Kissinger Research Group
 Home News People Research Publications Photos Courses Lab Links Internal Contact 
Papers: 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | 2000 | 1999 | 1998 | 1997 | 1996-1989
Book Chapters | Poster | Software | Abstracts
 2008 top
Balu, B., C. Chauhan, S.P. Maher, D.A. Shoue, J.C. Kissinger, M.J. Fraser Jr. and J.H. Adams. Whole-genome mutagenesis of Plasmodium falciparum identifies critical blood-stage genes. (Submitted)
Mullapudi, N. and J. C. Kissinger. Identification and Functional characterization of cis-regulatory elements in the apicomplexan parasite Toxoplasma gondii. (Submitted)
Z. Wang, X. Gao, C. He, J.A. Miller, J.C. Kissinger, M. Heiges, C. Aurrecoechea, E.T. Kraemer and C. Pennington. An evaluation of Mulitiple approaches for database federation in the Life Sciences (Submitted)
Mendes,P.N., B. McKnight, A.P. Sheth and J.C. Kissinger. TcruziKB: Enabling complex queries for genomic data exploration (accepted)
Kuo, C-H, Wares, J.P. and J.C. Kissinger. The Apicomplexan whole genome phylogeny: an analysis of incongruence among trees (accepted)
Kuo, C.H and J.C. Kissinger. Consistent and contrasting properties of lineage-specific gene in the apicomplexan parasites Plasmodium and Theileria. BMC Evolutionary Biology 2008, 8:108
Sanderson SJ, Xia D, Prieto H, Yates J, Heiges M, Kissinger JC, Bromley E, Lal K, Sinden RE, Tomley F, Wastling JM. Determining the protein repertoire of Cryptosporidium parvum sporozoites. Proteomics 2008, 8, 0000-0000. DOI 10.1002/pmic.200700804
B. Gajria, A. Bahl, J. Brestelli, J. Dommer, S. Fischer, X. Gao, M. Heiges, J. Iodice, J.C. Kissinger *, A.J. Mackey, D. F. Pinney, D.S. Roos, C.J. Stoeckert Jr, H. Wang and B.P. Brunk. ToxoDB: an integrated Toxoplasma gondii database resource. Nucleic Acids Research, 2008, doi:10.1093/nar/gkm981
 2007 top
Wang Z., Gao X., He C., Miller J.A., Kissinger J.C., Heiges M., Aurrecoechea C., Kraemer E. and Pennington C., "A Comparison of Federated Databases with Web Services for the Integration of Bioinformatics Data," Proceedings of the 2007 International Conference on Bioinformatics & Computational Biology (BIOCOMP'07), Las Vegas, Nevada (June 2007) pp. 334-338.
Mullapudi, N., Lancto, C., Abrahamsen, M., Kissinger, J.C. (2007) Identification of putative cis-regulatory elements in Cryptosporidium parvum by de novo pattern finding. BMC Genomics 2007, 8:13
Z. Szabó, A. Oliveira Stahl, S-V. Albers, J. C. Kissinger, Arnold J.M. Driessen and M. Pohlschröder (2007) Identification of diverse archaeal proteins with class III signal peptides cleaved by distinct archaeal prepilin peptidases. Journal of Bacteriology doi:10.1128/JB.01547-06
Aurrecoechea, C., Heiges, M., Wang, H., Wang, Z., Fischer, S., Rhodes, P., Miller, J., Kraemer E., Stoeckert, C.J., Roos, D.S. and Kissinger, J.C. (2007) ApiDB: Integrated Resources for the Apicomplexan Bioinformatics Resource Center. Nucleic Acids Research doi:10.1093/nar/gkl880
Nash, O., Huynh, C., Doumbia, S., Kissinger, J.C., Isokpehi, R.D., Olorunsogo, O.O. (2007) Building Bioinformatics Capacity in West Africa. Special Issue: The African Journal of Medicine and Medical Sciences, 36 Suppl. 15-18
 2006 top
Chapman, B.A., Bowers J.E., Feltus F.A., Kissinger J.C. and Paterson A.H. Buffering crucial functions may impart cyclicality to angiosperm polyploidization Proc Natl Acad Sci U S A. 2006 February 21; 103(8): 2730¨C2735.
Stoeckert, C.J., Fischer, S., Kissinger, J.C., Heiges, M., Aurrecoechea, C., Garija, B. and Roos D.S. (2006) PlasmoDB 5.0: new looks, new genomes Trends in Parasitology 22(12), 543-546
Paterson, A.H., Chapman, B.A., Kissinger, J.C., Bowers, J.E., Feltus, F.A, Estill, J.C.(2006) Many gene and domain families have convergent fates following independent whole-genome duplication events in Arabidopsis, Oryza, Saccharomyces and Tetraodon. Trends in Genetics 22(11), 597-602
Wang, H., Su, Y., Mackey, A., Kraemer, E., and Kissinger, J.C. (2006) SynView: A GBrowse-compatible Approach to Visualizing Comparative Genome Data. Bioinformatics 22, 2308-2309
Kissinger, J.C. (2006) A Tale of three genomes - the kinetoplastids have arrived. Trends in Parasitology 22(6)
Agüero, F., Zheng, W, Weatherly, D.B., Mendes, P. and Kissinger. J.C. (2006) TcruziDB: An integrated, post-genomics community resource for Trypanosoma cruzi. NAR 34:D428-D431
Heiges, M., Wang, H., Robinson E., Aurrecoechea C., Gao X., Kaluskar N., Rhodes P., Wang S., He C., Su Y., Miller J., Kraemer E., and Kissinger J.C. (2006) CryptoDB: a Cryptosporidium bioinformatics resource update Nucleic Acids Res., Jan 2006; 34: D419 - D422.
 2004 top
Huang, J., N. Mullapudi, C.A. Lancto, M. Scott, M.S. Abrahamsen and Kissinger J.C. (2004) Cryptosporidium parvum: Phylogenomic evidence for organelle loss, intracellular and horizontal gene transfer. Genome Biology 5(11):R88
Striepen, B. and Kissinger, J.C. (2004) Genomics meets transgenics in search of the elusive Cryptosporidium drug target. Trends in Parasitology 20(8):355-358
Gunasekera AM, Patankar S, Schug J, Eisen G, Kissinger J, Roos D, Wirth DF. (2004) Widespread distribution of antisense transcripts in the Plasmodium falciparum genome. Mol Biochem Parasitol. Jul;136(1):35-42.
Vidigal, T.H.D.A., L. Spatz, Kissinger J.C., R.A.F. Redondo, E.C.R. Pires, A.J.G. Simpson and O.S. Carvalho. (2004). Analysis of the first and second internal transcribed spacer sequences of the ribosomal DNA in Biomphalaria tenagophila complex (Mullusca: Planorbidae). Memorias do Oswaldo Cruz 99(2):153-158
Striepen,B., A.J.P. Pruijssers, J. Huang, C. Li, M.J. Gubbels, N.N. Umejiego, L. Hedstrom and J.C. Kissinger. (2004) Multiple gene transfers in the evolution of parasite nucleotide biosynthesis. Proc. Natl. Acad. Sci., USA 101(9):3154-3159.
Huang, J., N. Mullapudi, T. Sicheritz-Ponten and J.C. Kissinger. (2004) A Glimpse into the pattern and scale of Gene transfer in the Apicomplexa. International J. for Parasitology 34:265-274
Stwora-Wojczyk, M.M., J.C. Kissinger, S.L. Spitalnik and B.S. Wojczyk.(2004) O-glycosylation in Toxoplasma gondii and Cryptosporidium parvum: Identification and analysis of a family of UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferases. International J. for Parasitology 34: 309-322
D. Puiu, S. Enomoto G.A. Buck, M. Abrahamsen and J.C. Kissinger. (2004) CryptoDB: The Cryptosporidium genome resource. Nucleic Acids Research 32:D329-331.
M. Luchtan, C. Warade, B Weatherly, R.L. Tarleton and J.C.Kissinger.(2004) TcruziDB: An integrated Trypanosoma cruzi genome resource. Nucleic Acids Research 32:D344-D346.
 2003 top
Milgram,A.J., Gajria,B., Kissinger,J.C., Pearson,D.S. and Roos,D.S. (2003) Plasmodiumfalciparum GenePlot. CD-ROM Insert, Plasmodium genome: Scientific achievement and medical opportunity. Nature, 421(6926).
Li, L., B.P. Brunk, J.C. Kissinger, D. Pape, J. Martin, T. Wylie, M. Dante, K. Tang, R. Cole, S. J. Fogarty, D.K. Howe, P. Liberator, C. Diaz, M. White, M.E. Jerome, E.A. Johnson, J.A. Radke, R. Waterson, S. Clifton, D.S. Roos, and L. D. Sibley. (2003) Gene Discovery in the Apicomplexa as Revelaed by EST Sequencing and Assembly of a Comparative Gene Database. Genome Research 13:443-454.
Su, C., D. Evans, R. Cole, J.C. Kissinger, J.W. Ajioka and L.D. Sibley. Recent expansion of Toxoplasma through enhanced oral transmission. (2003) Science, 299:414-416
Bahl, A., Brunk, B., Crabtree, J., Fraunholz, M. J., Gajria, B., Grant, G. R., Ginsburg, H., Gupta, D., Kissinger, J. C., Labo, P., Li, L., Mailman, M. D., Milgram, A. J., Pearson, D. S., Roos, D. S., Schug, J, Stoeckert, C. J. Jr., Whetzel, P. (2003) PlasmoDB: The Plasmodium Genome Resource. A database integrating experimental and computational data. Nucleic Acids Res. 31:212-215
Kissinger, J.C., B. Gajria, L. Li, I. Paulsen and D. Roos. (2003) ToxoDB: Accessing the Toxoplasma gondii Genome. Nucleic Acids Res. 31:234-236
 2002 top
Vidigal, T.H.D.A., K. G. Magalhaes,  J.C. Kissinger, R.L. Caldeira, A.J.G. Simpson and O.S. Carvalho. (2002) A multiplex-PCR approach to identification of the Brazilian intermediate hosts of Schistosoma mansoni. Memorias do Instituto Oswaldo Cruz 97(Suppl. I):95-97
Kissinger, J.C., B.P. Brunk, J. Crabtree, M.J. Fraunholz, B. Gajria, A.J. Milgram, D.S. Pearson, J. Schug, A. Bahl, S.J. Diskin, H. Ginsburg, G. R. Grant, D. Gupta, P. Labo, L. Li, M. Mailman, S.K. McWeeney, P. Whetzel, C.J. Stoeckert Jr., and D.S. Roos. (2002) PlasmoDB: the Plasmodium genome database. Designing and mining a eukaryotic genomics resource. Nature 419:490-492
Rose, R.W., T. Brueser,  J.C. Kissinger and M. Pohlschroder. (2002) Twin Arginine Translocation: A Way Out for Halophilic Archaea. Molecular Microbiology 45(4):943-950
Kissinger, J.C., P.C.A. de Souza, C.O. Soares, T.F. McCutchan and A.U. Krettli. (2002) Molecular Phylogenetic analysis of the avian malarial parasite Plasmodium (Novyella) juxtanucleare. Journal of Parasitology 88:769-773
Bahl A., B. Brunk, R.L. Coppel, J. Crabtree, S.J. Diskin, M.J. Fraunholz, G.R. Grant, D. Gupta, R.L. Huestis, J.C. Kissinger, P. Labo, L. Li, S.K. McWeeney, A.J. Milgram, D.S. Roos, J. Schug, and C.J. Stoeckert Jr. (2002) PlasmoDB: The Plasmodium Genome Resource. Nucleic Acids Research 30 (1):87-90
Roos, D.S., M.J. Crawford, R.G.K. Donald, M. Fraunholz, O.S. Harb, C.Y. He, J.C. Kissinger, M.K. Shaw, and B. Striepen.(2002) Mining the Plasmodium genome database to define organellar function: What does the apicoplast do? Philosophical Transactions Royal Society of London, B Biological Sciences 357(1417):35-46

 2001 top
Schein, A.T., J.C. Kissinger and L.H. Ungar. (2001) Chloroplast transit peptide prediction: a peek inside the black box. Nucleic Acids Research 29 (16):e82
Tarleton, R.L. and J.C. Kissinger. (2001) Parasite Genomics: Current Status and Future Prospects. Current Opinions in Immunology 13:395-402
Fast, N. M., J.C. Kissinger, J.C., D.S. Roos, and P.J. Keeling. (2001) Nuclear-encoded Plastid-targeted genes suggest a single common origin for apicomplexan and dinoflagellate plastids. Molecular Biology and Evolution 18(3):418-426
The Plasmodium Genome Database Collaborative. PlasmoDB: An integrative database of the Plasmodium falciparum genome. (2001)  Tools for accessing and analyzing finished and unfinished sequence data. Nucleic Acids Research 29(1):66-69
Akopyants, N.S., S.W. Cliston, J. Martin, D. Pape, T. Wylie, L. Li, J.C. Kissinger, D.S. Roos and S.M. Beverley.  (2001) A survey of the Leishmania major Friedlin strain V1 genome by shotgun sequencing: a resource for DNA microarrays and expression profiling. Molecular Biochemical Parasitology 113(2):337-40
 2000 top
Vidigal, T.H.D.A. J.C. Kissinger, R.L. Caldeira, E.C.R. Pires, E. Monteiro, A.J.G. Simpson and O.S. Carvalho. (2000) Phylogenetic relationships among Brazilian Biomphalaria species (Mollusca:Planorbidae) based upon analysis of ribosomal ITS2 sequences. Parasitology 121(6):611-620
Drozdowicz, Y.M., J.C. Kissinger, and P.A. Rea. (2000) A new category of H+-pyrophosphatase: AVP2, a sequence-divergent, monovalent cation-insensitive H+-translocating inorganic pyrophosphatase from Arabidopsis thaliana. Plant Physiology 123:353-362
Krautz, G.M, J.C. Kissinger and A.U. Krettli. (2000) The Targets of the Lytic Antibody Response against Trypanosoma cruzi. Parasitology Today 16(1):31-34

 1999 top
Roos, D.S., M.J. Crawford, R.G.K. Donald, J.C. Kissinger, L.J. Klimczak and B. Striepen. (1999) Origin, targeting, and function of the apicomplexan plastid. Current Opinions in Microbiology 2:426-432.
Roos, D.S., M.J. Crawford, R.G.K. Donald, L.M. Fohl, K.M. Hager, J.C. Kissinger, M.G. Reynolds, B. Striepen, and W.J. Sullivan Jr. (1999) Transport and Trafficking: Toxoplasma as a model for Plasmodium. Novartis Foundation Symposium 226:176-198.
 1998 top
Kissinger, J.C., W.E. Collins,  J. Li, and T.F. McCutchan. (1998) Plasmodium inui is not closely related to other Quartan Plasmodium Species. J. Parasitol. 84(2):278-282
Kissinger, J.C., and R. Raff. (1998) Evolutionary Changes in Sites and Timing of Expression of Actin Genes in Embryos of the Direct- and Indirect-Developing Sea Urchins, Heliocidaris erythrogramma and H. tuberculata . Development, Genes and Evolution 208(2):82-93
 1997 top
Carreno, R.A., J.C. Kissinger, T.F. McCutchan and J.R. Barta. (1997) Phylogenetic analysis of haemosporinid parasites (Apicomplexa: Haemosporina) and their co-evolution with vectors and intermediate hosts. Archiv für Protistenkunde 148:245-252
Bolker, J.A., M. Butler, J.C. Kissinger, and M.A. Riley.  (1997) Addressing the Gender Gap in Evolutionary Biology. Trends. Ecol. & Evol. Vol 12(2) p. 46-47
Li, J., R.R. Gutell, S.H. Damberger, R.A. Wirtz, J.C. Kissinger, M.J. Rogers, J. Sattabongkot and Thomas F. McCutchan. (1997) Regulation and trafficking of distinct sets of ribosomal RNAs during the Plasmodium vivax developmental cycle J. Mol. Biol. 269:203-213
Kissinger, J.C., J.H. Hahn and R. Raff. (1997) Rapid evolution in a conserved gene family: Evolution of the actin gene family in the Sea Urchin Genus Heliocidaris and Related Genera. Mol. Biol. Evol.  14:654-665.
 1996-1989 top
McCutchan, T. F., J.C. Kissinger, M.G. Touray, M. J. Rogers, J. Li, M. Sullivan, E.M. Braga, A.U. Krettli, L. H. Miller. (1996) Comparison of Circumsporozoite Proteins form Avian and Mammalian Malarias: Biological and Phylogenetic Implications. PNAS Vol. 93 p.11889-11894.
Popodi, E., J.C. Kissinger, M.E. Andrews and R. Raff.  (1996) Sea Urchin Hox Genes: Insights into the ancestral Hox cluster. Mol. Biol. Evol. 13: 1078-1086.
Hahn, H-H., J.C. Kissinger and R. Raff. (1995). Structure and Evolution of the CyI actin genes in the Direct- and Indirect-Developing Sea Urchins Heliocidaris erythrogramma and H. tuberculata Gene 153:219-224.
Sahm, D., J. Kissinger, M. Gilmore, P.Murray, R. Mulder, S. Solliday, and B. Clarke.  (1989). In-vitro susceptibility studies of vancomycin-resistant Enterococcus faecalis. Antimicrobial Agents and Chemotherapy. Sept: 1588-1591
 Book chapters top
Lorenza Putignani, Sanya J. Sanderson, Cristina Russo, Jessica Kissinger, Donato Menichella and Jonathan M. Wastling, Proteomic and genomic approaches to understanding the "power plant" of Cryptosporidium CABI publishing. (2007) (In press)
Kissinger, J.C. (2007) Genomics. In: Cryptosporidium and Cryptosporidiosis. Edited by Ron Fayer and Lihua Xiao. Taylor and Francis. Publisher CRC 2007 ISBN 1420052268
Kissinger, J.C., and Chih-Horng Kuo (2007) Evolution and comparative genomics of Toxoplasma gondii In: The Biology of Toxoplasma gondii Eds. J. Ajioka and D. Soldati. In Press, Horizon Press
Agüero.F., G.C. Oliveira, D.S. Roos, and J.C. Kissinger. (2006) Parasite Databases and Data Mining Approaches. In: Bioinformatics in Tropical Disease Research: A Practical Approach. H. del Portillo, A. Gruber, A. Durham and C. Hyuong Editors. NCBI Electronic Book (In Press - this will be a 2007 chapter)
Whetzel, P., Date, S.V., Essien, K., Fraunholz, M.J., Gajria, B., Grant, G.R., Iodice, J., Kissinger, J.C., Labo, P.T., Milgram, A.J., Roos, D.S. and C.J. Stoeckert. (2006) PlasmoDB: The Plasmodium Genomics and Functional Genomics Resource. In: In Silico Genomics and Proteomics: Functional Annotation of Genomes and Proteins. Edited by Nicola Mulder. Nova Science Publishers. Hauppauge, NY
Huang, J. and Kissinger, J.C. (2006) "Lateral and intracellular gene transfer in the Apicomplexa: the scope and functional consequences" In: Genome Evolution in Eukaryotic Microbes. Edited by Laura A. Katz and Debashish Bhattacharya. (Oxford University Press)
Whetzel, Patricia, Bindu Gajria, Jessica C. Kissinger, Christian J. Stoeckert Jr., and David S. Roos (2005) PlasmoDB: The Plasmodium Genome Resource in Malaria: Parasite Biology, Pathogenesis, and Protection, Second Edition, Edited by Irwin W. Sherman. ASM Press
Kissinger, J.C. and Roos, D.S. (2004) Getting the most out of Bioinformatics Resources. In: Genomes and the Molecular Biology of Malaria Parasites A. Waters and C. Janse (eds.) Horizon Scientific Press, Norfolk UK
Kissinger, J.C., M.J. Crawford, D.S. Roos and J. Ajioka. (2002) Toxoplasma gondii: A Model for Evolutionary Genomics and Chemotherapy. Pathogen Genomics: Impact on Human Health. K. J. Shaw Editor. Humana Press Inc., Totowa, New Jersey
Roos, D.S., J.A. Darling, M.G. Reynolds, K.M. Hager, B.S. Striepen and J.C. Kissinger. (1999) Toxoplasma as a model parasite: apicomplexan biochemistry, cell biology, molecular genetics, genomics and beyond. Biology of Parasitism. C. Tschudi and E. Pearce Editors. Kluwer Academic Publishers, Boston, Massachusettes.
 Poster top
Zerlotini A., Oliveira G.C., Kissinger J.C. From genes to drug targets: Applications for parasitic organisms ISMB 2008 Posters (Accepted)
Zerlotini A., Heiges M., Wang H., Kissinger J.C., Oliveira G.C. Integration and use of Schistosoma mansoni genomic data for the discovery of candidate therapeutic targets. ISMB 2008 Poster (Accepted)
 Software projects/databases top
 Abstracts, Commentary top
Kissinger, J.C., W.E. Collins and T.F. McCutchan.  (1997) Plasmodium parasites with quartan periodicities are not closely related to each other evolutionarily. Mem. Inst. Oswaldo Cruz. Vol 92 Suppl.:186
Butler, M and J.C. Kissinger. (1997) A Report from the Women in Evolution Conference. Posted February 4. http://nextwave.sciencemag.org/cgi/content/full/1998/03/29/59?
Kissinger, J.C. (1996) Evolutionary Origins of Human Plasmodium Species. Mem. Inst. Oswaldo Cruz. Vol 91 Suppl.:19
UGA CTEGD Genetics GUS CryptoDB PlasmoDB TcruziDB ToxoDB YourDB CBIL
Contact: jckadmin@uga.edu    Last modified: Tuesday, 03-Jun-2008 15:12:40 EDT
The Center for Tropical & Emerging Global Diseases & Department of Genetics
University of Georgia, 500 D.W. Brooks Drive, 145 Paul D. Coverdell Center. Athens, GA 30602-7399