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Lab Manual for SFGH

Internal Resources

Eric L. Delwart, Ph.D.

Research and Clinical Interests

Genomic evolution of blood borne viruses (HIV, HCV, HBV, and WNV). Viral discovery from human and animal samples using next generation sequencing. Bioinformatics detection of highly divergent viral sequences. Association studies of new viruses with diseases.

Selected Publications

  • Li L, Deng X, Mee ET, Collot-Teixeira S, Anderson R, Schepelmann S, Minor PD, Delwart E. Comparing viral metagenomics methods using a highly multiplexed human viral pathogens reagent. J Virol Methods. 2014 Dec 11;213C:139-146. doi: 10.1016/j.jviromet.2014.12.002. PubMed PMID: 25497414.
  • Deng X, Naccache SN, Ng T, Federman S, Li L, Chiu CY, Delwart EL. An ensemble strategy that significantly improves de novo assembly of microbial genomes from metagenomic next-generation sequencing data. Nucleic Acids Res. 2015 Jan 13. pii: gkv002. PubMed PMID: 25586223.
  • Ng TF, Chen LF, Zhou Y, Shapiro B, Stiller M, Heintzman PD, Varsani A, Kondov NO, Wong W, Deng X, Andrews TD, Moorman BJ, Meulendyk T, MacKay G, Gilbertson RL, Delwart E. Preservation of viral genomes in 700-y-old caribou feces from a subarctic ice patch. Proc Natl Acad Sci U S A. 2014 Nov 25;111(47):16842-7. doi: 10.1073/pnas.1410429111. Epub 2014 Oct 27. PubMed PMID: 25349412; PubMed Central PMCID: PMC4250163.
  • Phan TG, Sdiri-Loulizi K, Aouni M, Ambert-Balay K, Pothier P, Deng X, Delwart E. New parvovirus in child with unexplained diarrhea, Tunisia. Emerg Infect Dis. 2014 Nov;20(11):1911-3. doi: 10.3201/eid2011.140428. PubMed PMID: 25340816; PubMed Central PMCID: PMC4214302.
  • Zhang W, Li L, Deng X, Kapusinszky B, Delwart E. What is for dinner? Viral metagenomics of US store bought beef, pork, and chicken. Virology. 2014 Nov;468-470:303-10. doi: 10.1016/j.virol.2014.08.025. Epub 2014 Sep 16. PubMed PMID: 25217712; PubMed Central PMCID: PMC4252299.
  • Coffey LL, Page BL, Greninger AL, Herring BL, Russell RC, Doggett SL, Haniotis J, Wang C, Deng X, Delwart EL. Enhanced arbovirus surveillance with deep sequencing: Identification of novel rhabdoviruses and bunyaviruses in Australian mosquitoes. Virology. 2014 Jan 5;448:146-58. doi: 10.1016/j.virol.2013.09.026. Epub 2013 Oct 25. PubMed PMID: 24314645; PubMed Central PMCID: PMC3870893.
  • Naccache SN, Hackett J Jr, Delwart EL, Chiu CY. Concerns over the origin of NIH-CQV, a novel virus discovered in Chinese patients with seronegative hepatitis. Proc Natl Acad Sci U S A. 2014 Mar 18;111(11):E976. doi: 10.1073/pnas.1317064111. Epub 2014 Feb 26. PubMed PMID: 24572576; PubMed Central PMCID: PMC3964066.
  • Li L, Deng X, Linsuwanon P, Bangsberg D, Bwana MB, Hunt P, Martin JN, Deeks SG, Delwart E. AIDS alters the commensal plasma virome. J Virol. 2013 Oct;87(19):10912-5. doi: 10.1128/JVI.01839-13. Epub 2013 Jul 31. PubMed PMID: 23903845; PubMed Central PMCID: PMC3807392.
  • Li L, McGraw S, Zhu K, Leutenegger CM, Marks SL, Kubiski S, Gaffney P, Dela Cruz FN Jr, Wang C, Delwart E, Pesavento PA. Circovirus in tissues of dogs with vasculitis and hemorrhage. Emerg Infect Dis. 2013 Apr;19(4):534-41. doi: 10.3201/eid1904.121390. PubMed PMID: 23628223; PubMed Central PMCID: PMC3647419.
  • Delwart E. A roadmap to the human virome. PLoS Pathog. 2013 Feb;9(2):e1003146. doi: 10.1371/journal.ppat.1003146. Epub 2013 Feb 14. PubMed PMID: 23457428; PubMed Central PMCID: PMC3573120.
  • Dela Cruz FN Jr, Giannitti F, Li L, Woods LW, Del Valle L, Delwart E, Pesavento PA. Novel polyomavirus associated with brain tumors in free-ranging raccoons, western United States. Emerg Infect Dis. 2013 Jan;19(1):77-84. doi: 10.3201/eid1901.121078. PubMed PMID: 23260029; PubMed Central PMCID: PMC3558004.
  • Grard G, Fair JN, Lee D, Slikas E, Steffen I, Muyembe JJ, Sittler T, Veeraraghavan N, Ruby JG, Wang C, Makuwa M, Mulembakani P, Tesh RB, Mazet J, Rimoin AW, Taylor T, Schneider BS, Simmons G, Delwart E, Wolfe ND, Chiu CY, Leroy EM. A novel rhabdovirus associated with acute hemorrhagic fever in central Africa. PLoS Pathog. 2012 Sep;8(9):e1002924. doi: 10.1371/journal.ppat.1002924. Epub 2012 Sep 27. PubMed PMID: 23028323; PubMed Central PMCID: PMC3460624.
  • Ng TF, Marine R, Wang C, Simmonds P, Kapusinszky B, Bodhidatta L, Oderinde BS, Wommack KE, Delwart E. High variety of known and new RNA and DNA viruses of diverse origins in untreated sewage. J Virol. 2012 Nov;86(22):12161-75. doi: 10.1128/JVI.00869-12. Epub 2012 Aug 29. PubMed PMID: 22933275; PubMed Central PMCID: PMC3486453.
  • Pybus OG, Suchard MA, Lemey P, Bernardin FJ, Rambaut A, Crawford FW, Gray RR, Arinaminpathy N, Stramer SL, Busch MP, Delwart EL. Unifying the spatial epidemiology and molecular evolution of emerging epidemics. Proc Natl Acad Sci U S A. 2012 Sep 11;109(37):15066-71. doi: 10.1073/pnas.1206598109. Epub 2012 Aug 27. PubMed PMID: 22927414; PubMed Central PMCID: PMC3443149.
  • Kapusinszky B, Minor P, Delwart E. Nearly constant shedding of diverse enteric viruses by two healthy infants. J Clin Microbiol. 2012 Nov;50(11):3427-34. doi: 10.1128/JCM.01589-12. Epub 2012 Aug 8. PubMed PMID: 22875894; PubMed Central PMCID: PMC3486243.
  • Phan TG, Vo NP, Bonkoungou IJ, Kapoor A, Barro N, O'Ryan M, Kapusinszky B, Wang C, Delwart E. Acute diarrhea in West African children: diverse enteric viruses and a novel parvovirus genus. J Virol. 2012 Oct;86(20):11024-30. Epub 2012 Aug 1. PubMed PMID: 22855485; PubMed Central PMCID: PMC3457132.
  • Delwart E. Animal virus discovery: improving animal health, understanding zoonoses, and opportunities for vaccine development. Curr Opin Virol. 2012 Jun;2(3):344-52. doi: 10.1016/j.coviro.2012.02.012. Epub 2012 Mar 15. Review. PubMed PMID: 22463981; PubMed Central PMCID: PMC3378828.
  • Delwart E, Li L. Rapidly expanding genetic diversity and host range of the Circoviridae viral family and other Rep encoding small circular ssDNA genomes. Virus Res. 2012 Mar;164(1-2):114-21. doi: 10.1016/j.virusres.2011.11.021. Epub 2011 Dec 6. Review. PubMed PMID: 22155583; PubMed Central PMCID: PMC3289258.
  • Li L, Delwart E. From orphan virus to pathogen: the path to the clinical lab. Curr Opin Virol. 2011 Oct;1(4):282-8. doi: 10.1016/j.coviro.2011.07.006. Review. PubMed PMID: 22003378; PubMed Central PMCID: PMC3190133.
  • Phan TG, Kapusinszky B, Wang C, Rose RK, Lipton HL, Delwart EL. The fecal viral flora of wild rodents. PLoS Pathog. 2011 Sep;7(9):e1002218. doi: 10.1371/journal.ppat.1002218. Epub 2011 Sep 1. PubMed PMID: 21909269; PubMed Central PMCID: PMC3164639.
  • Shan T, Li L, Simmonds P, Wang C, Moeser A, Delwart E. The fecal virome of pigs on a high-density farm. J Virol. 2011 Nov;85(22):11697-708. doi: 10.1128/JVI.05217-11. Epub 2011 Sep 7. PubMed PMID: 21900163; PubMed Central PMCID: PMC3209269.
  • Kapoor A, Simmonds P, Lipkin WI, Zaidi S, Delwart E. Use of nucleotide composition analysis to infer hosts for three novel picorna-like viruses. J Virol. 2010 Oct;84(19):10322-8. doi: 10.1128/JVI.00601-10. Epub 2010 Jul 28. PubMed PMID: 20668077; PubMed Central PMCID: PMC2937767.
  • Hatano H, Delwart EL, Norris PJ, Lee TH, Neilands TB, Kelley CF, Hunt PW, Hoh R, Linnen JM, Martin JN, Busch MP, Deeks SG. Evidence of persistent low-level viremia in long-term HAART-suppressed, HIV-infected individuals. AIDS. 2010 Oct 23;24(16):2535-9. doi: 10.1097/QAD.0b013e32833dba03. PubMed PMID: 20651585; PubMed Central PMCID: PMC2954261.
  • Li L, Victoria JG, Wang C, Jones M, Fellers GM, Kunz TH, Delwart E. Bat guano virome: predominance of dietary viruses from insects and plants plus novel mammalian viruses. J Virol. 2010 Jul;84(14):6955-65. doi: 10.1128/JVI.00501-10. Epub 2010 May 12. PubMed PMID: 20463061; PubMed Central PMCID: PMC2898246.
  • Kapoor A, Simmonds P, Slikas E, Li L, Bodhidatta L, Sethabutr O, Triki H, Bahri O, Oderinde BS, Baba MM, Bukbuk DN, Besser J, Bartkus J, Delwart E. Human bocaviruses are highly diverse, dispersed, recombination prone, and prevalent in enteric infections. J Infect Dis. 2010 Jun 1;201(11):1633-43. doi: 10.1086/652416. PubMed PMID: 20415538; PubMed Central PMCID: PMC2902747.
  • Victoria JG, Wang C, Jones MS, Jaing C, McLoughlin K, Gardner S, Delwart EL. Viral nucleic acids in live-attenuated vaccines: detection of minority variants and an adventitious virus. J Virol. 2010 Jun;84(12):6033-40. doi: 10.1128/JVI.02690-09. Epub 2010 Apr 7. PubMed PMID: 20375174; PubMed Central PMCID: PMC2876658.
  • Li L, Kapoor A, Slikas B, Bamidele OS, Wang C, Shaukat S, Masroor MA, Wilson ML, Ndjango JB, Peeters M, Gross-Camp ND, Muller MN, Hahn BH, Wolfe ND, Triki H, Bartkus J, Zaidi SZ, Delwart E. Multiple diverse circoviruses infect farm animals and are commonly found in human and chimpanzee feces. J Virol. 2010 Feb;84(4):1674-82. doi: 10.1128/JVI.02109-09. Epub 2009 Dec 9. PubMed PMID: 20007276; PubMed Central PMCID: PMC2812408.
Eric L. Delwart, Ph.D.
  • Professor Adjunct
  • Laboratory Medicine
  • Blood Systems Research Institute

Specialty Areas

  • Viral discovery and evolution

Contact Information

  • Blood Systems Research Institute
  • 270 Masonic Ave
  • San Francisco CA 94118

Web Site

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