No

Year

Authors, Title, Journal

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).

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).

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.

31

2007

S. Roy, H. Vedala, A. D. Roy, D. Kim, H. Shin, N. Shimamoto, M. Doud, K. Mathee, and W. Choi. Rapid recognition of genes at a single DNA level by single-walled carbon nanotube probes. Submitted.

30

2007

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 (Submitted).

29

2007

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 (Provisionally Accepted).

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 (In Press).

27

2006

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 is a global transcriptional factor 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. Mathe. Characterization of poxB, a chromosomal-encoded Pseudomonas aeruginosa oxacillinase.
Gene 358:82-92

19

2005

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. 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.

Proceedings

6

2007

E. Zeng, K. Mathee, and G. Narasimhan.
IEM: An Algorithm for Iterative Enhancement of Motifs Using Comparative Genomics Data.
LSS Computational Systems Bioinformatics Conference, CSB2007

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).

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.

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.

2

2000

1

2002

Publications Outside Discipline

1

2001

K. Mathee.
Women in Science: A personal Reflection.
FIU Diversity Exchange Magazine, Spring 2001. p12-13.

Ms. Adonizio received the best presentation award at the Joint 45 th Annual Meeting of the Society for Economic Botany with the International Society of Ethnobiology and the 8th International Society for Ethnopharmacology at University of Kent at Canterbury, UK. June 13– 17.

Title: Identification of quorum sensing inhibitors in South Florida medicinal plants: an understudied aspect of efficacy.
Authors: Adonizio, K. Downum, B. Bennett, and K. Mathee

Abstract selected for platform discussion at the 27th European Cystic Fibrosis Conference. June 12– 17, Birmingham, UK.

Title: Fingerprinting of cystic fibrosis sputum metagenome reveals unique amplicon length heterogeneity (ALH) profiles for each patient. Journal of Cystic Fibrosis 3:S39.
Authors:

An invited talk presented at the 80th Annual American Chemical Society Meeting – FAME 2004. Orlando, FL. May 6 to 8.

Title: Microbial forensics: Application of microbial community metagenome analysis for crime scene investigations.
Authors: Mathee, K., D. Mills, S. Miller, S. King, J. Entry, and G. Narasimhan.

Mr. Kong and Mr. Yang received ASM Student travel awards to present their work at the 103rd Annual Meeting of the American Society for Microbiology in Washington, D.C. May 18 – 22.

Authors: K-F. Kong, S. Jayawardena, and K. Mathee.

Title: Characterization of Pseudomonas aeruginosa ampG involved in b-lactamase expression. Abstract #A-064.

Mr. Kong and Mr. Yang received ASM Student travel awards to present their work at the 103rd Annual Meeting of the American Society for Microbiology in Washington, D.C. May 18 – 22.

Authors: C. Yang, Y. Wang, D. Mills, K. Mathee, P. Gillevet, J. Entry, K. Jayachandran, and G. Narasimhan.

Title: An ecoinformatics tool for microbial diversity studies: Supervised classification of ALH profiles of 16S rRNA. Abstract #R-043.

Abstract selected for platform presentation at the Sixth Asian Conference on Transcription (ACT-VI), Beijing, China.

Title: Inverse relationship between alginate production and other extracellular virulence factors in Pseudomonas aeruginosa is mediated by quorum sensing system.
Authors: K. Mathee, M. Hentzer, and O. Ciofu