Benjamin F Matthews

Summary

Affiliation: Agricultural Research Service
Country: USA

Publications

  1. pmc Arabidopsis genes, AtNPR1, AtTGA2 and AtPR-5, confer partial resistance to soybean cyst nematode (Heterodera glycines) when overexpressed in transgenic soybean roots
    Benjamin F Matthews
    United States Department of Agriculture, Agricultural Research Service, Soybean Genomics and Improvement Laboratory, Beltsville, MD 20705, USA
    BMC Plant Biol 14:96. 2014
  2. pmc Using an ensemble of statistical metrics to quantify large sets of plant transcription factor binding sites
    Parsa Hosseini
    Department of Bioinformatics and Computational Biology, George Mason University, Manassas, Virginia, USA
    Plant Methods 9:12. 2013
  3. pmc Engineered resistance and hypersusceptibility through functional metabolic studies of 100 genes in soybean to its major pathogen, the soybean cyst nematode
    Benjamin F Matthews
    Soybean Genomics and Improvement Laboratory, United States Department of Agriculture, Agricultural Research Service, 10300 Baltimore Ave, Bldg 006, Beltsville, MD 20705, USA
    Planta 237:1337-57. 2013
  4. pmc An efficient annotation and gene-expression derivation tool for Illumina Solexa datasets
    Parsa Hosseini
    Jess and Mildred Fisher College of Science and Mathematics, Department of Computer and Information Sciences, Towson University, 7800 York Road, Towson, Maryland, 21252, USA
    BMC Res Notes 3:183. 2010
  5. pmc Population-specific gene expression in the plant pathogenic nematode Heterodera glycines exists prior to infection and during the onset of a resistant or susceptible reaction in the roots of the Glycine max genotype Peking
    Vincent P Klink
    Department of Biological Sciences, Harned Hall, Mississippi State University, Mississippi State, MS 39762, USA
    BMC Genomics 10:111. 2009
  6. pmc Analysis of gene expression in soybean (Glycine max) roots in response to the root knot nematode Meloidogyne incognita using microarrays and KEGG pathways
    Heba M M Ibrahim
    United States Department of Agriculture, Plant Sciences Institute, Beltsville, MD 20705, USA
    BMC Genomics 12:220. 2011
  7. ncbi request reprint Laser capture microdissection (LCM) and comparative microarray expression analysis of syncytial cells isolated from incompatible and compatible soybean (Glycine max) roots infected by the soybean cyst nematode (Heterodera glycines)
    Vincent P Klink
    United States Department of Agriculture, Soybean Genomics and Improvement Laboratory, Bldg 006, Rm 118, 10300 Baltimore Ave, Beltsville, MD 20705 2350, USA
    Planta 226:1389-409. 2007
  8. ncbi request reprint A time-course comparative microarray analysis of an incompatible and compatible response by Glycine max (soybean) to Heterodera glycines (soybean cyst nematode) infection
    Vincent P Klink
    United States Department of Agriculture, Soybean Genomics and Improvement Laboratory, 10300 Baltimore Ave Bldg 006, Beltsville, MD 20705, USA
    Planta 226:1423-47. 2007
  9. pmc A decline in transcript abundance for Heterodera glycines homologs of Caenorhabditis elegans uncoordinated genes accompanies its sedentary parasitic phase
    Vincent P Klink
    United States Department of Agriculture, Soybean Genomics and Improvement Laboratory, Beltsville, MD 20705, USA
    BMC Dev Biol 7:35. 2007
  10. doi request reprint Post-transcriptional gene silencing of the gene encoding aldolase from soybean cyst nematode by transformed soybean roots
    Reham M Youssef
    USDA ARS, Soybean Genomic and Improvement Laboratory, 10300 Baltimore Ave, Beltsville, MD 20705, United States
    Exp Parasitol 134:266-74. 2013

Collaborators

Detail Information

Publications20

  1. pmc Arabidopsis genes, AtNPR1, AtTGA2 and AtPR-5, confer partial resistance to soybean cyst nematode (Heterodera glycines) when overexpressed in transgenic soybean roots
    Benjamin F Matthews
    United States Department of Agriculture, Agricultural Research Service, Soybean Genomics and Improvement Laboratory, Beltsville, MD 20705, USA
    BMC Plant Biol 14:96. 2014
    ..Several reports demonstrate that SA limits nematode reproduction...
  2. pmc Using an ensemble of statistical metrics to quantify large sets of plant transcription factor binding sites
    Parsa Hosseini
    Department of Bioinformatics and Computational Biology, George Mason University, Manassas, Virginia, USA
    Plant Methods 9:12. 2013
    ..Output from today's transcriptomic assays necessitates statistically-oriented software to handle large promoter-sequence sets in a computationally tractable fashion...
  3. pmc Engineered resistance and hypersusceptibility through functional metabolic studies of 100 genes in soybean to its major pathogen, the soybean cyst nematode
    Benjamin F Matthews
    Soybean Genomics and Improvement Laboratory, United States Department of Agriculture, Agricultural Research Service, 10300 Baltimore Ave, Bldg 006, Beltsville, MD 20705, USA
    Planta 237:1337-57. 2013
    ..Overexpression of some of these genes result in a greater decrease in the number of cysts formed than recognized soybean cyst nematode resistance loci...
  4. pmc An efficient annotation and gene-expression derivation tool for Illumina Solexa datasets
    Parsa Hosseini
    Jess and Mildred Fisher College of Science and Mathematics, Department of Computer and Information Sciences, Towson University, 7800 York Road, Towson, Maryland, 21252, USA
    BMC Res Notes 3:183. 2010
    ..To not only extract from such analysis, a measure of gene expression in the form of tag-counts, but furthermore to annotate such reads is therefore of significant value...
  5. pmc Population-specific gene expression in the plant pathogenic nematode Heterodera glycines exists prior to infection and during the onset of a resistant or susceptible reaction in the roots of the Glycine max genotype Peking
    Vincent P Klink
    Department of Biological Sciences, Harned Hall, Mississippi State University, Mississippi State, MS 39762, USA
    BMC Genomics 10:111. 2009
    ..Other analyses focused on the infective L2 at 12 hours post infection (i-L2(12h)), and the infective sedentary stages at 3 days post infection (i-L2(3d)) and 8 days post infection (i-L2/L3(8d))...
  6. pmc Analysis of gene expression in soybean (Glycine max) roots in response to the root knot nematode Meloidogyne incognita using microarrays and KEGG pathways
    Heba M M Ibrahim
    United States Department of Agriculture, Plant Sciences Institute, Beltsville, MD 20705, USA
    BMC Genomics 12:220. 2011
    ..The expression of some plant genes is altered by the nematode as it establishes its feeding site...
  7. ncbi request reprint Laser capture microdissection (LCM) and comparative microarray expression analysis of syncytial cells isolated from incompatible and compatible soybean (Glycine max) roots infected by the soybean cyst nematode (Heterodera glycines)
    Vincent P Klink
    United States Department of Agriculture, Soybean Genomics and Improvement Laboratory, Bldg 006, Rm 118, 10300 Baltimore Ave, Beltsville, MD 20705 2350, USA
    Planta 226:1389-409. 2007
    ....
  8. ncbi request reprint A time-course comparative microarray analysis of an incompatible and compatible response by Glycine max (soybean) to Heterodera glycines (soybean cyst nematode) infection
    Vincent P Klink
    United States Department of Agriculture, Soybean Genomics and Improvement Laboratory, 10300 Baltimore Ave Bldg 006, Beltsville, MD 20705, USA
    Planta 226:1423-47. 2007
    ..max to engage an I reaction, thus, appears to be dependent on the ability of root cells to recognize the different races of H. glycines because these experiments were conducted in the identical G. max genetic background...
  9. pmc A decline in transcript abundance for Heterodera glycines homologs of Caenorhabditis elegans uncoordinated genes accompanies its sedentary parasitic phase
    Vincent P Klink
    United States Department of Agriculture, Soybean Genomics and Improvement Laboratory, Beltsville, MD 20705, USA
    BMC Dev Biol 7:35. 2007
    ..glycines homolog of unc-87 (calponin) during the adult sedentary phase of SCN. These observations implied that changes in the expression of specific muscle genes occurred during sarcopenia...
  10. doi request reprint Post-transcriptional gene silencing of the gene encoding aldolase from soybean cyst nematode by transformed soybean roots
    Reham M Youssef
    USDA ARS, Soybean Genomic and Improvement Laboratory, 10300 Baltimore Ave, Beltsville, MD 20705, United States
    Exp Parasitol 134:266-74. 2013
    ..These results indicate that silencing the aldolase gene of SCN +can greatly decrease the number of female SCN reaching maturity, and it is a promising step towards broadening resistance of plants against plant-parasitic nematodes...
  11. doi request reprint Post-transcriptional gene silencing of root-knot nematode in transformed soybean roots
    Heba M M Ibrahim
    United States Department of Agriculture, Plant Sciences Institute, Beltsville, MD 20705, USA
    Exp Parasitol 127:90-9. 2011
    ..These results indicate that silencing the genes encoding TP and MSP can greatly decrease gall formation and shows a promising solution for broadening resistance of plants against this plant-parasitic nematode...
  12. ncbi request reprint Major differences observed in transcript profiles of blueberry during cold acclimation under field and cold room conditions
    Anik L Dhanaraj
    Fruit Laboratory, USDA ARS, Henry A Wallace Beltsville Agricultural Research Center, Bldg 010A BARC West, 10300 Baltimore Ave, Beltsville, MD 20705, USA
    Planta 225:735-51. 2007
    ....
  13. ncbi request reprint Identification of Heterodera glycines (soybean cyst nematode [SCN]) cDNA sequences with high identity to those of Caenorhabditis elegans having lethal mutant or RNAi phenotypes
    Nadim W Alkharouf
    United States Department of Agriculture, ARS, Soybean Genomics and Improvement Laboratory, Beltsville, MD 20705 2350, USA
    Exp Parasitol 115:247-58. 2007
    ..Endogenous Hg-rps-23 exhibited typical RNA silencing as shown by RT-PCR. However, an unrelated gene Hg-unc-87 did not exhibit RNA silencing in the Hg-rps-23 dsRNA-treated worms, demonstrating the specificity of the silencing...
  14. pmc Ectopic expression of AtPAD4 broadens resistance of soybean to soybean cyst and root-knot nematodes
    Reham M Youssef
    USDA ARS, Soybean Genomic and Improvement Laboratory, 10300 Baltimore Ave, Bldg 006, Beltsville, MD 20705, USA
    BMC Plant Biol 13:67. 2013
    ..maculicola. AtPAD4 (Arabidopsis thaliana PAD4) encodes a lipase-like protein that plays a regulatory role mediating salicylic acid signaling...
  15. doi request reprint Manipulation of two α-endo-β-1,4-glucanase genes, AtCel6 and GmCel7, reduces susceptibility to Heterodera glycines in soybean roots
    Mi Ok Woo
    Soybean Genomics and Improvement Laboratory, USDA ARS, Beltsville, MD, 20705, USA
    Mol Plant Pathol 15:927-39. 2014
    ..schachtii interaction as a model for the soybean-H. glycines pathosystem. ..
  16. ncbi request reprint Timecourse microarray analyses reveal global changes in gene expression of susceptible Glycine max (soybean) roots during infection by Heterodera glycines (soybean cyst nematode)
    Nadim W Alkharouf
    USDA ARS PSI SGIL, Bldg 006, Rm 118, 10300 Baltimore Avenue, Beltsville, MD 20705, USA
    Planta 224:838-52. 2006
    ..These results identified specific changes in gene transcript levels triggered by infection of susceptible soybean roots by SCN...
  17. pmc Analysis of Phakopsora pachyrhizi transcript abundance in critical pathways at four time-points during infection of a susceptible soybean cultivar using deep sequencing
    Arianne Tremblay
    Soybean Genomics and Improvement Laboratory, United States Department of Agriculture Agricultural Research Service USDA ARS, Beltsville, MD 20705, USA
    BMC Genomics 14:614. 2013
    ..pachyrhizi to gain new insights into transcript abundance in soybean and the pathogen at specific time-points during the infection including the uredinial stage...
  18. doi request reprint Two-dimensional proteome reference maps for the soybean cyst nematode Heterodera glycines
    Xi Chen
    USDA ARS, Soybean Genomics and Improvement Laboratory, PSI, Beltsville, MD 20705, USA
    Proteomics 11:4742-6. 2011
    ..Proteins with annotated function were further categorized by Gene Ontology. The results showed that proteins involved in metabolic, developmental and biological regulation processes were the most abundant...
  19. pmc Protease inhibitor expression in soybean roots exhibiting susceptible and resistant interactions with soybean cyst nematode
    Nahed A Rashed
    USDA ARS, Soybean Genomics and Improvement Laboratory, 10300 Baltimore Ave, Building 006, Beltsville, MD 20705 Desert Research Center, El Mataria, Cairo, Egypt
    J Nematol 40:138-46. 2008
    ..These transcripts were generally less abundant in roots exhibiting the resistant interaction...
  20. pmc SGMD: the Soybean Genomics and Microarray Database
    Nadim W Alkharouf
    Soybean Genomics and Improvement Laboratory, USDA ARS, Building 006, Room 118, 10300 Baltimore Avenue, Beltsville, MD 20705 2350, USA
    Nucleic Acids Res 32:D398-400. 2004
    ..SGMD is completely accessible from the web at: http://psi081.ba.ars.usda.gov/SGMD/default.htm...