Divergence has established a reputation for scientific excellence including publication of over 40 peer-reviewed original research and review papers, many in collaboration with colleagues at Washington University's Genome Center and the Donald Danforth Plant Science Center.

2009

Bird, D. M., V. M. Williamson, P. Abad, J. McCarter, E. G. J. Danchin, P. Castagnone-Serenno, C. H. Opperman. 2009. "The Genomes of Root-knot Nematodes," Annual Review of Phytopathology, 47:333-351.
link to abstract

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Yin, Y., J. Martin, S. Abubucker, Z. Wang, L. Wyrwicz, L. Rychlewski, J. P. McCarter, R. K. Wilson, M. Mitreva. 2009. "Molecular Determinants Archetypical to the Phylum Nematoda," BMC Genomics, 10:114.
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Elling AA, Mitreva M, Gai X, Martin J, Recknor J, Davis EL, Hussey RS, Nettleton D, McCarter JP, Baum TJ. 2009. Sequence Mining and Transcript Profiling to Explore Cyst Nematode Parasitism, BMC Genomics. 10:58.
link to abstract | abstract | link to publication | publication

McCarter, J. P. 2009. "Molecular Approaches Toward Resistance to Plant-Parasitic Nematodes," Chapter in Cell Biology of Plant Nematode Parasitism, Berg, R. H. and C. G. Taylor eds., Series: Plant Cell Monographs, Vol. 15, Springer-Verlag Press, Berlin.
book available online (Springer) | book available online (Amazon) | publication

2008


Wylie, T., J. Martin, S. Abubucker, Y. Yin, D. Messina, Z. Wang, J. P. McCarter, M. Mitreva. 2008. NemaPath: Online Exploration of KEGG-based Metabolic Pathways for Nematodes, BMC Genomics. 9:525.
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McCarter, J. P. 2008. "Nematology: Terra Incognita No More," Nature Biotechnology, 26:882-884.
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Yin, Y., J. Martin, S. Abubucker, A. L. Scott, J. P. McCarter, R. K. Wilson, D. P. Jasmer, and M. Mitreva. 2008. "Intestinal Transcriptomes of Nematodes: Comparison of the Parasites Ascaris suum and Haemonchus contortus and the Free-living Caenorhabditis elegans," PLOS Neglected Tropical Diseases, 2:e269.
link to abstract | abstract | link to publication | publication

Lustigman S., Ford L., Crawford MJ. 2008. "RNA Interference: From Functional Genomics to Validation of Drug Targets in Helminths," Chapter in RNA Interference Research Progress, Lyland, R.T. and Browning I.B. eds. pp. 135-162. Nova Science Publishers, Hauppauge, N.Y.
book available online (Nova) | book available online (Amazon)

Abubucker, S., J. Martin, Y. Yin, L. Fulton, S. Yang, K. Hallsworth-Pepin, J. Hawdon, J. P. McCarter, R. K. Wilson, and M. Mitreva. 2008. "The Canine Hookworm Genome: Analysis and Classification of Survey Sequences," Molecular and Biochemical Parasitology, 157:187-192.
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Ghedin, E., et al. (65 co-authors). 2007. Draft Genome of the Filarial Nematode Parasite Brugia malayi, Science, 317:1756-1760. (Divergence authors - MJ Crawford, MW Dimmic, JP McCarter, DJ Williams)
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Berriman, J., S. Lustigman, J. P. McCarter. 2007. Genomics and Emerging Drug Discovery Technologies, Helminth Initiative for Drug Discovery Report of the Informal Consultation, Expert Opinion Drug Discovery, 2 (Supplement 1):S83-S89.
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Lustigman, S., J. P. McCarter. 2007. "Ivermectin Resistance in Onchocerca volvulus - Toward a Genetic Basis," PLOS Neglected Diseases, 1.e76.
link to abstract | link to publication | publication

Mitreva, M., D. S. Zarlenga, J. P. McCarter, D. P. Jasmer. 2007. "Parasitic nematodes - From Genomes to Control," Veterinary Parasitology, 148:31-42.
link to abstract | abstract | link to journal | journal

L. Petersen, J. P. Bollback, M. Dimmic, M. Hubisz, R. Nielsen (2007). "Genes under positive selection in Escherichia coli." Genome Research, 17(9):1336-43.
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Brendza, K. M., W. Haakenson, R. E. Cahoon, L. E. Hicks, L. E., L. H. Palavalli, B. J. Chiapelli, M. McLaird, J. P. McCarter, D. J. Williams, M. C. Hresko, J. M. Jez. 2007. "Phosphoethanolamine N-Methyltransferase (PMT-1) Catalyzes the First Reaction of a New Pathway for Phosphocholine Biosynthesis in Caenorhabditis elegans", Biochemistry Journal, 404:439-448.
link to abstract | abstract | link to publication | publication
Note: The Version of Record (VoR) is available at www.biochemj.org.

2006

Mitreva, M., M. C. Wendl, J. Martin, T. Wylie, Y. Yin, A. Larson, J. Parkinson, R. H. Waterston, and J. P. McCarter. 2006. "Codon Usage Patterns in the Phylum Nematoda: Analysis Based on Over 25 Million Codons in Thirty-two Species," Genome Biology, 7:R75.
link to abstract | abstract | link to publication | publication

Li, B-W., A. C. Rush, J. P. McCarter, G. J. Weil, M. D. Mitreva. 2006. "Brugia malayi: Transcriptional Analysis and Effect of Radiation and Culture on Gene Expression in Infective Larvae," Molecular and Biochemical Parasitology, 149:201-207.
link to abstract | link to journal | journal

Yin, Y., J. Martin, J. P. McCarter, S. W. Clifton, R. K. Wilson, and M. Mitreva. 2006. "Identification and Analysis of Genes Expressed in the Adult Filiarial Nematode Dirofilaria immitis," International Journal of Parasitology, 36:829-939.
link to abstract | abstract | link to journal | journal

Crawford M.J., Thomsen-Zieger N., Ray M., Schachtner J., Roos D.S., Seeber F. 2006. "Toxoplasma gondii scavenges host-derived lipoic acid despite its de novo synthesis in the apicoplast." EMBO Journal 25:3214-22.
link to abstract | abstract | link to journal | journal

Palavalli, L. H., K. M. Brendza, W. Haakenson, R. E. Cahoon, M. McLaird, J. P. McCarter, D. J. Williams, M. C. Hresko, J. M. Jez. 2006. "Defining the Role of Phosphomethylethanolamine N-Methyltransferase from Caenorhabditis elegans in Phosphocholine Biosynthesis by Biochemical and Kinetic Analysis", Biochemistry, 45:6056-6065
link to abstract | abstract | publication | publication

R. J. Fox, M.W. Dimmic (2006). "A two-sample Bayesian t-test for microarray data." BMC Bioinformatics, 7:126.
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Vanholme, B., M. Mitreva, W. V. Criekinge, M. Logghe, J. P. McCarter, and G. Gheysen. 2006. "Detection of Proteins Secreted by the Plant-parasitic Nematode Heterodera schachtii Based on Expressed Sequence Tags Analysis", Parasitology Research, 98:414-424.
link to abstract | abstract | link to journal | journal

2005

Bird, D. M., M. L. Blaxter, J. P. McCarter, M. Mitreva, P. W. Sternberg, W. K. Thomas. 2005. "A White Paper on Nematode Comparative Genomics", Journal of Nematology, 37:408-416.
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McCarter, J. P., D. M. Bird, M. Mitreva. 2005. "Nematode Gene Sequences: Update for December", 2005, Journal of Nematology, 37:417-421.
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Mitreva, M., M. L. Blaxter, D. M. Bird, J. P. McCarter. 2005. "Comparative Genomics of Nematodes", Trends in Genetics, 21:573-581.
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Mitreva, M., J. Appleton, J. P. McCarter, and D. P. Jasmer. 2005. "Expressed Sequence Tags From Life Cycle Stages of Trichinella spiralis: Application to Biology and Parasite Control", Veterinary Parasitology, 132:13-17.
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Thompson, F. J., M. D. Mitreva, G. L. A. Barker, J. Martin, R. H. Waterston, J. P. McCarter, and M. E. Viney. 2005. "An Expressed Sequence Tag Analysis of the Life-cycle of the Parasitic Nematode Strongyloides ratti, Molecular and Biochemical Parasitology, 142:32-46.
link to abstract | abstract | link to journal | journal

Mitreva, M., J. P. McCarter, P. Arasu, J. Hawdon, J. Martin, M. Dante, T. Wylie, J. Xu, J. E. Stajich, V. Kapulkin, S. W. Clifton, R. H. Waterston, and R. Wilson. 2005. "Investigating Hookworm Genomes by Comparative Analysis of Two Ancylostoma Species", BMC Genomics, 6:58, 1-19.
link to abstract | abstract | link to publication | publication

Behm, C. A., M. M. Bendig, J. P. McCarter, A. E. Sluder. 2005. "RNA Interference-based Discovery and Validation of New Drug Targets in Filarial Nematodes", Trends in Parasitology, 21:97-100.
link to abstract | abstract | link to journal | journal

2004

Parkinson, J., M. Mitreva, C. Whitton, M. Thomson, J. Daub, J. Martin, N. Hall, B. Barrell, R. H. Waterston, J. P. McCarter and M. Blaxter. 2004. A Transcriptomic Analysis of the Phylum Nematoda, Nature Genetics, 36:1259-1267.
link to abstract | abstract | link to journal | journal

Mitreva M, Elling AA, Dante M, Kloek AP, Kalyanaraman A, Aluru S, Clifton SW, Bird DM, Baum TJ, McCarter JP. 2004. "A survey of SL1-spliced transcripts from the root-lesion nematode Pratylenchus penetrans", Molecular Genetics and Genomics, 272:2, 138-148.
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Mitreva, M., D. P. Jasmer, J. Appleton, J. Martin, M. Dante, T. Wylie, S. W. Clifton, and R. H. Waterston, and J. P., McCarter. 2004. "Gene discovery in the adenophorean nematode Trichinella spiralis: an analysis of transcription from three life cycle stages", Molecular and Biochemical Parasitology, 137:277-291.
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McCarter, J. P. 2004. "Genomic Filtering, an Approach to Discovering Novel Antiparasitics", Trends in Parasitology, 20:462-468.
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Behm, C. A., M. M. Bendig, J. P. McCarter, A. E. Sluder. 2004. WHO/TDR Scientific Working Group on 'RNA Interference as a Means of Identifying Drug Targets for Filariasis' Report, World Health Organization Tropical Disease Research Publication.
publication

Mitreva, M. D., J. P., McCarter, J. Martin, M. Dante, T. Wylie, B. Chiapelli, D. Pape, S. W. Clifton, T. B. Nutman, and R. H. Waterston. 2004. "Comparative Genomics of Gene Expression in the Parasitic and Free-living Nematodes Strongyloides stercoralis and Caenorhabditis elegans", Genome Research, 14:209-220.
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Wylie, T., J.C. Martin, M. Dante, M. D. Mitreva, S. W. Clifton, A. Chinwalla, R. H. Waterston, R. K. Wilson, and J. P. McCarter. 2004. "Nematode.net: a Tool for Navigating Sequences from Parasitic and Free-living Nematodes", Nucleic Acids Research, 32:D423-D426.
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Jasmer, D. P., M. D. Mitreva, J. P. McCarter. 2004. "mRNA Sequences for Haemonchus contortus intestinal cathepsin B-like cysteine proteases display an extreme in abundance and diversity among mammalian parasitic nematodes", Molecular and Biochemical Parasitology, 137:297-305.
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2003

McCarter, J. P., M. Mitreva, S. W. Clifton, D. M. Bird and R. H. Waterston. 2003. "Nematode Gene Sequences: Update for December, 2003", Journal of Nematology, 35:465-469.
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Parkinson, J., M. Mitreva, N. Hall, M. Blaxter, and J. P. McCarter. 2003. "400,000 Nematode ESTs on the Net", Trends in Parasitology, 19:283-286.
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Scholl, E. H., J. L. Thorne, J. P. McCarter, D. M. Bird. 2003. "Horizontally Transferred Genes in Plant-parasitic Nematodes: A High-Throughput Genomic Approach", Genome Biology, 4:R39, 1-12.
link to abstract | abstract | link to publication | publication

McCarter, J. P., M. D. Mitreva, J. Martin, M. Dante, T. Wylie, U. Rao, D. Pape, Y. Bowers, B. Theising, C. Murphy, A. P. Kloek, B. Chiapelli, S. W. Clifton, D. M. Bird, and R. H. Waterston. 2003. "Analysis and Functional Classification of Transcripts from the Nematode Meloidogyne incognita", Genome Biology, 4:R26, 1-19.
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2002

McCarter, J. P., S. W. Clifton, D. M. Bird and R. H. Waterston. 2002. "Nematode Gene Sequences, Update for June 2002", Journal of Nematology, 34(2):71-74.
link to full citation | full citation | publication

2000

McCarter, J., P. Abad, J. T. Jones, and D. Bird. 2000. "Rapid Gene Discovery in Plant Parasitic Nematodes Via Expressed Sequence Tags", Nematology, 2(7):719-731.
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McCarter, J. P., D. McK. Bird, S. W. Clifton, and R. H. Waterston. 2000. "Nematode Gene Sequences, Update for December 2000", Journal of Nematology, 32(4):331-333.
link to full citation | publication