecological indices. FEMS Microbiological Ecology 57:496-503.
|
24 |
2006 |
A. L. Adonizio, K. Downum, B. C. Bennett, and K. Mathee. Anti-quorum sensing activity of medicinal plants in southern Florida. Journal of Ethnopharamocology 105:427-35.
|
23 |
2006 |
J. Makemson, A. Eberhard, and K. Mathee. Simple electrospray mass spectrometry detection of acylhomoserine lactones. Luminescence 21:1-6
|
22 |
2006 |
C. Yang, D. Mills, K. Mathee, Y. Wang, K. Jayachandran, M. Sikaroodi, P. Gillevet, J. Entry, G. Narasimhan. Ecoinformatics tools for microbial diversity studies: Supervised
classification of amplicon length heterogeneity (ALH) profiles of 16S rRNA. Journal of Microbiological Methods 65: 49-62.
|
21 |
2005 |
K.F. Kong, S.R. Jayawardena, S. D. Indulkar, A. del Puerto, C-L. Koh, N. Høiby, and K. Mathee. Pseudomonas aeruginosa AmpR that regulates expression of AmpC
and PoxB b-lactamases, proteases, quorum sensing and other virulence factors. Antimicrobial Agents and Chemotherapy 49:4567-75.
- Article selected for Journal Highlights in the ASM News December issue. A monthly
issue that highlights one article per journal that describes new and exciting developments
in microbial research.
|
20 |
2005 |
K.F. Kong, S.R. Jayawardena, A. Del Puerto, L. Wiehlmann, U. Laabs, B. Tummler, and K. Mathee. Characterization of poxB, a chromosomal-encoded
Pseudomonas aeruginosa oxacillinase. Gene 358:82-92 |
19 |
2006 |
Y. Wang, C. Yang, K. Mathee, and G. Narasimhan. Clustering using Adaptive Self-Organizing Maps (ASOM) and Applications. Lecture Notes
in Computer Science 3515: 944-951. |
18 |
2005 |
Y. Sun, Z. Deng, G. Narasimhan, and K. Mathee. Training set design for pattern discovery with applications to protein motif detection.
Advances in Bioinformatics and its Applications: Series in Mathematical Biology and Medicine 8:240-251. |
17 |
2005 |
C. Yang, E. Zeng, K. Mathee, and G. Narasimhan. Querying a database of regulatory elements. Advances
in Bioinformatics and its Applications: Series in Mathematical Biology and Medicine 8:81-92. |
16 |
2004 |
A.P. Stapper, G. Narasimhan, D.E. Ohman, J. Barakat, M. Hentzer, S. Molin, A. Kharazmi, N. Høiby, K. Mathee. Alginate production affects Pseudomonas aeruginosa biofilm development and architecture, but is not essential for biofilm formation. Journal of Medical Microbiology 53:679-690. It became one of the 50-most-frequently read articles, at one point ranking number 5. |
15 |
2004 |
X.H. Guo, Z.J. Song, H. Wu, P. Yan, X.J. Qin, K. Mathee, N. Høiby, B.J. Tang, X.Q. Qiu, Y.Q. Chen. Effects of pre-immunization with Bacillus Calmette Guerin vaccine on chronic P. aeruginosa lung infection in rats. Current Immunology 24:138-141. (In Chinese) |
14 |
2003 |
Z. Song, H. Wu, O. Ciofu, K.F. Kong, N. Høiby, J. Rygaard, A. Kharazmi, K. Mathee. Pseudomonas aeruginosa alginate is refractory to Th1 immune response and impedes host immune clearance in a mouse model of acute lung infection. Journal of Medical Microbiology 52:731-40. |
13 |
2002 |
G. Narasimhan, C. Bu, Y. Gao, X. Wang, N. Xu, K. Mathee. Mining protein sequences for motifs. Journal of Computational Biology 9:707-720. |
12 |
2002 |
Z.J. Song, H. Wu, K. Mathee, N. Høiby, and A. Kharazmi. Gerimax ginseng regulates both humoral and cellular immunity during chronic Pseudomonas aeruginosa lung infection. Journal of Alternative and Complementary Medicine 8:459-466 |
11 |
2001 |
A. Morea, K. Mathee, M. J. Franklin, A. Giacomini, M. O'Regan and D. E. Ohman. Characterization of algG encoding C5-epimerase in the alginate biosynthetic gene cluster of Pseudomonas fluorescens. Gene 278:107-114. |
10 |
2001 |
H, Wu, Z. Song, M. Givskov, G. Doring, D. Worlitzsch, K. Mathee, J. Rygaard, and N. Hoiby.
Pseudomonas aeruginosa mutations in lasI and rhlI quorum sensing systems result in milder chronic lung infection. Microbiology 147:1105-1113. |
9 |
2000 |
S. Malhotra, L.A. Silo-Suh, K. Mathee, and D.E. Ohman. Proteome analysis of the effect of mucoid conversion on global protein expression in Pseudomonas aeruginosa strain PAO1 shows induction of disulfide bond isomerase, DsbA. Journal of Bacteriology 182:6999-7006. |
8 |
2000 |
H. Wu, Song, Z.J., K. Mathee, M. Hentzer, J.B. Andersen, A. Heydorn, C. Moser, L. Eberl, S. Molin, N. Høiby, and M. Givskov. Detection of N-acylhomoserine lactones in lung tissues of mice infected with Pseudomonas aeruginosa. Microbiology 146:2481-2493. |
7 |
1999 |
K. Mathee, O. Ciofu, C. Sternberg, P.W. Lindum, J.I. Campbell, P. Jensen, A.H. Johnsen, M. Givskov, D.E. Ohman, S. Molin, N. Høiby, and A. Kharazmi. Mucoid conversion of Pseudomonas aeruginosa by hydrogen peroxide: a mechanism for virulence activation in the cystic fibrosis lung. Microbiology 145:1349-1357.
- Article selected for Hot Off The Press in Microbiology Today 26:135; A quarterly issue that highlights new and exciting developments in microbial research.
|
6 |
1997 |
K. Mathee,C.J. McPherson and D.E. Ohman. Posttranslational control of the algT (algU)-encoded s22 for expression of the alginate regulon in Pseudomonas aeruginosa and localization of its antagonist proteins MucA and MucB (AlgN). Journal of Bacteriology 179:3711-3720. |
5 |
1993 |
K. Mathee, and M.M. Howe. Bacteriophage Mu Mor protein requires s70 to activate the Mu middle promoter. Journal of Bacteriology 175:5314-5323. |
4 |
1993 |
K. Mathee, and M.M. Howe. Function of the bacteriophage Mu middle operon. Virology 196:712-721. |
3 |
1990 |
K. Mathee, and M.M. Howe. Identification of a positive regulator of the Mu middle operon. Journal of Bacteriology 172:6641-6650. |
2 |
1985 |
K. Kalaimathee, C.L. Koh, and Y.F. Ngeow. Plasmid profiles of Neisseria gonorrhoeae in Peninsular Malaysia. Microbiology and Immunology 29:921-926. |
1 |
1984 |
C.L. Koh, K. Kalaimathee, and Y.F. Ngeow. Penicillinase-producing Neisseria gonorrhoeae in Peninsular Malaysia. Medical Journal of Malaysia 39:269-271. |
|
| No. |
Year |
Authors, Title, Journal |
3 |
2007 |
C. Yang, E. Zheng, K. Mathee, and G. Narasimhan. PlasmoTFBM: An intelligent queriable database for predicted transcription factor binding motifs in Plasmodium falciparum. Methods in Microarray Data Analysis V: 121-136. McConnell, Lin, Hurban (Eds.), Springer. |
2 |
2002 |
K. Mathee, A. Kharazmi and N. Høiby. Role of exopolysaccharide in biofilm matrix formation: The alginate paradigm. In, Molecular Ecology of Biofilms: Genetic Analysis. P 23-56 Edited by R.J.C. McLean and A.W. Decho. Horizon Scientific Press. |
1 |
1996 |
D.E. Ohman, D.E., K. Mathee, C.J. McPherson, C.A. DeVries, S. Ma, D.J. Wozniak and M. Franklin. Regulation of the alginate (algD) operon in Pseudomonas aeruginosa. In, Molecular biology of Pseudomonads. p472-483. Edited by Nakazawa, T., K. Furukawa, D. Haas, S. Silver. American Society for Microbiology, Washington, D.C. |
|
| No. |
Year |
Authors, Title, Journal |
6 |
2009 |
G. Gonzalez, M. Doud, K. Mathee and G. Narasimhan. Computer-assisted bacterial identification using 16S rRNA sequence data. Book series: FMBE Proceedings 24:239-249. [Peer Reviewed] |
5 |
2004 |
C. Yang, E. Zeng, K. Mathee, and G. Narasimhan. Mining Regulatory Elements in the Plasmodium falciparum genome using gene expression data. Proceedings of CAMDA'04: Critical Assessment of Microarray Data Analysis, Durham, NC, p16-20, November 2004. |
4 |
2003 |
C.L. Koh, M.L. Yap, Y.S. Ooi, M.E. Lim, and K. Mathee. Screening of environmental water samples from Malaysia for bacteria producing autoinducers and inhibitors of quorum sensing. Persatuan Genetik Malaysia; University of Malaya; Ministry of Science, Technology & the Environment, Malaysia; and Ministry of Health, Malaysia. 25-27 March, 2003; Kuala Lumpur. Proceedings of the 5th National Congress of Genetics. p162-163 |
3 |
2003 |
D. Ramos, A. Heydorn, C. Koh, K. Mathee. Loss of alginate production in mucoid Pseudomonas aeruginosa occurs via deregulation of the alternative sigma factor AlgT. Proceedings of the National Conference on Undergraduate Research (NCUR) 2003. p1-9 (9 pages). |
2 |
2003 |
D. Mills, J.A. Entry, K. Mathee, K. Jayachandran, R.E. Sojka, W.J. Busscher. Irrigated agriculture and tillage practices impact microbial community structure. Proceedings of the International Soil Tillage Research Organization, 16th Triennial Conference, July 2003, Brisbane, Australia. p749-754. |
1 |
1999 |
Y. Gao, K. Mathee, G. Narasimhan, X. Wang. Motif Detection in Protein Sequences
Proceedings of SPIRE'99, Cancun, Mexico. p 63-72 (10 pages). |
|
| No. |
Year |
Authors, Title, Journal |
4 |
2009 |
G. Gonzalez, M. Doud, K. Mathee, and G. Narasimhan. Computer-assisted bacterial identification using 16S rRNA sequence data. 25th Southern Biomedical Engineering Conference Proceedings. May 15-17, 2009 in Miami, Florida. |
3 |
1999 |
K. Mathee, O. Ciofu, M. Givskov, D.E. Ohman, S. Molin, N. Høiby, and A. Kharazmi. Reactive oxygen species-mediated induction od Pseudomonas aeruginosa alginate production: a possible induction mechanism in cystic fibrosis lungs. Clinical Microbiology 5:5S8-9. |
2 |
1999 |
A. Kharazmi, A., K. Mathee, E. T. Pederson, S. Molin and N. Høiby. Polymorphonuclear leukocytes and biofilms. Clinical Microbiology 5:5S27-28. |
1 |
1999 |
D.E. Ohman, D.E., S. Malhotra, S. Jain, K. Mathee, and L. A Silo-Suh. Alginate biosynthesis in Pseudomonas aeruginosa: a stress response. Clinical Microbiology 5:5S11-13. |
|
| No. |
Year |
Authors, Title, Journal |
3 |
1992 |
Bacteriophage Mu middle operon
PhD Dissertation. University of Tennessee Medical School Memphis, Tennessee
Mentor: Prof. Martha M. Howe |
2 |
1986 |
Plasmids in Neisseria gonorrhoeae isolates
M.Sc Thesis, University of Malaya, Malaysia.
Mentor: Prof. Chong-Lek Koh |
1 |
1984 |
Evaluation of F1 crossbred (Local X German Fawn) for breeding soundness and effect of storage on semen quality
Honors Thesis, University of Malaya, Malaysia.
Mentor: Prof. T.K. Mukharjee |
|
| No. |
Year |
Authors, Title, Journal |
1 |
2000 |
K. Mathee. Women in Science: A personal Reflection. FIU Diversity Exchange Magazine, Spring 2001. p12-13. |
|
|
| No. |
Year |
Authors, Title, Journal |
2 |
2000 |
K. Mathee, C.L. Koh, and M. T.J. Ai. Bacteria cell-to-cell communication: A laboratory manual.
‘Akademi Sains Malaysia’. 38 pages. |
1 |
2001 |
K. Mathee, and C.L. Koh. Program and abstract book: 7th Asian Conference on Transcription (ACT-VII). 55 pages. |
|
|
| No. |
|
Synergestic Activities |
2 |
Pseudomonas aeruginosa Genome Analysis Participant: Annotations of alginate genes
My contributions were acknowledged in the 2000 Nature paper on P. aeruginosa genome. |
1 |
Software tools: GYM: Detection of Helix-Turn-Helix motifs
BIP: Biofilm Image Processing |