Susan Brown

Summary

Affiliation: Kansas State University
Country: USA

Publications

  1. pmc The repressor activity of Even-skipped is highly conserved, and is sufficient to activate engrailed and to regulate both the spacing and stability of parasegment boundaries
    Miki Fujioka
    Department of Microbiology and Immunology, Thomas Jefferson University, JAH490, Philadelphia, PA 19107, USA
    Development 129:4411-21. 2002
  2. pmc BeetleBase: the model organism database for Tribolium castaneum
    Liangjiang Wang
    Bioinformatics Center, Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Nucleic Acids Res 35:D476-9. 2007
  3. pmc BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum
    Hee Shin Kim
    KSU Bioinformatics Center, Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Nucleic Acids Res 38:D437-42. 2010
  4. pmc Analysis of repetitive DNA distribution patterns in the Tribolium castaneum genome
    Suzhi Wang
    Department of Biology, Kansas State University, Manhattan, KS 66506, USA
    Genome Biol 9:R61. 2008
  5. pmc Hedgehog signaling pathway function conserved in Tribolium segmentation
    Laila Farzana
    Division of Biology, Kansas State University, Ackert Hall, Manhattan, KS 66506, USA
    Dev Genes Evol 218:181-92. 2008
  6. pmc Conservation, loss, and redeployment of Wnt ligands in protostomes: implications for understanding the evolution of segment formation
    Ralf Janssen
    Department of Earth Sciences, Palaeobiology, Villavägen 16, SE 75236 Uppsala, Sweden
    BMC Evol Biol 10:374. 2010
  7. pmc Large-scale insertional mutagenesis of a coleopteran stored grain pest, the red flour beetle Tribolium castaneum, identifies embryonic lethal mutations and enhancer traps
    Jochen Trauner
    1Department of Biology, Developmental Biology, Friedrich Alexander University Erlangen, Erlangen, Germany
    BMC Biol 7:73. 2009
  8. pmc Incremental genetic K-means algorithm and its application in gene expression data analysis
    Yi Lu
    Dept of Computer Science, Wayne State University, Detroit, MI 48202, USA
    BMC Bioinformatics 5:172. 2004
  9. ncbi request reprint Characterization of the Tribolium Deformed ortholog and its ability to directly regulate Deformed target genes in the rescue of a Drosophila Deformed null mutant
    S Brown
    Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Dev Genes Evol 209:389-98. 1999
  10. ncbi request reprint Beetling around the genome
    Susan J Brown
    Division of Biology, Kansas State University, Manhattan 66505, USA
    Genet Res 82:155-61. 2003

Collaborators

Detail Information

Publications35

  1. pmc The repressor activity of Even-skipped is highly conserved, and is sufficient to activate engrailed and to regulate both the spacing and stability of parasegment boundaries
    Miki Fujioka
    Department of Microbiology and Immunology, Thomas Jefferson University, JAH490, Philadelphia, PA 19107, USA
    Development 129:4411-21. 2002
    ....
  2. pmc BeetleBase: the model organism database for Tribolium castaneum
    Liangjiang Wang
    Bioinformatics Center, Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Nucleic Acids Res 35:D476-9. 2007
    ..BeetleBase will be useful to the Tribolium research community for genome annotation as well as comparative genomics...
  3. pmc BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum
    Hee Shin Kim
    KSU Bioinformatics Center, Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Nucleic Acids Res 38:D437-42. 2010
    ..BeetleBase serves as a long-term repository for Tribolium genomic data, and is compatible with other model organism databases...
  4. pmc Analysis of repetitive DNA distribution patterns in the Tribolium castaneum genome
    Suzhi Wang
    Department of Biology, Kansas State University, Manhattan, KS 66506, USA
    Genome Biol 9:R61. 2008
    ..Analysis of the abundance and distribution of repetitive DNA in the recently sequenced genome of T. castaneum is important for understanding the structure and function of its genome...
  5. pmc Hedgehog signaling pathway function conserved in Tribolium segmentation
    Laila Farzana
    Division of Biology, Kansas State University, Ackert Hall, Manhattan, KS 66506, USA
    Dev Genes Evol 218:181-92. 2008
    ....
  6. pmc Conservation, loss, and redeployment of Wnt ligands in protostomes: implications for understanding the evolution of segment formation
    Ralf Janssen
    Department of Earth Sciences, Palaeobiology, Villavägen 16, SE 75236 Uppsala, Sweden
    BMC Evol Biol 10:374. 2010
    ..We also characterised Wnt gene expression in the latter three species, and further investigated expression of these genes in the beetle Tribolium castaneum...
  7. pmc Large-scale insertional mutagenesis of a coleopteran stored grain pest, the red flour beetle Tribolium castaneum, identifies embryonic lethal mutations and enhancer traps
    Jochen Trauner
    1Department of Biology, Developmental Biology, Friedrich Alexander University Erlangen, Erlangen, Germany
    BMC Biol 7:73. 2009
    ..Even so, there is a pressing need for forward genetic analysis to escape the bias inherent in candidate gene approaches...
  8. pmc Incremental genetic K-means algorithm and its application in gene expression data analysis
    Yi Lu
    Dept of Computer Science, Wayne State University, Detroit, MI 48202, USA
    BMC Bioinformatics 5:172. 2004
    ....
  9. ncbi request reprint Characterization of the Tribolium Deformed ortholog and its ability to directly regulate Deformed target genes in the rescue of a Drosophila Deformed null mutant
    S Brown
    Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Dev Genes Evol 209:389-98. 1999
    ..This is the first demonstration of the ability of a heterologous homeotic selector protein to directly regulate a target gene independent of an endogenous Drosophila autoregulatory loop...
  10. ncbi request reprint Beetling around the genome
    Susan J Brown
    Division of Biology, Kansas State University, Manhattan 66505, USA
    Genet Res 82:155-61. 2003
    ..A Tribolium genomic database, Beetlebase, is being constructed to integrate genetic, genomic and biological data as it becomes available...
  11. ncbi request reprint Entomological contributions to genetics: studies on insect germ cells linked genes to chromosomes and chromosomes to mendelian inheritance
    Susan J Brown
    Division of Biology, Kansas State University, Manhattan 66502, USA
    Arch Insect Biochem Physiol 53:115-8. 2003
  12. ncbi request reprint Molecular characterization of Tclabial and the 3' end of the Tribolium homeotic complex
    W Nie
    Division of Biology, Ackert Hall, Kansas State University, Manhattan, KS 66506, USA
    Dev Genes Evol 211:244-51. 2001
    ..Finally, we have examined the expression of Tclab transcripts in Tribolium embryos. As previously described for Drosophila and other insects, the expression of Tclab is specific to the intercalary segment...
  13. ncbi request reprint Tribolium Hox genes repress antennal development in the gnathos and trunk
    Susan J Brown
    Division of Biology, Kansas State University, Ackert Hall, Manhattan, KS 66506, USA
    Mol Phylogenet Evol 24:384-7. 2002
    ..This is dramatically demonstrated by a series of Hox mutants in the red flour beetle, Tribolium castaneum, and is likely an ancient function of Hox genes in insects...
  14. pmc Sequence of the Tribolium castaneum homeotic complex: the region corresponding to the Drosophila melanogaster antennapedia complex
    Susan J Brown
    Division of Biology, Kansas State University, Manhattan, Kansas 66506, USA
    Genetics 160:1067-74. 2002
    ..Unlike the ANTC, this region of the Tribolium HOMC contains no additional genes...
  15. pmc Implications of the Tribolium Deformed mutant phenotype for the evolution of Hox gene function
    S Brown
    Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Proc Natl Acad Sci U S A 97:4510-4. 2000
    ..Evidence from both Tribolium and Drosophila suggests that this ancestral gene served to repress anterior development as well as confer a trunk-specific identity...
  16. ncbi request reprint Computational identification of novel chitinase-like proteins in the Drosophila melanogaster genome
    Qingsong Zhu
    Department of Biochemistry, Kansas State University, Manhattan, KS 66506, USA
    Bioinformatics 20:161-9. 2004
    ..We are, therefore, interested in studying the functional genomics of chitinase-like gene families in insects...
  17. doi request reprint The genome of the model beetle and pest Tribolium castaneum
    Stephen Richards
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nature 452:949-55. 2008
    ..Systemic RNA interference in T. castaneum functions differently from that in Caenorhabditis elegans, but nevertheless offers similar power for the elucidation of gene function and identification of targets for selective insect control...
  18. pmc Analysis of the Tribolium homeotic complex: insights into mechanisms constraining insect Hox clusters
    Teresa D Shippy
    Division of Biology, Kansas State University, 116 Ackert Hall, Manhattan, KS 66506, USA
    Dev Genes Evol 218:127-39. 2008
    ..This work lays a foundation for future studies of the Tribolium HOMC that may provide insights into the reasons for Hox cluster conservation...
  19. pmc Do teashirt family genes specify trunk identity? Insights from the single tiptop/teashirt homolog of Tribolium castaneum
    Teresa D Shippy
    Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Dev Genes Evol 218:141-52. 2008
    ..We discuss this finding in the context of recent insights into the evolution and function of the Drosophila teashirt family genes...
  20. pmc Cloning and characterization of the Tribolium castaneum eye-color genes encoding tryptophan oxygenase and kynurenine 3-monooxygenase
    Marcé D Lorenzen
    Division of Biology, Kansas State University, Manhattan, Kansas 66506, USA
    Genetics 160:225-34. 2002
    ..These observations suggest that the Tribolium eye is pigmented only by ommochromes, not pteridines, and indicate that Tcv is potentially useful as a germline transformation marker...
  21. pmc Tribolium Wnts: evidence for a larger repertoire in insects with overlapping expression patterns that suggest multiple redundant functions in embryogenesis
    Renata Bolognesi
    Division of Biology, Ackert Hall, Kansas State University, Manhattan, KS 66502, USA
    Dev Genes Evol 218:193-202. 2008
    ..In contrast, the unique expression patterns of Wnt5, Wnt7 and Wnt11 in developing appendages likely indicate novel functions...
  22. doi request reprint Tubulin superfamily genes in Tribolium castaneum and the use of a Tubulin promoter to drive transgene expression
    Kendra S Siebert
    Department of Entomology, Kansas State University, Manhattan, KS 66506, USA
    Insect Biochem Mol Biol 38:749-55. 2008
    ..We also examined the TcalphaTub1 expression pattern in germline transformants using the enhanced green fluorescent protein (EGFP) reporter. Beetles transformed with this piggyBac-based reporter ubiquitously expressed EGFP at all stages...
  23. pmc Analysis of transcriptome data in the red flour beetle, Tribolium castaneum
    Yoonseong Park
    Department of Entomology, Kansas State University, Manhattan, KS 66506 4004, USA
    Insect Biochem Mol Biol 38:380-6. 2008
    ..We conservatively estimate that the current EST set represents more than 7,500 transcription units...
  24. ncbi request reprint Prediction of RNA-binding residues in protein sequences using support vector machines
    Liangjiang Wang
    Bioinformatics Center, Div of Biol, Kansas State Univ, Manhattan, KS 66506, USA
    Conf Proc IEEE Eng Med Biol Soc 1:5830-3. 2006
    ..79% for the neural networks. The results suggest that RNA binding residues can be predicted directly from amino acid sequence information. Online prediction of RNA-binding residues is available at http://bioinformatics.ksu.edu/bindn/..
  25. ncbi request reprint Prediction of DNA-binding residues from sequence features
    Liangjiang Wang
    Bioinformatics Center, Division of Biology, Kansas State University Manhattan, Kansas 66506, USA
    J Bioinform Comput Biol 4:1141-58. 2006
    ..Supplementary materials including the datasets are available at http://bioinformatics.ksu.edu/pdi/feature.html...
  26. ncbi request reprint The expression and function of the achaete-scute genes in Tribolium castaneum reveals conservation and variation in neural pattern formation and cell fate specification
    Scott R Wheeler
    Program in Neuroscience, Washington University School of Medicine, St Louis, MO 63110, USA
    Development 130:4373-81. 2003
    ..Our analysis of the Tribolium ac/sc genes indicates significant plasticity in gene number, expression and function, and implicates these modifications in the evolution of arthropod neural development...
  27. ncbi request reprint Computationally analyzing the possible biological function of YJL103C--an ORF potentially involved in the regulation of energy process in yeast
    Youping Deng
    Department of Biological Sciences, The University of Southern Mississippi, Hattresburg, MS 39406, USA
    Int J Mol Med 15:123-7. 2005
    ..Our study provides a method by which to explore the potential function of other genes currently annotated as having an unknown function in any organism for which global gene expression data are available...
  28. ncbi request reprint Anterior localization of maternal mRNAs in a short germ insect lacking bicoid
    Gregor Bucher
    Department Biologie II, Ludwig Maximilian Universität, München Luisenstrasse 14, 80333 München, Germany
    Evol Dev 7:142-9. 2005
    ..Although we were not able to demonstrate a function in early embryogenesis for Tc'eagle or Tc'pan, our findings suggest that other factors likely function as anterior determinants in Tribolium, and other nondipteran insects...
  29. pmc Genetic linkage maps of the red flour beetle, Tribolium castaneum, based on bacterial artificial chromosomes and expressed sequence tags
    Marcé D Lorenzen
    U S Department of Agriculture Agricultural Research Service GMPRC, Manhattan, Kansas 66502, USA
    Genetics 170:741-7. 2005
    ..The map and corresponding sequences can be accessed through BeetleBase (http://www.bioinformatics.ksu.edu/BeetleBase/)...
  30. pmc A pair-rule gene circuit defines segments sequentially in the short-germ insect Tribolium castaneum
    Chong Pyo Choe
    Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Proc Natl Acad Sci U S A 103:6560-4. 2006
    ..This pair-rule gene circuit provides insight into short-germ segmentation in Tribolium that may be more generally applicable to segmentation in other arthropods...
  31. pmc BindN: a web-based tool for efficient prediction of DNA and RNA binding sites in amino acid sequences
    Liangjiang Wang
    Bioinformatics Center, Division of Biology, Kansas State University, Manhattan, Kansas 66506, USA
    Nucleic Acids Res 34:W243-8. 2006
    ..BindN provides a useful tool for understanding the function of DNA and RNA-binding proteins based on primary sequence data...
  32. pmc 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
    Chong Pyo Choe
    Division of Biology, Kansas State University, Manhattan, KS 66506, USA
    Dev Biol 302:281-94. 2007
    ..Thus, while prd is functionally conserved, the fact that the register of slp function has evolved differently in the lineages leading to Drosophila and Tribolium reveals an unprecedented flexibility in pair-rule patterning...
  33. pmc Patterns of conservation and change in honey bee developmental genes
    Peter K Dearden
    Laboratory for Evolution and Development, Biochemistry Department, University of Otago, Dunedin, Aotearoa New Zealand
    Genome Res 16:1376-84. 2006
    ....
  34. pmc The Tribolium castaneum ortholog of Sex combs reduced controls dorsal ridge development
    Teresa D Shippy
    Division of Biology, Kansas State University, Manhattan, Kansas 66506, USA
    Genetics 174:297-307. 2006
    ..Thus, we find that specific regions of Cephalothorax are required for discrete steps in dorsal ridge formation...
  35. pmc Large diversity of the piggyBac-like elements in the genome of Tribolium castaneum
    Jianjun Wang
    Department of Plant Protection, Yangzhou University, Yangzhou, China
    Insect Biochem Mol Biol 38:490-8. 2008
    ..This large diversity of TcPLEs with generally low copy numbers suggests multiple invasions of the TcPLEs over a long evolutionary time without extensive multiplications or occurrence of rapid loss of TcPLEs copies...