http://www.ksu.edu/biology K-State Division of Biology
brown

Susan J. Brown

University Distinguished Professor

Ph.D. 1984, University of Missouri-Columbia
Genetics

Research Areas: Evolution of gene regulatory networks, using segmentation in the red flour beetle, Tribolium castaneum as a model system. Genomics and Bioinformatics, focusing on genome sequence analysis Tribolium.


239A Chalmers Hall
(785) 532-3935
sjbrown@ksu.edu 

KSU Tribolium Genetics Program Web
Molecular Cellular Developmental Biology Web


Selected Research Publications

Kim, H., Murphy, T., Xia, J., Caragea, D., Park, Y., Beeman, R., Lorenzen, M., Butcher, S., Manak, J. and Brown, S. 2010. Beetlebase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum. Nucleic Acids Research epub doi:10.1093/nar/gkp807.

Janssen, R., M Le Gouar, M Pechmann, F Poulin, R Bolognesi, E Schwager, C Hopfen, J  Colbourne , G. Budd, SJ Brown, NM Prpic, C Kosiol, M Vervoort, W Damen, G Balavoine, AP McGregor. 2010. Conservation, loss, and redeployment of Wnt ligands in protostomes: implications for understanding the evolution of segment. BMC Evol Biol. 10:374.

Choe, CP and SJ Brown. 2009. Genetic regulation of engrailed and wingless in Tribolium segmentation and the evolution of pair-rule segmentation. Developmental Biology325: 482-91.

Bolognesi, R, Fischer TD, Brown SJ. 2009. Loss of Tc-arrow and canonical Wnt signaling alters posterior morphology and pair-rule gene expression in the short-germ insect, Tribolium castaneum. Dev Genes Evol. 219(7): 369-75.

Trauner, J, J Schinko, MD Lorenzen, TD Shippy, EA Wimmer, RW Beeman, M Klingler, G Bucher and SJ Brown. 2009. Large-Scale insertional mutagenesis of a coleopteran stored grain pest, the red flour beetle Tribolium castaneum, identifies embryonic lethal mutations and enhancer traps. BMC Biology, 7:73.

Brown, SJ,  TD Shippy, S Miller, R Bolognesi, RW Beeman MD Lorenzen, GBucher, EA Wimmer and M Klinger. 2009. Tribolium castaneum: a model for studies of development and pest biology. Emerging Model Organisms Vol 2, (Patel, N; editor:  Cold Spring Harbor Laboratory Press). Cold Spring Harb. Protoc.; 2009; doi:10.1101/pdb.emo126.

Wang, J., Y. Du, S.Wang, S. Brown and Y Park. 2008. Large diversity of the piggyBac-like elements in the genome of Tribolium castaneum. Insect Biochem. Mol Biol. 38:490-498.

Park, Y., J Aikins, LJ.Wang, RW Beeman, B. Oppert, J Lord, SJ Brown, MD Lorenzen, S. Richards, GM Weinstock and RA Gibbs. 2008. Analysis of transcriptome data in the red flour beetle, Tribolium castaneum. Insect Biochem. Mol Biol. 38:380-386.

Bolognesi, R., A Beerman, L Farzana, N Wittkopp, R Lutz, G. Balavoine, SJ Brown and R Schröder.  2008. Tribolium Wnts: evidence for a larger repertoire in insects with overlapping expression patterns that suggest multiple redundant functions in embyrogenesis. Dev. Genes and Evol. 218:193-202.

Faranza, L. and SJ Brown. 2008. Hedgehog signaling pathway function conserved in Tribolium segmentation. Dev. Genes and Evol. 218:181-92.

The Tribolium Genome Sequencing Consortium. 2008. The genome of the model beetle and pest Tribolium castaneumNature 452:949-55.

Shippy, T,  Y Tomoyasu, W Nie, SJ Brown and Robin E. Denell. 2008. Do teashirt family genes specify trunk identity?: Insights from the single tiptop/teashirt homolog of Tribolium castaneum. Dev. Genes Evol. 218:141-52.

Shippy, T, M Ronshaugen, J Cande, J He, R Beeman, M Levine, SJ Brown and RE Denell. 2008. Analysis of the Tribolium Homeotic Complex: Insights into mechanisms constraining insect Hox Clusters. Dev. Genes Evol. 218:127-39.

Wang, S, MD Lorenzen, R Beeman and SJ Brown. 2008. Analysis of Repetitve DNA distribution patterns in the Tribolium castaneum Genome. Genome Biology epub 9:R61.

Bolognesi, R, T Fischer, L Farzana and SJ Brown. 2008. Multiple Wnt Genes Are Required for Segmentation in the Short-Germ Embryo of Tribolium castaneum. Current Biology 18:1624-9.

Siebert, KS, MD Lorenzen, SJ Brown, Y Park, and RW Beeman. 2008. Tubulin superfamily genes in Tribolium castaneum and the use of a Tubulin promoter to drive transgene expression. Insect Biochem. Mol. Biol. Vol 38: 749-55.

Miller, S.C.,  SJ Brown,  Y Tomoyasu. 2008. Larval RNAi in Drosophila?  Dev. Genes Evol. 218:505-10.

Lorenzen, M.D., T. Kimzey, T.D. Shippy, S.J. Brown, R.E. Denell, and R.W. Beeman.  2007.  piggyBac-based insertional mutagenesis in Tribolium castaneum using donor/helper hybrids. Insect Molecular Biology 16:265-75.

Wang, L.J, S. Wang, Y. Li, M.S. Paradesi, and S.J. Brown.  2007.  Beetlebase: a database for the Tribolium Genome ProjectNAR (database issue) D476-9.

Choe, C.P., S.Miller, and S.J. Brown.  2006.  A pair-rule gene circuit defines segments sequentially in the short-germ insect Tribolium castaneum. PNAS 103:6560-4.

Choe, C.P. and S.J. Brown.  2006.  Evolutionary flexibility of pair-rule patterning revealed by functional analysis of secondary pair-rule genes, paired and sloppy-paired in the short germ insect, Tribolium castaneum.  Developmental Biology 302: 281-294.

Dearden, P.K., M. Wilson, L. Sablan, P. Osborne, M. Havler, E. McNaughton, K. Kimura, W. Dunn, N. Milshina, Martin Hasselmann, T. Gempe, M. Schioett, J. Willi, S.J. Brown, C. Elsik, P. Holland, T. Kadowaki, and M. Beye.  2006.  Patterns of conservation and change in Honeybee developmental genes. Genome Research 16:1376-84.

The Honeybee Genome Sequencing Consortium.  2006.  Insights into social insects from the genome of the honeybee Apis mellifera.  Nature  443: p931-949.

Shippy T.D., C.D. Rogers, R.W. Beeman, S.J. Brown, and R.E. Denell.  2006.  The Tribolium castaneum Ortholog of Sex combs reduced Controls Dorsal Ridge Development. Genetics 174: 297-307.

Wang, L.J. and S.J. Brown.  2006.  BindN: a web-based tool for efficient prediction of DNA and RNA binding sites in amino acid sequencesNAR 34 (Web server issue): W243-W248. (cover article).

Wang, L.J. and S.J. Brown.  2006.  Prediciton of RNA-Binding Residues in Protein Sequences using Support Vector Machines.  Proc. of the 28th Annual Internat. Conf. of the IEE EMBS. P5830-5833.

Wang, L.J. and S.J. Brown.  2006.  Prediction of DNA-Binding Residues from Sequence Features. J. Bioinform. and Comp. Biol.  4:1141-1158.

Bucher, G., L. Farzana, S.J. Brown, M. Klingler.  2005.  Anterior localization of maternal mRNAs in a short germ insect lacking bicoid.  Evol Dev. 7(2): 142-9.

Deng, Y., T. He, Y. Wu, P. Vanka, G. Yang, Y. Huang, H. Yao, and S.J. Brown.  2005.  Computationally analyzing the possible biological function of YJL103C--an ORF potentially involved in the regulation of energy process in yeast.  Int J Mol Med. 15(1): 123-7.

Shippy, T. and S.J. Brown.  2005.  Closing the Gap: Comparative approaches to studying insect development in the red flour beetle Tribolium castaneum and other short and intermediate germ insects. Current Genomics 6:571-578.

Lorenzen, M.D., Z. Doyungan, J. Savard, K. Snow, L.R. Crumly, T.D. Shippy, J.J. Stuart, S.J. Brown, and R.W. Beeman.  2005.  Genetic linkage maps of the red flour beetle, Tribolium castaneum, based on bacterial artificial chromosomes and expressed sequence tags.  Genetics. 170(2): 741-7.

Brown, S.J., T.D. Shippy, R.E. Denell, and R.W. Beeman.  2004.  Homeotic genes in Tribolium (Coleoptera) in The Encyclopedia of Entomology (Ed: John Capinera and Herb Oberlander) pp. 433-6.

Lu,Y., S. Lu, F. Fotouhi, Y. Deng, and S.J. Brown.  2004.  Incremental genetic K-means algorithm and its application in gene expression data analysis.  BMC Bioinformatics. 5(1):172.

Zhu, Q., Y. Deng, P. Vanka, S.J. Brown, S. Muthukrishnan, K.J. Kramer.  2004.  Computational identification of novel chitinase-like proteins in the Drosophila melanogaster genome.  Bioinformatics20(2): 161-9.

Lorenzen, M.D., A.J. Berghammer, S.J. Brown, R.E. Denell, M. Klingler, and R.W. Beeman.  2003.  piggyBac-mediated germline transformation in the beetle Tribolium castaneum.  Insect Mol Biol. 12(5): 433-40.

Brown,S.J., R.E. Denell, and R.W. Beeman.  2003.  Beetling around the genome.  Genet Res. 82(3):155-61.

Burke, A. and S.J. Brown.  2003.  Homeotic Genes: Animals in Keywords in Evolution and Development (Ed.: Brian K. Hall; University of Harvard Press) pp.174-184.

Brown, S.J.  2003.  Entomological Contributions to Genetics: Studies on Insect Germ Cells Linked Genes to Chromosomes, and Chromosomes to Mendelian InheritanceArchives of Insect Biochemistry and Physiology 53:115-8.

Wheeler,S.R., M.L. Carrico, B.A. Wilson, S.J. Brown, and J.B. Skeath.  2003.  The expression and function of the achaete-scute genes in Tribolium castaneum reveals conservation and variation in neural pattern formation and cell fate specification.  Development. 130(18): 4373-81.

Brown, S., J. Fellers, T. Shippy, E.A. Richardson, M. Maxwell, J. Stuart, and R. Denell.  2002.  Sequence of the ANTC portion of the Tribolium Homeotic Complex. Genetics 160:1064-74.

Brown, S.J., T.D. Shippy, R.W. Beeman, and R.E. Denell.  2002.  Tribolium Hox genes repress antennal development in the gnathos and trunk. Molecular Phylogenetics and Evolution 24:384-7.

Brown, S., J. Fellers, T. Shippy, R. Denell, M. Stauber, and U. Schmidt-Ott.  2001.  A strategy for mapping bicoid on the phylogentic treeCurrent Biology 11: R43-4.

Brown, S.J., J.P. Mahaffey, M. Lorenzen, R. Denell, and J.W. Mahaffey.  1999.  Using RNAi to investigate orthologous homeotic gene function during development of distantly related insects. Evol. and Dev. 1:11-15.

Beeman, R.W. and S.J. Brown.  1999.  RAPD-based genetic linkage maps of Tribolium castaneum. Genetics 153:333-338.

Complete List of Research Publications -(PDF)


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