KALAI MATHEE, MSc, PhD.

Founding Chair & Associate Professor

 Department of Molecular Microbiology and Infectious Diseases

College of Medicine, Florida International University, Miami, USA

www.fiu.edu/~matheek

 

PUBLICATIONS IN DISCIPLINE

 

No
Year

Authors, Title, Journal

Invited Papers in Professional Journals

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. [Non Peer Reviewed]

1

1998

K. Hughes, and K. Mathee. The anti-sigma factors. Annual Review of Microbiology 52:231-286. [Non Peer Reviewed]

Peer Reviewed Research Articles

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

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

31

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. Galagan and 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, ÒSurvival through genome shapeshiftingÓ
  • Selected for review by Faculty of 1000 Biology

30

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, ÒDNA electronics in nanotechnologyÓ
  • NewScientist Tech, Dec 4, 2007, ÒNanoelectrodes could provide bird flu testÓ
  • NewScientist, ÒNantube electrodes could provide avian flu testÓ
  • NanoScienceWorks, Jan 2008, ÒNanotube electrodes can ÒmatchÓ DNA via signalsÓ
  • Technology Reviews, February 13, 2008, ÒWiring up DNAÓ
  • Nature Spotlight on a related article that appeared in Feb 2008 included our work.

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

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. H¿iby, 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.

á      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

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. H¿iby, 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.

á      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. H¿iby, 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. H¿iby, 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. H¿iby, 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. H¿iby, 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. H¿iby, 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.

á      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

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. [Peer Reviewed]

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. [NPR]

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). [Peer Reviewed]

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. [NPR]

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). [Peer Reviewed]

Book Chapters

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. [Peer Reviewed]

 2

2002

K. Mathee, A. Kharazmi and N. H¿iby. 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. [NPR]

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. [NPR]

Invited Extended Abstracts [NPR]

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. H¿iby, 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, K. Mathee, E. T. Pederson, S. Molin and N. H¿iby.  Polymorphonuclear leukocytes and biofilms. Clinical Microbiology 5:5S27-28.

1

1999

D.E. Ohman, S. Malhotra, S. Jain, K. Mathee, and L. A Silo-Suh. Alginate biosynthesis in Pseudomonas aeruginosa: a stress response. Clinical Microbiology 5:5S11-13.

Other Publications/Books

2

2000

K. Mathee, C.L. Koh, and M. T.J. Ai.  Bacteria cell-to-cell communication: A laboratory manual.

ÔAkademi Sains MalaysiaÕ. 38 pages.

1

2002

K. Mathee, and C.L. Koh. Program and Abstract Book: 7th Asian Conference on Transcription (ACT-VII). 55 pages.

Theses and Dissertation

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

 

PUBLICATIONS OUTSIDE DISCIPLINE

 

1

2001

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