Nguyet “Nugget” Kong, Laboratory Manager

 

 

Education:

B.S., BioScience NPB, University of California, Davis. 2005

 

Projects:

Host-microbe interactions       IBM/Mars Food Safety Consortium 

Sequencing Complex microbiomes      100K Pathogen Genome Project

 

Work Experience: 

Weimer Micro Lab, UCDavis VM: PHR,  March 2010 to current

Dr Carol Cardona’s Lab, UCDavis VM: PHR, March 2003 to February 2010
 
 

Manuscripts:

  1. Kong, Nguyet, Narine Arabyan, Kao Thao, Whitney Ng, Bihua C. Huang, Dylan Bobby Storey, Poyin Chen, Allison M. Weis, Soraya Foutouhi, Azarene Foutouhi, Yi Xie, and Bart C. Weimer. 2017. Draft genome sequences of 1183 Salmonella from the 100K Pathogen Genome Project. Genome Announcements 5:e00518-17. (PMID: 28705963)
  2. Rheault, Jean-Guillaume Emond, Julie Jeukens, Luca Freschi, Irena Kukavica-Ibrulj, Brian Boyle, Marie-Josée Dupont, Anna Colavecchio, Virginie Barrere, Brigitte Cadieux, Maud Kerhoas, Alanna Crouse, Lei Zhu, Line Larivière, Ana Victoria Pilar, Camille Cavestri, Travis K. Chapin, Denise Tremblay, Caroline Vincent, Eric Fournier, Khadija Youfsi, Ida Ngueng-Feze, Lingqiao Song, Valentine Usongo, Florence Doualla-Bell, Chrystal Berry, Aleisha R. Reimer, Nguyet Kong, Carol B. Huang, Karen Fong, Emily D. Wilson, Kakali Mukhopadhyay, Walid Mottawea, Dele Ogunremi, Hongsheng Huang, Gitanjali Arya, Ann Perets, Catherine Yoshida, James Robertson, Joel Weadge, Michelle D. Danyluk, John Rohde, Rafael Garduno, Siyun Wang, Céline Nadon, Paul Thomassin,Yann Joly, Ismail Fliss, Gisèle Lapointe, Linda Harris, Roger Stephan, Elton Burnett, Sylvain Moineau, Sandeep Tamber, Sadjia Bekal, France Daigle, Samantha Gruenheid, Danielle Malo, Thomas Wittum, Pascal Delaquis, Alexander Gill, Kenneth E. Sanderson, Martin Wiedmann, Eelco Franz, Lucas Wijnands, Bart C. Weimer, Lawrence Goodridge, and Roger C. Levesque. 2017. A Syst-OMICS Approach to Ensuring Food Safety and Reducing the Economic Burden of Salmonellosis. Frontiers in Microbiology 8:996. (PMID: 28626454) Special issue on food safety
  3.  Weis, Allison M., Brent Gilpin, Bihua C. Huang, Nguyet Kong, Poyin Chen, and Bart C. Weimer. 2017. Shigella draft genomes: resources for food safety and public health. Genome Announcements 5:e00176-17. (PMID: 28428292)
  4. Weis, Allison M., Kristen A. Clothier, Bihua C. Huang, Nguyet Kong, and Bart C. Weimer. 2017. Multidrug-resistant abortive Campylobacter jejuni draft genome from Northern California. Genome Announcements 5:e00171-17. (PMID: 28408683)
  5. Draper, Jenny L., Lori M. Hansen, David Bernick, Samar Abedrabbo, Jason G. Underword, Nguyet Kong, Carol B. Huang, Allison M. Weis, Bart C. Weimer, Arnoud Van Vliet, Nader Pourmand, Jay V. Solnick, Kevin Karplus, Karen M. Ottemann. 2017. Fallacy of the unique genome: Sequence diversity within single Helicobacter pylori strains. mBio 8:e02321-16. (PMID: 28223462)
  6. Chen, Poyin, Nguyet Kong, Bihua Huang, Kao Thao, Whitney Ng, Dylan Bobby Storey, Narine Arabyan, Azarene Foutouhi, Soraya Foutouhi, and Bart C. Weimer. 100K Pathogen Genome Project: 306 Listeria draft genomes for food safety and public health. 2017. Genome Announcements 5:e00967-16. (PMID: 28183778).
  7. Kong, Nguyet, Azarene Foutouhi, B. Carol Huang, Narine Arabyan, Kao Thao, Whitney Ng, Dylan Storey, Lucy Cai, Eric Lee, Richard Jeannotte, Lenore Kelly, Bart C. Weimer. 2017. A Next Generation Sequencing Library Workflow for Foodborne Pathogens with Quality Control Parameters for Quantification and Shearing conditions using the Agilent 2200 TapeStation System. Standards in Genomics (in press)
  8. Foutouhi, Soraya H., Nuradilla Mohamad-Fauzi, Dylan Storey, Azarene A. Foutouhi, Nguyet Kong, Amir Kol, Dori Borjesson, Prerak Desai, Jigna Shah, James D. Murray and Bart C. Weimer. 2017. Salmonella enterica ssp enterica serotype Typhimurium Enhances Osteogenic Differentiation in Adipose-Derived Mesenchymal Stem Cells. Stem Cells (in press)
  9. Kong, Nguyet, Whitney Ng, Kao Thao, Regina Agulto, Allison Weis, Kristi Spittle, and Bart C. Weimer. 2017. Automation of PacBio SMRTbell NGS library preparation for bacterial genome sequencing. Standards in Genomics. 12:27-37 (PMID: 28344744). (highly accessed notation by journal)
  10. Weis, Allison M., Bihua C. Huang, Dylan B. Storey, Nguyet Kong, Poyin Chen, Narine Arabyan, Brent Gilpin, Carl Mason, Andrea K. Townsend, Woutrina A. Miller, Barbara A. Byrne, Conor C. Taff, and Bart C. Weimer. 2017. Large-scale release of Campylobacter draft genomes; resources for food safety and public health from the 100K Pathogen Genome Project. Genome Announcements 5(1):e00925-16. (PMID: 28057746).
  11. Weis, Allison M., Kristin A. Clothier, Bihua C. Huang, Nguyet Kong, Jessica Wasserscheid, Ken Dewar, Bart C. Weimer. 2017. Comparative Genomics of Abortive Campylobacter jejuni Isolates from Multiple Hosts. (submitted) AEM
  12. Doherty, Matthew K., Prerak T. Desai, Leslie Woods, Mai Lee Yang, Janneth Pinzon, Nguyet Kong, and Bart C. Weimer. 2017. Vancomycin and aptamer treatment in vivo are synergistic to inhibit Staphylococcus aureus. (in revision) virulence
  13. Chen, Poyin, Taylor Reiter, Bihua Huang, Nguyet Kong, and Bart C. Weimer. 2017. Prebiotic oligosaccharides potentiate host protective responses against Listeria monocytogenes infection. (Submitted) (invited contribution in Special issue on Listeria monocytogenes and host interactions)
  14.  Kong, Nguyet, Whitney Ng, Vivian Lee, Poyin Chen, Lenore Kelly, and Bart C. Weimer. 2017. Comparing Various DNA Extraction Methods to Obtain High Molecular Weight Genomic DNA in Listeria monocytogenes for Next Generation Sequencing Pipelines. (submitted). Biotechniques – 1/31/17
  15. Kong, Nguyet, Whitney Ng, Lucy Cai, Alvin Leonardo, Patrick Ancheta, B. Carol Huang, Kao Thao, Azarene Foutouhi, Lenore Kelly and Bart C. Weimer. 2017. KAPA Biosystems HTP Library Preparation Kit Using Agilent Electrophoresis Instruments for Quality Control of Library Construction Pipeline. (submitted). Biotechniques – 1/31/17
  16. Weis, Allison M., Kristin A. Clothier, Bihua C. Huang, Nguyet T. Kong, and Bart C. Weimer. 2016. Campylobacter jejuni that cause abortion in livestock. Genome Announcements 4(6):e01324-16. (PMID: 27908990).
  17. Weis, Allison M., Dylan B. Storey, Conor C. Taff, Andrea K. Townsend, Bihua C. Huang, Nguyet T. Kong, Kristin A. Clothier, Abigail Spinner, Barbara A. Byrne, Bart C. Weimer. 2016. Genomic comparison of Campylobacter spp. and their potential for zoonotic transmission between birds, primates, and livestock. App. Environ. Microbiol. 82: 7165-7175. (PMID: 27736787)
  18. Arabyan, N., D. Park, C. Williams, R. Jeannotte, P. Desai, J. Shah, N. Kong, M. L. Yang, C. Lebrilla, and Bart C. Weimer. 2016. Glycan degradation during Salmonella enterica spp. enterica sv Typhimurium infection. Sci. Rep. 6:29525 (doi: 10.1038/srep29525). (PMID:27389966)
  19. Miller, Bronwen, Beverley van Rooyen, Heather Whitehorn, Piet Jones, Martin Ranik, Eric van der Walt, Maryke Appel, Nguyet Kong, Carol Huang, Dylan Storey, Bart C. Weimer. 2015, A novel, single-tube enzymatic fragmentation and library construction method enables fast turnaround times and improved data quality for microbial whole-genome sequencing. Kapa Biosystems Application Note (072314 KK1234; DOI: 10.13140/RG.2.1.4534.3440)
  20. Kong, Nguyet, Whitney Ng, and Bart C. Weimer. 2015. Quality Control of Library Construction Pipeline for PacBio SMRTbell 10kb Library Using Agilent 2200 TapeStation. Agilent Technologies application note (5991-6521EN; DOI: 10.13140/RG.2.1.4339.4644)
  21. Lüdeke, Catharina H.M., Nguyet Kong, Bart C. Weimer, Markus Fischer, Jessica L.Jones. 2015. Complete genome sequences of a clinical and an environmental Vibrio parahaemolyticus isolate. Genome Announcements. 3(2):e00216-15. (PMID: 25814612)
  22. Kong, Nguyet, Whitney Ng, Lucy Cai, Alvin Leonardo, and Bart C. Weimer. 2014. Integrating the DNA Integrity Number (DIN) to Assess Genomic DNA (gDNA) Quality Control Using the Agilent 2200 TapeStation System. Agilent Technologies application note (5991-5442EN; DOI: 10.13140/RG.2.1.3616.8409)
  23. Kong, Nguyet, Whitney Ng, Azarene Foutouhi, B. Carol Huang, and Bart C. Weimer. 2014. Quality Control of High-Throughput Library Construction Pipeline for KAPA HTP Library Using an Agilent2200 TapeStation. Agilent Technologies application note (5991-5141EN; DOI: 10.13140/RG.2.1.4927.5604)
  24. Jeannotte, Richard, Eric Lee, Narine Arabyan, Nguyet Kong, Kao Thao, Carol Huang and Bart C. Weimer. 2014. Optimization of Covaris settings for shearing bacterial genomic DNA by focused ultrasonication and analysis using Agilent 2200 TapeStation. Agilent Technologies application note. (5991-5075EN; DOI: 10.13140/RG.2.1.4424.1444).
  25. Jeannotte, Richard, Eric Lee, Nguyet Dao Kong, Whitney Ng, and B. C. Weimer. 2014. High-Throughput Analysis of Foodborne Bacterial Genomic DNA Using Agilent 2200 TapeStation and Genomic DNA ScreenTape System. Agilent Technologies application note. (5991-4003EN; DOI: 10.13140/RG.2.1.3354.6961)
  26. Kong, Nguyet, Kao Thao, Whitney Ng, Kristi Spittle Kim, Jonas Korlach, Luke Hickey, Lenore Kelly, Stephen Lappin, and Bart C. Weimer. 2014. Automation of PacBio SMRTbell 10 kb Template Preparation on an Agilent NGS Workstation. Agilent Technologies application note. (5991-4482EN; DOI: 10.13140/RG.2.1.4403.2725).
  27. Kong, Nguyet, Kao Thao, Carol Huang, Maryke Appel, Stephen Lappin, Lisa Knapp, Lenore Kelly, and B. C. Weimer. 2014. Automated Library Construction Using KAPA Library Preparation Kits on the Agilent NGS Workstation Yields High-Quality Libraries for Whole-Genome Sequencing on the Illumina Platform. Agilent Technologies application note (5991-4296EN; DOI: 10.13140/RG.2.1.2306.1203).
  28. Kol, A., S. Foutouhi, N.J. Walker, N.T. Kong, B.C. Weimer*, and D.L. Borjesson*. 2014. Gastrointestinal microbes interact with canine adipose-derived mesenchymal stem cells in vitro and enhance immunomodulatory functions. Stem Cells and Development 23:1831-43 (PMID: 24803072). *co-corresponding authors
  29. Kong, N., W. Ng, V. Lee, L. Kelly, and B. C. Weimer. 2013. Production and Analysis of High Molecular Weight Genomic DNA for NGS Pipelines Using Agilent DNA Extraction Kit. Agilent Technologies application note (5991-3722EN; DOI: 10.13140/RG.2.1.2961.4807).