Laboratory of Professor William "Barny" Whitman

Picture of the Whitman Lab

From left to right: Back row: Kamlesh Jangid, Barny Whitman, Felipe Sarmiento Boban
Middle row: Siti Chaerun, Shiyao Wang, Yuchen Liu, Magdalena Lupa
Front row: Christopher Reisch, Boguslaw Lupa


Methanococcus Research


Boguslaw Lupa

Boguslaw Lupa

Assistant Research Scientist

My research interests include the developmental biology, insect embryology and the morphology of the insect ovaries. During the work on my Ph.D. dissertation I have used both electron and conventional microscopy, as well as the fluorescent microscopy and histochemistry. In 2002 I have broadened my research interests and laboratory experience by joining the Department of Microbiology, here at UGA, working as the Postdoctoral Associate with Prof. Juergen Wiegel. This project concerned the non-oxidative, reversible hydroxy-aryl acid decarboxylases derived mainly from obligate or facultative anaerobes. During this time I have learned how to cultivate both aerobic and anaerobic bacteria, as well as I got familiar with molecular biology and enzyme characterization.

I joined the Laboratory of Prof. William Whitman in 2005. Currently, my research interests focus on the physiology of anaerobic microorganisms, the methanogenic archaea. In particular, my studies concern the energy and hydrogen metabolism of the hydrogenotrophic, mesophilic methanogen, Methanococcus maripaludis. Of special interest are the roles of the cytoplasmic hydrogenases and their interactions with the heterodisulfide reductase complex. I am also studying various aspects of formate-dependent hydrogen gas production in our model methanogen.

Information for Boguslaw Lupa
E-Mail: lupa@uga.edu
Lab Phone Number: 706.542.4692
Fax Number: 706.542.2674
Curriculum Vitae

Yuchen Liu

Yuchen Liu

Ph.D. Student

Currently I am trying to analyze the free amino acid pools in the cells of M. maripaludis. Free amino acid pool is important to the metabolism of the cells, since the free amino acid levels could regulate amino acids and protein synthesis and possibly many other metabolic pathways. The technique I am using now is capillary electrophoresis, which is a quick, sensitive and selective approach to determine amino acids in a complex mixture.

Information for Yuchen Liu
E-Mail: ycliu@uga.edu
Lab Phone Number: 706.542.4692
Fax Number: 706.542.2674
Curriculum Vitae

Felipe Sarmiento Boban

Felipe Andres Sarmiento Boban

Ph.D. Student

I obtained my bachelor degree in Biochemistry in 2006 from Chile. After that, I developed interest in extremophile microorganisms and methanogenic archaea. Thus, I decided to expand my knowledge and experience in this area and applied to the PhD. Program in Microbiology at UGA in 2008. Currently, I am working to test and develop new molecular tools using mobile genetic elements (transposons) to transform M. maripaludis with high transformation efficiency.

Information for Felipe Andres Sarmiento Boban
E-Mail: felipes@uga.edu
Lab Phone Number: 706.542.4692
Fax Number: 706.542.2674

Magdalena Lupa

Magdalena Lupa

Research Technician

For last couple of years, while in the Whitman Laboratory I have worked on multiple projects including: the purification of the labeled amino acids to study the aromatic amino acid biosynthesis, large-scale growth of M. maripaludis, and purification of cofactors involved in methanogenic pathway. I have also been involved in the characterization of the novel species M. aeolicus; isolation of genomic DNA from five closely related mesophilic methanococci for the genome sequencing projects. Recently, I have done the studies on biosynthesis of Fe-S clusters in M. maripaludis.

Currently I am working on a project, which aims at improving the ethanol production from acid hydrolysate of lingocellulose by anaerobic microorganisms by removing the inhibitory compounds, such as acetate and furfural. This project involves isolation and identification of novel microorganisms from the environment and the establishment of co-culture of the acetate-utilizing methanogen with the furfural-degrading sulfur reducing bacterium. By removing the inhibitors the efficiency of ethanol fermentation will be greatly improved.

Information for Magdalena Lupa
E-Mail: magdasl@uga.edu
Lab Phone Number: 706.542.4692
Fax Number: 706.542.2674
Curriculum Vitae

Environmental Research


Kamlesh Jangid

Kamlesh Jangid

Postdoctoral Associate

My research focus is on the succession and biogeography of microbial communities in soil and how these distribution patterns are influenced by natural and human-induced changes to the soil ecosystem. In addition, I am interested in cultivation and characterization of representatives of those bacterial taxa which show characteristic patterns of geographical selection and/or soil-specific occurrence.

I am currently studying the microbial communities in soils from Georgia, Kansas and Michigan. Based on the analyses of >11,000 bacterial 16S rRNA gene sequences from these soils, I have identified clusters of closely related species with similar physiological properties, i.e., operational taxonomic units (OTUs), which show two characteristic patterns of distribution. While some of these OTUs are abundant and widely distributed in all soils, others are found only in certain soils exhibiting either geographical selection and/or soil-specific occurrence. Presumably, these specific OTUs could potentially be the most active and/or important members of the parent soil microbial community.

Information for Kamlesh Jangid
E-Mail: jangidk@uga.edu
Lab Phone Number: 706.542.4692
Fax Number: 706.542.2674
Website: http://www.arches.uga.edu/~jangidk/
Curriculum Vitae

Siti Khodijah Chaerun

Siti Khodijah Chaerun

Postdoctoral Associate

My current study concentrates on the bacterial communities in saline and polluted agricultural fields in Aceh (Indonesia) as impacted by the December 26, 2004 Tsunami to ascertain whether all bacterial communities are equally susceptible to damage by pollutants (mineral salts, heavy metals, hydrocarbons) from Tsunami seawater. By using molecular techniques in combination with the mineralogical and chemical analyses, the structure and species composition of microbial communities will be determined. Their significance in bioremediation and mineralization processes of saline and polluted agricultural soils is also being evaluated: which predominant groups of microorganisms evolve in salinated soils under bioremediation, and which soil properties (organic compounds, minerals, nutrients) promote microbial activity in seawater-polluted soils. This study may provide a scientific basis to the development of bioremediation strategies.

Information for Siti Khodijah Chaerun
E-Mail: skchaerun@gmail.com
Lab Phone Number: 706.542.4692
Fax Number: 706.542.2674

Christopher Reisch

Christopher Reisch

Ph.D. Student

My research is based on the ubiquitous marine metabolite DMSP. Degradation of DMSP can result in the release of DMS, the primary natural source of atmospheric sulfur which is thought to have great influence on global climate regulation. The focus of my research is on characterizing several DMSP dependent demethylases, which drive DMSP away from DMS formation. I am also developing techniques that will be used to identify additional genes involved in the degradation of DMSP in our model organism Silicibacter pomeroyi.

Information for Christopher Reisch
E-Mail: micro07@uga.edu
Lab Phone Number: 706.542.4692
Fax Number: 706.542.2674

Shiyao Wang

Shiyao Wang

Ph.D. Student

Currently, I am working on genome and gene-comparison between M. maripaludis strains C5, C6, C7, and S2; M. aeolicus Nankai 3; M. vannielii SB; and M. voltae A3. I am using "predict_ms.pl" program (edited by Dr.Fengfeng Zhou in Professor Ying Xu's laboratory) to find microsatellites in the genomes and deduce the relationship and genetic distance between these methanogen species. I am also using multiple programs to predict highly expressed genes in the annotated genomes of these methanogenic Archaea. The various tools used were written by Jan Mrazek and are available here. The predicted genes would then be compared with the results from proteomics experiments to find the similarities and differences between the two approaches.

Information for Shiyao Wang
E-Mail: shiyao@uga.edu
Lab Phone Number: 706.542.4692
Fax Number: 706.542.2674

Former Lab Members


Iris Porat

Iris Porat

Assistant Research Scientist

Suresh Korpole

Suresh Korpole

Postdoctoral Associate

Tiffany Major

Tiffany Major

Ph.D. Student

James Henriksen

James Henriksen

Ph.D. Student

Rima Upchurch

Rima Upchurch

M.S. Student

Chris Lasher

Chris Lasher

Research Technician

Glen Dyszynski

Glen Dyszynski

Undergraduate Student


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