Dr. Scot E Dowd

Posted by admin on November 23, 2011 in Uncategorized |

Biographical Sketch

Scot E. Dowd Ph.D.

PO BOX 1332

Shallowater, TX 79363

806-789-7984 cell




MR DNA LABORATORY next generation pyrosequencing, metagenome sequencing, transcriptomes, ion torrent, illumina, “selexa”, 454, Roche, FLX, titanium FLX+, diversity, 16s rrna, prices service, low cost, bioinformatics and consulting. Home of bTEFAP(R) technique.

Specializing in Next gen sequencing and bioinformatics: genome sequencing, bioinformatics, microbial diversity, microbial ecology, pyrosequencing, ion torrent PGM, Proton sequencing, transcriptomics, metagenomics.

Academic History:

Ph.D.  University of Arizona, Microbiology and Immunology                       2000

M.Sc. University of Texas El Paso, Biology                                                       1996

B.Sc. University of Texas El Paso, Microbiology                                              1994


Work Experience

  • Research Associate, Texas A&M Research Extension System, El Paso, TX, January 1993 – January 1997.
  • Graduate USEPA STAR Research Fellow, University of Arizona/USEPA Fellow, Tucson, AZ, January 1997 – May 2000.
  • Director of Research: Human Cytogenetics Laboratory, BioSeparations, Inc. Tucson, AZ, May 2000 – November 2000.
  • Post-doctoral  USDA-ARS Meat Animal Research Center                     2001
  • Microbiologist/Lead Scientist, USDA-ARS-LIRU, Lubbock, TX, November 2001 – 2008.
  • Adjunct Professor Department of Microbiology and Immunology Texas Tech Health Science Center-2007-present.
  • Adjunct Professor Department of Biology, Texas Tech University, 2007-present.
  • Adjunct Professor, Department of Animal and Food Science, Texas Tech University-2001-present.
  • General Partner, Spirostat Technologies, Lubbock, TX July 2009-present
  • Owner of General Partner and CEO, MR DNA Molecular Research LP, Shallowater TX Oct2012-present



  1. Editorial board of the Encyclopedia of Environmental Microbiology
  2. Editorial board Journal of Bacteriology & Parasitology
  3. Editorial board Would Journal of Diabetes
  4. Editorial board Advances in Wound Care
  5. Review Panel USDA-NRI 2009
  6. Review Panel DOD 2009
  7. Editorial reviewer for over 20 journals


Prior Funding Support:

  • Private and Collaborative funding:  Est $12.5 M between 2008-2013
  • Outstanding and Superior Research Awards each year USDA-ARS between 2002-2008
  • Post Doctoral Research Fellowship USDA-Agricultural Research Service 2001
  • Award Outstanding Graduate Research: American Society for Microbiology. 2000
  • Grant graduate travel: American Society for Microbiology 2000.
  • Grant Pima County: Microbial Diversity of Mine-Tailings 1999-2000.
  • Grant USEPA STAR Fellowship: Survey of drinking water for the presence of human pathogenic microsporidia. 1998-2000.
  • Grant NSF RTG (Research Training Grant): Molecular diversity of human pathogenic microsporidia: 1999.
  • USEPA Environmental Protection Agency STAR Fellowship Stipend: 1998-2000
  • Fellowship RTG Research Biological Diversity NSF 1999
  • Grant RTG Research Training Biological Diversity NSF 1998
  • Scholarship Air and Waste Management Outstanding Graduate Research Award 1999
  • Travel Grant Award Methods in Computer Sequence Analysis Workshop: Pittsburgh Supercomputing Group 1998
  • Scholarship Full Academic Merit University of Arizona: 1998-1999
  • Award Outstanding Graduate Research: American Society for Microbiology. 1998
  • Scholarship Outstanding Graduate Research Award Air and Waste Management: 1997
  • Scholarship Full Academic Merit University of Arizona: 1997-1998.
  • Scholarship Tuition University of Arizona: 1997.
  • Award Travel Graduate Department: U.T.E.P. 1996.
  • Award Travel Biology Department Travel: U.T.E.P. 1996.
  • Award First Place Graduate Presentation American Society for Microbiology-Rio Grande: 1995.




2013 manuscripts


  1. Vornhagen J, Stevens M, McCormick DW, Dowd SE, Eisenberg JN, Boles BR, Rickard AH. Coaggregation occurs amongst bacteria within and between biofilms in domestic showerheads. Biofouling. 2013 Jan;29(1):53-68
  2. Handl S, German A, Holden S, Dowd S, Steiner J, Heilmann R, Grant R, Swanson K, Suchodolski J Fecal microbiota in lean and obese dogs. FEMS Microbiol Ecol. 2013 Jan 10
  3. Tran L, Ferris M, Norori J, Stark M, Craver R, Dowd S, Penn D Necrotizing enterocolitis and cytomegalovirus infection in a premature infant. Pediatrics. 2013 Jan;131(1):e318-22.
  4. Beloshapka AN, Dowd SE, Suchodolski JS, Steiner JM, Duclos L, Swanson KS. Fecal microbial communities of healthy adult dogs fed raw meat-based diets with or without inulin or yeast cell wall extracts as assessed by 454 Pyrosequencing. FEMS Microbiol Ecol. 2013 Jan 29.
  5. Chiodini RJ, Dowd SE, Davis B, Galandiuk S, Chamberlin WM, Kuenstner JT, McCallum RW, Zhang J. Crohn’s Disease May Be Differentiated Into 2 Distinct Biotypes Based on the Detection of Bacterial Genomic Sequences and Virulence Genes Within Submucosal Tissues. J Clin Gastroenterol. 2013 Feb 18.
  6. Song KD, Dowd SE, Lee HK, Kim SW. Long-term dietary supplementation of organic selenium modulates gene expression profiles in leukocytes of adult pigs. Anim Sci J. 2013 Mar;84(3):238-46.
  7. Ahn JE, Zhou X, Dowd SE, Chapkin RS, Zhu-Salzman K. Insight into Hypoxia Tolerance in Cowpea Bruchid: Metabolic Repression and Heat Shock Protein Regulation via Hypoxia-Inducible Factor 1. PLoS One. 2013 Apr 12;8(4):e57267
  8. Huebinger RM, Liu MM, Dowd SE, Rivera-Chavez FA, Boynton J, Carey C, Hawkins K, Minshall CT, Wolf SE, Minei JP, Barber RC. Examination with Next-Generation Sequencing Technology of the Bacterial Microbiota in Bronchoalveolar Lavage Samples after Traumatic Injury. Surg Infect (Larchmt). 2013 May 6.
  9. Seabury CM, Dowd SE, Seabury PM, Raudsepp T, Brightsmith DJ, Liboriussen P, Halley Y, Fisher CA, Owens E, Viswanathan G, Tizard IR. A Multi-Platform Draft de novo Genome Assembly and Comparative Analysis for the Scarlet Macaw (Ara macao). PLoS One. 2013 May 8;8(5):e62415.
  10. M. Lauren Foster, Scot E. Dowd, Christine Stephenson, Jörg M. Steiner, and Jan S. Suchodolski. Characterization of the Fungal Microbiome (Mycobiome) in Fecal Samples from Dogs. Veterinary Medicine International  Volume 2013 (2013),
  11. Heekin AM, Guerrero FD, Bendele KG, Saldivar L, Scoles GA, Dowd SE, Gondro C, Nene V, Djikeng A, Brayton KA. Gut transcriptome of replete adult female cattle ticks, Rhipicephalus (Boophilus) microplus, feeding upon a Babesia bovis-infected bovine host. Parasitol Res. 2013 Sep;112(9):3075-90.
  12. Bordin AI, Suchodolski JS, Markel ME, Weaver KB, Steiner JM, Dowd SE, Pillai S, Cohen ND Effects of administration of live or inactivated virulent Rhodococccus equi and age on the fecal microbiome of neonatal foals. PLoS One. 2013 Jun 13;8(6):e66640
  13. Romanova EV, Dowd SE, Sweedler JV. Quantitation of endogenous peptides using mass spectrometry based methods. Curr Opin Chem Biol. 2013 Jun 18.
  14. Nance WC, Dowd SE, Samarian D, Chludzinski J, Delli J, Battista J, Rickard AH. A high-throughput microfluidic dental plaque biofilm system to visualize and quantify the effect of antimicrobials. J Antimicrob Chemother. 2013 Jun 25.
  15. Pontiroli A, Khera TT, Oakley BB, Mason S, Dowd SE, Travis ER, Erenso G, Aseffa A, Courtenay O, Wellington EM. Prospecting environmental mycobacteria: combined molecular approaches reveal unprecedented diversity. PLoS One. 2013 Jul 18;8(7):e68648.
  16. Xie G, Duff GC, Hall LW, Allen JD, Burrows CD, Bernal-Rigoli JC, Dowd SE, Guerriero V, Yeoman CJ. Alteration of Digestive Tract Microbiome in Neo-natal Holstein Bull Calves by Bacitracin Methylene Diasalicylate Treatment and Scours. J Anim Sci. 2013 Aug 13.
  17. Mir SA, Nagy-Szakal D, Dowd SE, Szigeti RG, Smith CW, Kellermayer R. Prenatal methyl-donor supplementation augments colitis in young adult mice. PLoS One. 2013 Aug 19;8(8):e73162
  18. Zheng L, Crippen TL, Holmes L, Singh B, Pimsler ML, Benbow ME, Tarone AM, Dowd S, Yu Z, Vanlaerhoven SL, Wood TK, Tomberlin JK. Bacteria Mediate Oviposition by the Black Soldier Fly, Hermetia illucens (L.), (Diptera: Stratiomyidae). Sci Rep. 2013 Sep 2;3:2563.
  19. Zheng L, Crippen TL, Singh B, Tarone AM, Dowd S, Yu Z, Wood TK, Tomberlin JK. A survey of bacterial diversity from successive life stages of black soldier fly (Diptera: Stratiomyidae) by using 16S rDNA pyrosequencing. J Med Entomol. 2013 May;50(3):647-58.
  20. Pechal JL, Crippen TL, Benbow ME, Tarone AM, Dowd S, Tomberlin JK. The potential use of bacterial community succession in forensics as described by high throughput metagenomic sequencing. Int J Legal Med. 2013 Jun 10.
  21. Reese BK, Mills HJ, Dowd SE, Morse JW. Linking Molecular Microbial Ecology to Geochemistry in a Coastal Hypoxic Zone. Geomicrobiol Journal  2013, Vol 30 issue 2.


2012 manuscripts

  1. Fisher CA, Bhattarai EK, Osterstock JB, Dowd SE, Seabury PM, Vikram M, Whitlock RH, Schukken YH, Schnabel RD, Taylor JF, Womack JE, Seabury CM. Evolution of the Bovine TLR Gene Family and Member Associations with Mycobacterium avium Subspecies paratuberculosis Infection. PLoS One. 2012;7(2). doi: 10.1371/annotation/a84f0490-55cd-4b42-8b2e-72661fabfc22. Epub 2012 Feb 3.
  2. Garcia-Mazcorro JF, Suchodolski JS, Jones KR, Clark-Price SC, Dowd SE, Minamoto Y, Markel M, Steiner JM, Dossin O, Marchesi J. Effect of the proton-pump inhibitor omeprazole on the gastrointestinal bacterial microbiota of healthy dogs. FEMS Microbiol Ecol. 2012 Feb 11. doi: 10.1111/j.1574-6941.2012.01331.x. [Epub ahead of print]
  3. Perkins GA, den Bakker HC, Burton AJ, Erb HN, McDonough SP, McDonough PL, Parker J, Rosenthal RL, Wiedmann M, Dowd SE, Simpson KW. The equine stomach harbors an abundant and diverse mucosal microbiota. Appl Environ Microbiol. 2012 Feb 3. [Epub ahead of print]
  4. Tun HM, Brar MS, Khin N, Jun L, Hui RK, Dowd SE, Leung FC. Gene-centric metagenomics analysis of feline intestinal microbiome using 454 junior pyrosequencing. J Microbiol Methods. 2012 Jan 12. [Epub ahead of print]
  5. McFrederick QS, Wcislo WT, Taylor DR, Ishak HD, Dowd SE, Mueller UG. Environment or kin: whence do bees obtain acidophilic bacteria? Mol Ecol. 2012 Feb 16. doi: 10.1111/j.1365-294X.2012.05496.x.
  6. Ishak HD, Miller JL, Sen R, Dowd SE, Meyer E, Mueller UG. Microbiomes of ant castes implicate new microbial roles in the fungus-growing ant Trachymyrmex septentrionalis. Sci Rep. 2011; 1:204. Epub 2011 Dec 22.
  7. Rice WC, Galyean ML, Cox SB, Dowd SE, Cole NA. Influence of wet distillers grains diets on beef cattle fecal bacterial community structure. BMC Microbiol. 2012 Feb 24;12:25
  8. Mills HJ, Reese BK, Shepard AK, Riedinger N, Dowd SE, Morono Y, Inagaki F. Characterization of Metabolically Active Bacterial Populations in Subseafloor Nankai Trough Sediments above, within, and below the Sulfate-Methane Transition Zone. Int J Mol Sci. 2012;13(3):2535-50. Epub 2012 Feb 23.
  9. Rhoads DD, Wolcott RD, Sun Y, Dowd SE. Comparison of culture and molecular identification of bacteria in chronic wounds. Int J Mol Sci. 2012;13(3):2535-50. Epub 2012 Feb 23.
  10. Phillips CD, Phelan G, Dowd SE, McDonough MM, Ferguson AW, Delton Hanson J, Siles L, Ordóñez-Garza N, San Francisco M, Baker RJ. Microbiome analysis among bats describes influences of host phylogeny, life history, physiology and geography. Mol Ecol. 2012 Apr 23. doi: 10.1111/j.1365-294X.2012.05568.x
  11. Davinic M, Fultz LM, Acosta-Martinez, V, Calderon FJ, CoxSB, Dowd SE, Allen VG, Zak JC, Moore-Kucera J. P. Pyrosequencing and mid-infrared spectroscopy reveal distinct aggregate stratification of soil bacterial communities and organic matter composition. 2012 Soil Biology Biochem 46: 63-72
  12. Hail D, Dowd SE, Bextine B. Identification and Location Of Symbionts associated with Potato Psyllid (Bactericera cockerelli) Lifestages. Environ Entomol. 2012 Feb;41(1):98-107.
  13. Sibley CD, Church DL, Surette MG, Dowd SE, Parkins MD. Pyrosequencing reveals the complex polymicrobial nature of invasive pyogenic infections: microbial constituents of empyema, liver abscess, and intracerebral abscess. Eur J Clin Microbiol Infect Dis. 2012 Apr 28
  14. Ajithdoss, DK, Dowd SE, Suchodolski JS. Genomics of Probiotic-Host Interactions. 2012 Direct-Fed Microbials and Prebiotics for Animals (eds.) TR Callaway SC Ricke, pgs 36-60. Isbn 978-1-4614-1310-3
  15. Oppert B, Dowd SE, Bouffard P, Li L, Conesa A, Lorenzen MD, Toutges M, Marshall J, Huestis DL, Fabrick J, Oppert C, Jurat-Fuentes JL. Transcriptome Profiling of the Intoxication Response of Tenebrio molitor Larvae to Bacillus thuringiensis Cry3Aa Protoxin. PLoS One. 2012;7(4):e34624. Epub 2012 Apr 25.
  16. Ward NL, Pieretti A, Dowd SE, Cox SB, Goldstein AM. Intestinal aganglionosis is associated with early and sustained disruption of the colonic microbiome. Neurogastroenterol Motil. 2012 May 24
  17. Gardner T, Acosta-Martinez V, Calderón FJ, Zobeck TM, Baddock M, Van Pelt RS, Senwo Z, Dowd S, Cox S. Pyrosequencing reveals bacteria carried in different wind-eroded sediments. J Environ Qual. 2012 May-Jun;41(3):744-53
  18. Hooda S, Boler BM, Serao MC, Brulc JM, Staeger MA, Boileau TW, Dowd SE, Fahey GC Jr, Swanson KS. 454 pyrosequencing reveals a shift in fecal microbiota of healthy adult men consuming polydextrose or soluble corn fiber. J Nutr. 2012 Jul;142(7):1259-65. Epub 2012 May 30
  19. Kellermayer R, Mir SA, Nagy-Szakal D, Cox SB, Dowd SE, Kaplan JL, Sun Y, Reddy S, Bronsky J, Winter HS. Microbiota Separation and C-reactive protein Elevation in Treatment Naïve Pediatric Granulomatous Crohn Disease. J Pediatr Gastroenterol Nutr. 2012 Jun 13
  20. Nagy-Szakal D, Ross MC, Dowd SE, Mir SA, Schaible TD, Petrosino JF, Kellermayer R. Maternal micronutrients can modify colonic mucosal microbiota maturation in murine offspring. Gut Microbes. 2012 Sep 1;3(5).
  21.  Suchodolski JS, Dowd SE, Wilke V, Steiner JM, Jergens AE. 16S rRNA Gene Pyrosequencing Reveals Bacterial Dysbiosis in the Duodenum of Dogs with Idiopathic Inflammatory Bowel Disease. PLoS One. 2012;7(6):e39333. Epub 2012 Jun 15.
  22. Hume ME, Hernandez CA, Barbosa NA, Sakomura NK, Dowd SE, Oviedo-Rondón EO. Molecular Identification and Characterization of Ileal and Cecal Fungus Communities in Broilers Given Probiotics, Specific Essential Oil Blends, and Under Mixed Eimeria Infection. Foodborne Pathog Dis. 2012 Jul 10.
  23. Edrington TS, Dowd SE, Farrow RF, Hagevoort GR, Callaway TR, Anderson RC, Nisbet DJ. Development of colonic microflora as assessed by pyrosequencing in dairy calves fed waste milk. J Dairy Sci. 2012 Aug;95(8):4519-25.
  24. Cytryn E, Levkovitch I, Negreanu Y, Dowd S, Frenk S, Silber A. Impact of short-term acidification on nitrification and nitrifying bacterial community dynamics in soilless cultivation media. Appl Environ Microbiol. 2012 Jul 6.
  25. Kaakoush NO, Day AS, Huinao KD, Leach ST, Lemberg DA, Dowd SE, Mitchell H. Distinct Soil Bacterial Communities Revealed under a Diversely Managed Agroecosystem. PLoS One. 2012;7(7):e40338. Epub 2012 Jul 23.
  26. Craven M, Egan CE, Dowd SE, McDonough SP, Dogan B, Denkers EY, Bowman D, Scherl EJ, Simpson KW. Inflammation drives dysbiosis and bacterial invasion in murine models of ileal Crohn’s disease. PLoS One. 2012;7(7):e41594. Epub 2012 Jul 25.
  27. Shange RS, Ankumah RO, Ibekwe AM, Zabawa R, Dowd SE. Distinct Soil Bacterial Communities Revealed under a Diversely Managed Agroecosystem. PLoS One. 2012;7(7):e40338. Epub 2012 Jul 23.
  28. Goddard AF, Staudinger BJ, Dowd SE, Joshi-Datar A, Wolcott RD, Aitken ML, Fligner CL, Singh PK. Direct sampling of cystic fibrosis lungs indicates that DNA-based analyses of upper-airway specimens can misrepresent lung microbiota. Proc Natl Acad Sci U S A. 2012 Aug 7
  29. Fernandez-Raudales D, Hoeflinger J, Bringe NA, Cox SB, Dowd SE, Miller MJ, Gonzalez de Mejia E Consumption of different soymilk formulations differentially affects the gut microbiomes of overweight and obese men. Gut Microbes. 2012 Nov 1;3(6). [Epub ahead of print]
  30. Hooda S, Vester Boler BM, Kerr KR, Dowd SE, Swanson KS The gut microbiome of kittens is affected by dietary protein:carbohydrate ratio and associated with blood metabolite and hormone concentrations. Br J Nutr. 2012 Aug 31:1-10
  31. Hristov AN, Callaway TR, Lee C, Dowd SE. Rumen bacterial, archaeal, and fungal diversity of dairy cows in response to lauric or myristic acids ingestion. J Anim Sci. 2012 Sep 5.
  32. Palavesam A, Guerrero FD, Heekin AM, Wang J, Dowd SE, Sun Y, Foil LD, Pérez de León AA. Pyrosequencing-Based Analysis of the Microbiome Associated with the Horn Fly, Haematobia irritans. PLoS One. 2012;7(9):e44390. doi: 10.1371/journal.pone.0044390. Epub 2012 Sep 24.
  33. Sangwan N, Lata P, Dwivedi V, Singh A, Niharika N, Kaur J, Anand S, Malhotra J, Jindal S, Nigam A, Lal D, Dua A, Saxena A, Garg N, Verma M, Kaur J, Mukherjee U, Gilbert JA, Dowd SE, Raman R, Khurana P, Khurana JP, Lal R. Comparative Metagenomic Analysis of Soil Microbial Communities across Three Hexachlorocyclohexane Contamination Levels. PLoS One. 2012;7(9):e46219. doi: 10.1371/journal.pone.0046219. Epub 2012 Sep 28.
  34. Barry KA, Middelbos IS, Vester Boler BM, Dowd SE, Suchodolski JS, Henrissat B, Coutinho PM, White BA, Fahey GC, Swanson KS. Effects of dietary fiber on the feline gastrointestinal metagenome. J Proteome Res. 2012 Oct 17.
  35. Szigeti R, Pangas SA, Nagy-Szakal D, Dowd SE, Shulman RJ, Olive AP, Popek EJ, Finegold MJ, Kellermayer R. SMAD4 Haploinsufficiency Associates with Augmented Colonic Inflammation in Select Humans and Mice. Ann Clin Lab Sci. 2012 Fall;42(4):401-8
  36. Garcia-Mazcorro JF, Dowd SE, Poulsen J, Steiner JM, Suchodolski JS. Abundance and short-term temporal variability of fecal microbiota in healthy dogs. Microbiology open. 2012 Sep;1(3):340-7.
  37. Gupta RW, Tran L, Norori J, Ferris MJ, Eren AM, Taylor CM, Dowd SE, Penn D. Histamine-2 Receptor Blockers Alter the Fecal Microbiota in Premature Infants. J Pediatr Gastroenterol Nutr. 2012 Dec 18
  38. Suchodolski JS, Markel ME, Garcia-Mazcorro JF, Unterer S, Heilmann RM, Dowd SE, Kachroo P, Ivanov I, Minamoto Y, Dillman EM, Steiner JM, Cook AK, Toresson LThe fecal microbiome in dogs with acute diarrhea and idiopathic inflammatory bowel disease. PLoS One. 2012;7(12):e51907.
  39. Steelman SM, Chowdhary BP, Dowd S, Suchodolski J, Janečka JE Pyrosequencing of 16S rRNA genes in fecal samples reveals high diversity of hindgut microflora in horses and potential links to chronic laminitis. BMC Vet Res. 2012 Nov 27;8:231
  40. Kellermayer R, Dowd SE, Harris RA, Balasa A, Schaible TD, Wolcott RD, Tatevian N, Szigeti R, Li Z, Versalovic J, Smith CW. Colonic mucosal DNA methylation, immune response, and microbiome patterns in Toll-like receptor 2-knockout mice. FASEB J. 2011 Jan 12.
  41. Sirsat SA, Burkholder KM, Muthaiyan A, Dowd SE, Bhunia AK, Ricke SC. J Effect of Sublethal Heat Stress on Salmonella Typhimurium Virulence. Appl Microbiol. 2011 Jan 7. doi: 10.1111/j.1365-2672.2011.04941.x.
  42. Andreotti R, Perez de Leon AA, Dowd SE, Guerrero FD, Bendele KG, Scoles GA.  Assessment of bacterial diversity in the cattle tick Rhipicephalus (Boophilus) microplus through tag-encoded pyrosequencing. BMC Microbiol. 2011 Jan 6;11(1):6.
  43. Ishak HD, Plowes R, Sen R, Kellner K, Meyer E, Estrada DA, Dowd SE, Mueller UG Bacterial Diversity in Solenopsis invicta and Solenopsis geminata Ant Colonies Characterized by 16S amplicon 454 Pyrosequencing.  Microb Ecol. 2011 Jan 18
  44. Handl S, Dowd SE, Garcia-Mazcorro JF, Steiner JM, Suchodolski JS. Massive parallel 16S rRNA gene pyrosequencing reveals highly diverse fecal bacterial and fungal communities in healthy dogs and cats. FEMS Microbiol Ecol. 2011 Jan 24
  45. Dowd SE, Delton Hanson J, Rees E, Wolcott RD, Zischau AM, Sun Y, White J, Smith DM, Kennedy J, Jones CE. Research Survey of fungi and yeast in polymicrobial infections in chronic wounds. J Wound Care. 2011 Jan;20(1):40-7.
  46. Seabury CM, Bhattarai EK, Taylor JF, Viswanathan GG, Cooper SM, Davis DS, Dowd SE, Lockwood ML, Seabury PM. Genome-Wide Polymorphism and Comparative Analyses in the White-Tailed Deer (Odocoileus virginianus): A Model for Conservation Genomics. PLoS One. 2011 Jan 19;6(1):e15811.
  47. Wolcott R, Dowd S. The role of biofilms: are we hitting the right target? Plast Reconstr Surg. 2011 Jan;127 Suppl 1:28S-35S.
  48. Schaible TD, Harris RA, Dowd SE, Smith CW, Kellermayer R. Maternal methyl-donor supplementation induces prolonged murine offsping colitis susceptibility in association with mucosal epigenetic and microbiomic changes. Hum Mol Genet. 2011 Feb 4.
  49. Oakley BB, Dowd SE, Purdy KJ. ThermoPhyl: a software tool for selecting phylogenetically optimized conventional and quantitative-PCR taxon-targeted assays for use with complex samples. S Microbiol Ecol. 2011 Mar 2. doi: 10.1111/j.1574-6941.2011.01079.x
  50. Sun Y, Wolcott RD, Dowd SE. Tag-Encoded FLX Amplicon Pyrosequencing for the Elucidation of Microbial and Functional Gene Diversity in Any Environment. Methods Mol Biol. 2011;733:129-141
  51. Calvo-Bado LA, Oakley BB, Dowd SE, Green LE, Medley GF, Ul-Hassan A, Bateman V, Gaze W, Witcomb L, Grogono-Thomas R, Kaler J, Russell CL, Wellington EM. Ovine pedomics: the first study of the ovine foot 16S rRNA-based microbiome. ISME J. 2011 Mar 24. [Epub ahead of print]
  52. Lucero ME, Unc A, Cooke P, Dowd S, Sun S. Endophyte Microbiome Diversity in Micropropagated Atriplex canescens and Atriplex torreyi var griffithsii. S One. 2011 Mar 17;6(3):e17693
  53. Ammons MC, Ward LS, Dowd S, James GA. Combined treatment of Pseudomonas aeruginosa biofilm with lactoferrin and xylitol inhibits the ability of bacteria to respond to damage resulting from lactoferrin iron chelation. Int J Antimicrob Agents. 2011 Apr;37(4):316-23
  54. Dowd SE, Wolcott RD, Kennedy J, Jones C, Cox SB.  Molecular diagnostics and personalised medicine in wound care: assessment of outcomes. J Wound Care. 2011 May;20(5):232-41.
  55. Kumar PS, Brooker MR, Dowd SE, Camerlengo T.  Target Region Selection Is a Critical Determinant of Community Fingerprints Generated by 16S Pyrosequencing. PLoS One. 2011;6(6):e20956. Epub 2011 Jun 29
  56. Capone KA, Dowd SE, Stamatas GN, Nikolovski J.  Diversity of the Human Skin Microbiome Early in Life. J Invest Dermatol. 2011 Jun 23. doi: 10.1038/jid.2011.168. [Epub ahead of print]
  57. Ghosh A, Dowd SE, Zurek L. Dogs Leaving the ICU Carry a Very Large Multi-Drug Resistant Enterococcal Population with Capacity for Biofilm Formation and Horizontal Gene Transfer. 2011  PLoS ONE 6(7): e22451. doi:10.1371/journal.pone.0022451
  58. Moolhuijzen PM, Lew-Tabor AE, Morgan JA, Rodriguez Valle M, Peterson DG, Dowd SE, Guerrero FD, Bellgard MI, Appels R. The complexity of Rhipicephalus (Boophilus) microplus genome characterised through detailed analysis of two BAC clones. BMC Res Notes. 2011 Jul 22;4(1):254.
  59. Hume ME, Barbosa NA, Dowd SE, Sakomura NK, Nalian AG, Kley AM, Oviedo-Rondón EO. Use of Pyrosequencing and Denaturing Gradient Gel Electrophoresis to Examine the Effects of Probiotics and Essential Oil Blends on Digestive Microflora in Broilers Under Mixed Eimeria Infection. Foodborne Pathog Dis. 2011 Jul 27.
  60. Huang H, Lu J, Ren Z, Hunter W, Dowd SE, Dang P. Mining and validating grape(Vitis L.) ESTs to develop EST-SSR markers for genotyping and mapping. Mol Breed. 2011 Aug;28(2):241-254. Epub 2010 Jul 15.
  61. Sibley CD, Grinwis ME, Field TR, Eshaghurshan CS, Faria Scot E. Dowd, Michael D. Parkins, Harvey R. Rabin, Michael G. Surette.  Culture Enriched Molecular Profiling of the Cystic Fibrosis Airway Microbiome. PLoS ONE. 2011. 6(7): e22702. doi:10.1371/journal.pone.0022702
  62. Cephas KD, Kim J, Mathai RA, Barry KA, Dowd SE, et al. Comparative Analysis of Salivary Bacterial Microbiome Diversity in Edentulous Infants and Their Mothers or Primary Care Givers Using Pyrosequencing. 2011. PLoS ONE 6(8): e23503.
  63. Tuttle MS, Mostow E, Mukherjee P, Hu FZ, Melton-Kreft R, Ehrlich GD, Dowd SE, Ghannoum MA. Characterization of bacterial communities in venous insufficiency wounds using conventional culture and molecular diagnostic methods. J Clin Microbiol. 2011 Aug 31.
  64. Shah V, Shah S, Kambhampati MS, Ambrose J, Smith N, Dowd SE, McDonnell KT, Panigrahi B, Green T.Bacterial and Archaea Community Present in the Pine Barrens Forest of Long Island, NY: Unusually High Percentage of Ammonia Oxidizing Bacteria. PLoS One. 2011;6(10):e26732. Epub 2011 Oct 25.
  65. Eren AM, Zozaya M, Taylor CM, Dowd SE, Martin DH, Ferris MJ. Exploring the Diversity of Gardnerella vaginalis in the Genitourinary Tract Microbiota of Monogamous Couples through Subtle Nucleotide Variation.  PLoS One. 2011;6(10):e26732. Epub 2011 Oct 25.
  66. Garcia-Mazcorro JF, Lanerie DJ, Dowd SE, Paddock CG, Grützner N, Steiner JM, Ivanek R, Suchodolski JS Effect of a multi-species synbiotic formulation on fecal bacterial microbiota of healthy cats and dogs as evaluated by pyrosequencing. FEMS Microbiol Ecol. 2011 Aug 20. doi: 10.1111/j.1574-6941.2011.01185.x
  67. Dalton T, Dowd SE, Wolcott RD, Sun Y, Watters C, Griswold JA, Rumbaugh KP. An in vivo polymicrobial biofilm wound infection model to study interspecies interactions. PLoS One. 2011;6(11):e27317. Epub 2011 Nov 4.
  68. Oakley BB, Carbonero F, Dowd SE, Hawkins RJ, Purdy KJ. Contrasting patterns of niche partitioning between two anaerobic terminal oxidizers of organic matter. ISME J. 2011 Nov 24. doi: 10.1038/ismej.2011.165.
  69. Fisher CA, Bhattarai EK, Osterstock JB, Dowd SE, Seabury PM, Vikram M, Whitlock RH, Schukken YH, Schnabel RD, Taylor JF, Womack JE, Seabury CM. Evolution of the Bovine TLR Gene Family and Member Associations with Mycobacterium avium Subspecies paratuberculosis Infection. PLoS One. 2011;6(11):e27744. Epub 2011 Nov 30
  70. Bellgard MI, Moolhuijzen PM, Guerrero FD, Schibeci D, Rodriguez-Valle M, Peterson DG, Dowd SE, Barrero R, Hunter A, Miller RJ, Lew-Tabor AE. CattleTickBase: An integrated Internet-based bioinformatics resource for Rhipicephalus (Boophilus) microplus. Int J Parasitol. 2011 Dec 1.
  71. Hail D, Lauzìere I, Dowd SE, Bextine B. Culture Independent Survey of the Microbiota of the Glassy-Winged Sharpshooter (Homalodisca vitripennis) Using 454 Pyrosequencing. Environ Entomol. 2011 Feb;40(1):23-9.
  72. Gardner T, Acosta-Martinez V, Senwo Z, Dowd SE. Soil Rhizosphere Microbial Communities and Enzyme Activities Under Organic Farmin in Alabama. Diversity 2011, 3(3), 308-328.
  73. Dowd SE and Wolcott RD. Molecular Diagnosis: An new era in wound care. 2010. Today’s Wound Clinic. 1: Feb pg 25-30
  74. Krause DO, Little AC, Dowd SE, Bernstein CN. Complete genome sequence of adherent invasive Escherichia coli UM146 isolated from ileal Crohn’s disease biopsy tissue. J Bacteriol. 2010 Nov 12. [Epub ahead of print]
  75. Dowd SE, Crippen TL, Sun Y, Gontcharova V, Youn E, Muthaiyan A, Wolcott RD, Callaway TR, Ricke SC. Microarray Analysis and Draft Genomes of Two Escherichia coli O157:H7 Lineage II Cattle Isolates FRIK966 and FRIK2000 Investigating Lack of Shiga Toxin Expression. Foodborne Pathog Dis. 2010 Feb 15. [Epub ahead of print] **
  76. Wolcott RD, Dowd SE. Molecular diagnosis of Raoultella planticola infection of a surgical site. 2010. Journal of Wound Care 19(8): 333 – 337
  77. Stephenson MF, Mfuna L, Dowd SE, Wolcott RD, Barbeau J, Poisson M, James G, Desrosiers M. Molecular characterization of the polymicrobial flora in chronic rhinosinusitis. J Otolaryngol Head Neck Surg. 2010 Apr;39(2):182-7.
  78. Finegold SM, Dowd SE, Gontcharova V, Liu C, Henley KE, Wolcott RD, Youn E, Summanen PH, Granpeesheh D, Dixon D, Liu M, Molitoris DR, Green JA 3rd. Pyrosequencing study of fecal microflora of autistic and control children. Anaerobe. 2010 Jul 8. **

2011 manuscripts


100.Smith DM, Snow DE, Rees E, Zischkau AM, Hanson JD, Wolcott RD, Sun Y, White J, Kumar S, Dowd SE. Evaluation of the bacterial diversity of pressure ulcers using bTEFAP pyrosequencing.  BMC Med Genomics. 2010 Sep 21;3(1):41.

101.Acosta-Martinez, Dowd SE, Bell CW, Lasconao R, Booker JD, Zobeck TM, Upchurch DR. Microbial Community Composition as Affected by Dryland Cropping Systems and Tillage in a Semiarid Sandy Soil.  2010. Diversity 2010, 2(6), 910-931

102.Bailey MT, Dowd SE, Galley JD, Hufnagle AR, Allen RG, Lyte M. Exposure to a Social Stressor Alters the Structure of the Intestinal Microbiota: Implications for Stressor-Induced Immunomodulation. Brain Behav Immun. 2010 Oct 29. [Epub ahead of print]**

103.Nonnenmann MW, Bextine B, Dowd SE, Gilmore K, Levin JL. Culture-independent characterization of bacteria and fungi in a poultry bioaerosol using pyrosequencing: a new approach. J Occup Environ Hyg. 2010 Dec;7(12):693-9.

104.Percival SL and Dowd SE. 2010. The Microbiology of Wounds. 2010. in Microbiology of wounds (ed. S. Percival and K. Cutting). CRC Press 2010ISBN: 978-1-4200799-3-7

105.Wolcott RD, Cutting KF, Dowd SE, and Percival SL.  2010. Types of Wounds and Infections. 2010. in Microbiology of wounds (ed. S. Percival and K. Cutting). CRC Press 2010. ISBN: 978-1-4200799-3-7

  1. 106.            Cutting KF, Wolcott RD, Dowd SE, and Percival SL. 2010. Biofilms and Significance to Wound Healing. 2010. in Microbiology of wounds (ed. S. Percival and K. Cutting). CRC Press 2010. ISBN: 978-1-4200799-3-7

107.Bearson BL and Dowd SE. Molecular Profiling: Catecholamine modulation of gene expression in enteropathogenic bacteria. 2010. in Microbial Endocrinology (Ed. Lyte M and Freestone PE). Springer, NY NY ISBN: 978-1-4419-5575-3  pg 248

108.Lin YT, Kincaid RP, Arasappan D, Dowd SE, Hunicke-Smith SP, Sullivan CS.  Small RNA profiling reveals antisense transcription throughout the KSHV genome and novel small RNAs. RNA. 2010 Jun 21. [Epub ahead of print]

109.Olafson PU, Lohmeyer KH, Dowd SE. Analysis of expressed sequence tags from a significant livestock pest, the stable fly (Stomoxys calcitrans), identifies transcripts with a putative role in chemosensation and sex determination. Arch Insect Biochem Physiol. 2010 Jun 22;74(3):179-204.

110.Bailey MT, Dowd SE, Parry NM, Galley JD, Schauer DB, Lyte M. Stressor exposure disrupts commensal microbial populations in the intestines and leads to increased colonization by Citrobacter rodentium. Infect Immun. 2010 Feb 9. [Epub ahead of print] **

111.Wolcott RD, Rhoads DD, Bennett ME, Wolcott BM, Gogokhia L, Costerton JW, Dowd SE. Chronic wounds and the medical biofilm paradigm. J Wound Care. 2010 Feb;19(2):45-53.

112.Gontcharova V., Youn E., Sun Y, Wolcott R.D., Dowd S.E. A Comparison of Bacterial Composition in Diabetic Ulcers and Contralateral Intact Skin Open Microbiol. J. 2010. Feb; 4:8019 **

113.Zhang H, Murzello C, Sun Y, Kim MS, Xie X, Jeter RM, Zak JC, Dowd SE, Paré PW. Choline and Osmotic-Stress Tolerance Induced in Arabidopsis by the Soil Microbe Bacillus subtilis (GB03). Mol Plant Microbe Interact. 2010 Aug;23(8):1097-104. **

114.Wolcott RD, Cox SB, Dowd SE. Healing and healing rates of chronic wounds in the age of molecular pathogen diagnostics. J Wound Care. 2010 Jul;19(7):276-84. **

115.Gontcharova V, Youn E, Wolcott RD, Hollister EB, Gentry TJ, Dowd SE. Black Box Chimera Check (B2C2): a Windows-Based Software for Batch Depletion of Chimeras from Bacterial 16S rRNA Gene Datasets. 2010 Open Microbiol. Journal. Jul(4):47-52. **

116.Wolcott R.D, Rumbaugh K.P, James G, Schultz G, Phillips P, Yang Q, Watters C, Stewart P.S., Dowd S.E. Biofilm maturity studies indicate sharp debridement opens a time- dependent therapeutic window. 2010 Journal of Wound Care Aug 19(8): 320 – 328 **

117.Swanson KS, Dowd SE, Suchodolski JS, Middelbos IS, Vester BM, Barry KA, Nelson KE, Torralba M, Henrissat B, Coutinho PM, Cann IK, White BA, Fahey GC Jr. Phylogenetic and gene-centric metagenomics of the canine intestinal microbiome reveals similarities with humans and mice. ISME J. 2010 Oct 21.

118.Williams WL, Tedeschi LO, Kononoff PJ, Callaway TR, Dowd SE, Karges K, Gibson ML. Evaluation of in vitro gas production and rumen bacterial populations fermenting corn milling (co)products. J Dairy Sci. 2010 Oct;93(10):4735-43.


119.Li W, Dowd SE, Scurlock B, Acosta-Martinez V, Lyte M. Memory and learning behavior in mice is temporally associated with diet-induced alterations in gut bacteria. Physiol Behav. 2009 Mar 23;96(4-5):557-67. Epub 2008 Dec 24 **

120.Callaway TR, Dowd SE, Wolcott RD, Sun Y, McReynolds JL, Edrington TS, Byrd JA, Anderson RC, Krueger N, Nisbet DJ. Evaluation of the bacterial diversity in cecal contents of laying hens fed various molting diets by using bacterial tag-encoded FLX amplicon pyrosequencing. Poult Sci. 2009 Feb;88(2):298-302.

121.Zhang H, Sun Y, Xie X, Kim MS, Dowd SE, Paré PW.A soil bacterium regulates plant acquisition of iron via deficiency-inducible mechanisms. Plant J. 2009 Jan 19. [Epub ahead of print]  **

122.Leake JL, Dowd SE, Wolcott RD, Sun Y, Zischkau AM. Identification of yeast in chronic wounds using new pathogen-detection technologies. J Wound Care. 2009 Mar;18(3):103-8.

123.Wolcott RD, Kennedy JP, Dowd SE. Regular Debridement is the main tool for maintaining a healthy wound bed in most chronic wounds.  J Wound Care. 2009 Feb;18(2):54-6

124.Guerrero FD, Dowd SE, Sun Y, Saldivar L, Wiley GB, Macmil SL, Najar F, Roe BA, Foil LD.  Microarray analysis of female- and larval-specific gene expression in the horn fly (Diptera: Muscidae). J Med Entomol. 2009 Mar;46(2):257-70.

125.Hunter,WB, Dowd, SE, Katsar, CS, Shatters Jr, RG, McKenzie, CL, Hall, DG. 2009. Psyllid biology: expressed genes in adult Asian citrus psyllids, Diaphorina citri Kuwayama. The Open Entomology Journal 3: 18-29

126.Suchodolski JS, Dowd SE, Westermarck E, Steiner JM, Wolcott RD, Spillmann T, Harmoinen JA. The effect of the macrolide antibiotic tylosin on microbial diversity in the canine small intestine as demonstrated by massive parallel 16S rDNA sequencing. BMC Microbiol. 2009 Oct 2;9(1):210

127.Sen R, Ishak HD, Estrada D, Dowd SE, Hong E, Mueller UG. Generalized antifungal activity and 454-screening of Pseudonocardia and Amycolatopsis bacteria in nests of fungus-growing ants. Proc Natl Acad Sci U S A. 2009 Sep 22.

128.Oliver MJ, Hudgeons J, Dowd SE, Payton PR. A combined subtractive suppression hybridization and expression profiling strategy to identify novel desiccation response transcripts from Tortula ruralis gametophytes. Physiol Plant. 2009 Aug;136(4):437-60.

129.Sarson AJ, Wang Y, Kang Z, Dowd SE, Lu Y, Yu H, Han Y, Zhou H, Gong J. Gene expression profiling within the spleen of Clostridium perfringens-challenged broilers fed antibiotic-medicated and non-medicated diets. BMC Genomics. 2009 Jun 7;10:260.

130.Sun Y, Smith E, Wolcott R, Dowd SE. Propagation of anaerobic bacteria within an aerobic multi-species chronic wound biofilm model. J Wound Care. 2009 Oct;18(10):426-31.

131.Wolcott RD, Gontcharova V, Sun Y, Dowd SE. Evaluation of the bacterial diversity among and within individual venous leg ulcers using bacterial tag-encoded FLX and Titanium amplicon pyrosequencing and metagenomic approaches. BMC Microbiol. 2009 Oct 27;9(1):226.

132.Wolcott RD, Gontcharova V, Sun Y, Zischakau A, Dowd SE. Bacterial diversity in surgical site infections: not just aerobic cocci anymore. J Wound Care. 2009 Aug;18(8):317-23.

133.Jesudhasan PR, Cepeda ML, Widmer K, Dowd SE, Soni KA, Hume ME, Zhu J, Pillai SD. Transcriptome Analysis of Genes Controlled by luxS/Autoinducer-2 in Salmonella enterica Serovar Typhimurium. Foodborne Pathog Dis. 2009 Nov 12.

134.Pitta DW, Pinchak WE, Dowd SE, Osterstock J, Gontcharova V, Youn E, Dorton K, Yoon I, Min BR, Fulford JD, Wickersham TA, Malinowski DP. Rumen Bacterial Diversity Dynamics Associated with Changing from Bermudagrass Hay to Grazed Winter Wheat Diets. Microb Ecol. 2009 Dec 29

135.Bailey MT, Walton JC, Dowd SE, Weil ZM, Nelson RJ. Photoperiod Modulates Gut Bacteria Composition in Male Siberian Hamsters (Phodopus sungorus). Brain Behav Immun. 2009 Dec 30.

136.Dowd SE, Sun Y, Smith E, Kennedy JP, Jones CE, Wolcott R. Effects of biofilm treatments on the multi-species Lubbock chronic wound biofilm model.  J Wound Care. 2009 Dec;18(12):508, 510-12.


137.Li X., Chiang, H. I., Zhu, J., Dowd, S. E., and Zhou, H. Characterization of a newly developed chicken 44K Agilent microarray.  BMC Genomics. Jan 31;9(1):60. 2008.

138.Zhang H, Kim MS, Sun Y, Dowd SE, Shi H, Paré PW. Soil bacteria confer plant salt tolerance by tissue-specific regulation of the sodium transporter HKT1. Mol Plant Microbe Interact. 2008 Jun;21(6):737-44.  **

139.Dowd SE, Callaway TR, Wolcott RD, Sun Y, McKeehan T, Hagevoort RG, Edrington TS. Evaluation of the bacterial diversity in the feces of cattle using 16S rDNA bacterial tag-encoded FLX amplicon pyrosequencing (bTEFAP). BMC Microbiol. 2008 Jul 24;8:125.

140.Dowd SE, Killinger-Mann K, Brashears M, Fralick J. Evaluation of gene expression in a single antibiotic exposure-derived isolate of Salmonella enterica typhimurium 14028 possessing resistance to multiple antibiotics. Foodborne Pathog Dis. 2008 Apr;5(2):205-21.  **

141.Dowd SE, Sun Y, Secor PR, Rhoads DD, Wolcott BM, James GA, Wolcott RD. Survey of bacterial diversity in chronic wounds using pyrosequencing, DGGE, and full ribosome shotgun sequencing. BMC Microbiol. 2008 Mar 6;8:43d Ph.D.

142.Pepper, I.L. and S.E. Dowd.  Aeromicrobiology.  In Environmental Microbiology, 2nd Edition.  Elsevier Science, San Diego, CA.  pp. 83–102.

143.Sandrin, TL, Dowd SE, Herman DC, Maier RM.  Aquatic Environments. In Environmental Microbiology, 2nd Edition.  Elsevier Science, San Diego, CA. pp. 103-123

144.Dowd SE, Halonen MJ, and Maier RM. Immunological Methods. In Environmental Microbiology, 2nd Edition.  Elsevier Science, San Diego, CA.  pp. 225-242.

145.Bearson BL, Bearson SM, Uthe JJ, Dowd SE, Houghton JO, Lee I, Toscano MJ, Lay DC Jr.  Iron regulated genes of Salmonella enterica serovar Typhimurium in response to norepinephrine and the requirement of fepDGC for norepinephrine-enhanced growth. Microbes Infect. 2008 Jun;10(7):807-16.

146.Dowd, SE and JB Williams. Comparison of Shiga-Like Toxin II Expression between Two Genetically Diverse Lineages of Escherichia coli O157:H7. 2008. Journal of Food Protection. vol 71 (8): 1673-1678.

147.Wolcott, RD, Rhoads DR, and SE Dowd. Biofilms and chronic wound inflammation. J Wound Care 2008. 17(8): 333-341.

148.Guerrero FD, Wang M, Nene VM, Dowd SE, Saldivar L. EST-based gene indices for the cattle fever tick, the horn fly, and the screwworm fly. Dev Biol (Basel). 2008;132:115-20.

149.Dowd SE, Wolcott RD, Sun Y, McKeehan T, Smith E, et al. 2008 Polymicrobial Nature of Chronic Diabetic Foot Ulcer Biofilm Infections Determined Using Bacterial Tag Encoded FLX Amplicon Pyrosequencing (bTEFAP). PLoS ONE 3(10): e3326

150.Acosta Martinez, V., Dowd, S.E., Sun, Y., Allen, V. 2008. Tag-encoded pyrosequencing analysis of bacterial diversity in a single soil type as affected by management and land use. Soil Biology and Biochemistry. 40(11):2762-2770 **

151.Dowd SE, Sun Y, Wolcott RD, Domingo A, Carroll JA.  Bacterial tag-encoded FLX amplicon pyrosequencing (bTEFAP) for microbiome studies: bacterial diversity in the ileum of newly weaned Salmonella-infected pigs. Foodborne Pathog Dis. 2008 Aug;5(4):459-72.

152.Crippen TL, Sheffield CL, Andrews K, Dowd SE, Bongaerts RJ, Nisbet DJ. Planktonic and biofilm community characterization and Salmonella resistance of 14-day-old chicken cecal Microflora-derived continuous-flow cultures. J Food Prot. 2008 Oct;71(10):1981-7.

153.Wolcott RD, Dowd SE. A rapid molecular method for characterising bacterial bioburden in chronic wounds. J Wound Care. 2008 Nov 27;17(12):513-516.

154.Sun Y, Dowd SE, Smith E, Rhoads DD, Wolcott RD.In vitro multispecies Lubbock chronic wound biofilm model. Wound Repair Regen. 2008 Nov-Dec;16(6):805-13.

  1. 155.            Wolcott RD, Cutting KF, Dowd SE. 2008. Surgical site infections: biofilms, dehiscence and delayed healing 2008. Wounds UK, Vol 4, No 4 pg 1
  2. 156.            Callaway, T. R., Morrow, J. L., Edrington, T. S., Genovese, K. J., Dowd S. E., Carroll, J., Dailey, J. W., Harvey, R. B., Poole, T. L., Anderson, R. C., and Nisbet, D. J.  Social stress increases fecal shedding of Salmonella Typhimurium by early weaned piglets.  Curr. Issues Intest. Microbiol.  7:65-72. 2006.
  3. 157.            Dowd, S. E. and Ishizaki, H. Microarray based comparison of two Escherichia coli O157:H7 lineages. BMC Microbiology 6:30 2006.


158.Dowd, S. E., Ishizaki, H. and Thurston-Enriquez, J. Microarrays: design and use for agricultural and environmental applications. In Manual for Environmental Microbiology Third Edition, (Ed) Christin Hurst. ASM Press, 1-55581-199-X. 2006.

159.Dowd, S. E. and Pepper, I. L.. Polymerase Chain Reaction:  Agricultural and Environmental Applications for Soil Microbes. In Manual for Environmental Microbiology Third Edition, (Ed) Christin Hurst. ASM Press, 1-55581-199-X. 2006.

160.Corapcioglu, Y. M., Vogel, J. R., Munster, C. L., Pillai, S. D., Dowd, S. E., and Wang, S. Virus transport experiments in a sandy aquifer. Water, Air & Soil Pollution. 169:47-65. 2006.

161.Dowd, S. E., Killinger-Mann, K., Blanton, J., San Francisco, M. and Brashears M.  Positive adaptive state: Microarray evaluation of gene expression in Salmonella enterica Typhimurium upon exposure to sub-therapeutic levels of nalidixic acid Foodborne Pathog Dis. 4(2):187-200. 2007 **

162.Widmer. K. W., Jesudhasan, P. R., Dowd, S. E., Pillai, S. D.  Virulence-related gene expression in a Salmonella enterica serotype typhimurium luxS mutant in response to autoinducer AI-2 and poultry meat-derived AI-2 inhibitor. Foodborne Pathog. Dis. Spring;4(1):5-15. 2007

163.Himburg H., Dowd S.E., Friedman M.H. The Frequency Dependent Response of the Vascular Endothelium to Pulsatile Shear Stress. Am J Physiol Heart Circ Physiol. Jul;293(1):H645-53. 2007.

164.Dowd S.E., Callaway T.C. and Morrow-Tesch J. Handling may cause increased shedding of Escherichia coli and coliform indicator population in pigs.  Foodborne Pathog. Dis. Spring;4(1)99-102. 2007.

165.Dowd, S.E. Escherichia coli O157:H7 gene expression in the presence of the catecholamine norepinephrine. FEMS Microbiol Lett. Aug;273(2):214-23 2007.

166.Niehuis, O., Judson A.K., Werren J.H., Hunter W.B., Dang P.M., Dowd, S.E., Grillenberger B. Beukenboom L.W., and Gadau J. Species-diagnostic single-nucleotide polymorphism and sequence-tagged site markers for the parasitic wasp genus Nasonia (Hymenoptera: Pteromalidae) J Econ Entomol. Aug;100(4):1033-6. 2007.


167.Pillai, S. D., Widmer, K. W., Dowd, S. E., and Ricke, S. C. Occurrence of airborne bacteria and pathogen indicators during land application of sewage sludge. Appl. Environ. Microbiol. 62:296-299. 1996.

168.Dowd, S. E. Survival, adsorption, and subsurface transport of indicator viruses in aquifers using laboratory and field experiments.. University of Texas at El Paso, Thesis Call QH 2998.D69. 1996. (Thesis).

169.Dowd, S. E., and Pillai, S. D. A rapid viability assay for Cryptosporidium oocysts and Giardia cysts for use in conjunction with the IFA procedure. Can. J. of Microbiol. 43:658-662. 1997.

170.Dowd, S. E., Widmer, K. W., and Pillai, S. D. Thermotolerant clostridia as an airborne pathogen indicator during land application of biosolids. J. Environ. Qual. 26:194-199. 1997.

171.Dowd, S. E. and Pillai, S. D. Survival and transport of selected bacterial pathogens and indicator viruses under sandy aquifer conditions. J. Env. Sci. Hlth. 32(A):2245-2258. 1997.

172.Dowd S. E., Gerba, C. P., Enriquez, F. J., and Pepper, I. L. PCR amplification and species determination of microsporidia in formalin fixed feces after immunomagnetic separation. Appl. Environ. Microbiol. 64(1):333-336. 1998.

173.Dowd, S. E., Gerba, C. P., and Pepper, I. L. Confirmation of human-pathogenic microsporidia Enterocytozoon bieneusi, Encephalitozoon intestinalis and Vittaforma corneae in water. Appl. Environ. Microbiol. 64(9):3332-3335. 1998.

174.Dowd, S. E., Pillai, S. D., Wang, S., and Corapcioglu, M. Y. Delineating the specific influence of virus isoelectric point and size on virus adsorption and transport through sandy soils. Appl. Environ. Microbiol. 64(2):405-410. 1998.

175.Dowd, S. E. and Pillai, S. D. Groundwater sampling for microbial analysis. In Microbial pathogens within aquifers. (Ed.) S. D. Pillai. Springer-Verlag. NY. ISBN 3-540-63891-1. 1998.

176.Abbaszadegan, M., and Dowd, S. E. Detection of enterovirus and bacteriophages. In Microbial pathogens within aquifers. (Ed.) S. D. Pillai. Springer-Verlag. NY. ISBN 3-540-63891-1. 1998.

  1. 177.            Dowd, S. E., Herman, R. and Maier, R. M. Aquatic microbiology. In Environmental Microbiology. (Ed) R. M. Maier, I. L. Pepper, and C. P Gerba. Academic Press. San Diego, CA ISBN: 0124975704. 1999.
  2. 178.            Dowd, S. E. and Maier, R. M. Aeromicrobiology. In Environmental Microbiology. (Ed) R. M. Maier, I. L. Pepper, and C. P Gerba. Academic Press: San Diego, CA ISBN: 0124975704. 1999.

179.Dowd, S. E. and Maier, R. M. Immunological applications in environmental microbiology. In Environmental Microbiology. (Ed) R. M. Maier, I. L. Pepper, and C. P. Gerba. Academic Press: San Diego, CA ISBN: 0124975704. 1999.

180.Dowd, S. E., Gerba, C. P., Kamper, M., and Pepper, I. L. Evaluation of methodologies including immunofluorescent assay (IFA) and the polymerase chain reaction (PCR) for detection of human pathogenic microsporidia in water. J. Microbiol. Meth. 35(1):43-52. 1999.

181.            Dowd, S. E. and Pillai, S. D. Identifying the sources of biosolid derived pathogen indicator organisms in aerosols by ribosomal DNA fingerprinting. J. Environ. Sci. Health. A34 (5):1061-1074. 1999.

182.            Dowd, S. E., Thurston, J., Gerba, C. P., and Pepper, I. L. Development of improved methods for detection and species determination of human pathogenic microsporidia. WQTC Proc. Oct: 1294-1304. 1999.

183.Dowd S. E., Gerba, C. P., Pepper, I. L., and Pillai, S. D. Bioaerosol transport modeling and risk assessment in relation to biosolid placement. J. Environ. Qual. 29:343-348. 2000.

184.            Schijven, J. F., Hassanizadeh, S. M., Dowd, S. E., and Pillai, S. D. Modeling virus adsorption in batch and column experiments. Quant. Microbiol. 2:5-20. 2000.

185.Dowd, S. E. Development of methods and confirmation of human enteropathogenic microsporidia in water. University of Arizona. E9791 2000 27. 2000. (Dissertation)

186.Pepper, I. L. and Dowd, S. E.  PCR applications in soil.  In Manual for Environmental Microbiology Second Edition, (Ed) Christin Hurst. ASM Press, 1-55581-199-X. 2001.

187.Dowd, S. E. Bioaerosols in association with the wastewater. In Encyclopedia of Environmental Microbiology. (ed) Gabriel Bitton. John Wiley and Sons. New York, ISBN: 0-471-35450-3. 2002.

188.Dowd, S. E. Bacteriophages: Basic biology, structures and genetics. In Encyclopedia of Environmental Microbiology. (ed) Gabriel Bitton. John Wiley and Sons. New York, ISBN: 0-471-35450-3. 2002.

189.Dowd, S. E. Microsporidia: Environmental occurrence and methods for detection. In Encyclopedia of Environmental Microbiology. (ed) Chief Gabriel Bitton. John Wiley and Sons. New York, ISBN: 0-471-35450-3. 2002.

190.Dowd, S. E., John, D. , Eliopolus, J. D., Gerba, C. P., Naranjo, J., Klein, R., Lopez, R., Mejia, B., Mendoza, M., and Pepper, I. L. Confirmed detection of Cyclospora cayetanesis and Encephalitozoon intestinalis in drinking water. J. of Water and Hlth. 01.3:117-123. 2003.

191.Thurston-Enriquez,  J. A., Watt, P., Dowd, S. E., Enriquez, R., Pepper, I. L., and Gerba, C. P. , Detection of protozoan parasites and microsporidia in irrigation waters used for crop production. J. Food Prot.  p 378–382. 2004.

192.Dowd, S. E., Thurston-Enriquez, J., and Brashears, M. Environmental reservoirs and transmission of foodborne pathogens.   In R. C. Beier, S. D. Pillai, T. D. Phillips, R. L. Ziprin (Eds.), Preharvest and Postharvest Food Safety: Contemporary Issues and Future Directions. Iowa State Press: A Blackwell Publishing Company, Ames, IA 0813808847. 2004. **

193.            Oliver, M. J., Dowd, S. E., Zaragoza, J., Mauget, S. A., and Payton, P. R. The rehydration transcriptome of the desiccation-tolerant bryophyte Tortula ruralis: Transcript classification and analysis. BMC Genomics. 5:89. 2004.

194.            Callaway, T. R., Morrow, J. L., Johnson, A. K., Dailey, J. W., Wallace, F. M., Wagstrom, E. A., McGlone, J. J., Lewis, A. R., Dowd, S. E., Poole, T. L., Edrington, T. S., Anderson, R. C., Genovese, K. J., Byrd, J. A., Harvey, R. B., and Nisbet, D. J.  Environmental prevalence and persistence of Salmonella spp. in outdoor swine wallows.  Foodborne Path. Dis. 2:263-273. 2005.

195.Dowd, S.E., Zaragoza, J., Rodriguez, J.R., Oliver, M.J., Payton, P.R. Windows.NET network distributed basic local alignment search toolkit (W.ND-BLAST). BMC Bioinformatics. 6:93. 2005.

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