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2012 Publications

  1. Bruckbauer A, Biggerstaff J, Zemel MB. 2012. Leucine and calcitriol modulation of human airway inflammation and hyper-reactivity. FASEB Journal 26.
  2. Burke SJ, Goff MR, Updegraff BL, Lu DH, Brown PL, Minkin SC, Biggerstaff JP, Zhao L, Karlstad MD, Collier JJ. 2012. Regulation of the CCL2 gene in pancreatic beta-cells by IL-1 beta and glucocorticoids: Role of MKP-1. PLoS ONE 7, e46986.
  3. Campbell JH, Foster CM, Vishnivetskaya T, Campbell AG, Yang ZMK, Wymore A, Palumbo AV, Chesler EJ, Podar M. 2012. Host genetic and environmental effects on mouse intestinal microbiota. ISME Journal 6:2033-2044.
  4. Close D, Ripp S, Patterson S, Sayler G. 2012. The use of autonomously bioluminescent human cell lines for detection of bacterial contamination. Luminescence 27:110-111.
  5. Close D, Xu T, Smartt A, Rogers A, Crossley R, Price S, Ripp S, Sayler G. 2012. The evolution of the bacterial luciferase gene cassette (lux) as a real-time bioreporter. Sensors 12:732-752.
  6. Close D, Xu T, Smartt A, Price S, Ripp S, Sayler G. 2012. Expression of non-native genes in a surrogate host organism, p. 3-34. In Barrera-Saldana HA (ed.), Genetic Engineering – Basics, New Applications and Responsibilities. Intech Publishers, Rijeka, Croatia.
  7. Connolly MH, Dutkosky RM, Heah TP, Sayler GS, Henry TB. 2012. Vitellogenin gene expression is correlated with stage 2 oogenesis in zebrafish (Danio rerio). Integrative and Comparative Biology 52:E34.
  8. Cusick KD, Minkin S, Dodani SC, Chang CJ, Wilhelm SW, Sayler G. 2012. Inhibition of copper uptake in yeast reveals the copper transporter Ctr1p as a potential molecular target of saxitoxin. Environmental Science & Technology 46:2959-2966.
  9. Dai Y, Baek S, Garcia-Diaz A, Yang B, Tsui K-L, Zhuang J. 2012. An enhanced engineering perspective of global climate systems and statistical formulation of terrestrial CO2 exchanges. Theoretical and Applied Climatology 10.1007/s00704-011-0471-3:1-13.
  10. Dar RD, Razooky BS, Singh A, Trimeloni TV, McCollum JM, Cox CD, Simpson ML, Weinberger LS. 2012. Transcriptional burst frequency and burst size are equally modulated across the human genome. Proceedings of the National Academy of Sciences 109:17454-17459.
  11. DeBruyn JM, Mead TJ, Sayler GS. 2012. Horizontal transfer of PAH catabolism genes in Mycobacterium: Evidence from comparative genomics and isolated pyrene-degrading bacteria. Environmental Science & Technology 46:99-106.
  12. Ferguson AS, Layton AC, Mailloux BJ, Culligan PJ, Williams DE, Smartt AE, Sayler GS, Feighery J, McKay LD, Knappett PSK, Alexandrova E, Arbit T, Emch M, Escamilla V, Ahmed KM, Alam MJ, Streatfield PK, Yunus M, van Geen A. 2012. Comparison of fecal indicators with pathogenic bacteria and rotavirus in groundwater. Science of the Total Environment 431:314-322.
  13. Graham DE, Wallenstein MD, Vishnivetskaya TA, Waldrop MP, Phelps TJ, Pfiffner SM, Onstott TC, Whyte LG, Rivkina EM, Gilichinsky DA, Elias DA, Mackelprang R, VerBerkmoes NC, Hettich RL, Wagner D, Wullschleger SD, Jansson JK. 2012. Microbes in thawing permafrost: the unknown variable in the climate change equation. ISME Journal 6:709-712.
  14. Hamilton-Brehm SD, Vishnivetskaya TA, Allman S, Mielenz J, Elkins JG. 2012. Anaerobic high-throughput cultivation method for isolation of thermophiles using biomass-derived substrates, p. 153-168. In Himmel ME (ed.), Methods in Molecular Biology: Biomass Conversion – Methods and Protocols, vol. 908. Humana Press.
  15. Hawkins S, Robinson K, Layton A, Sayler G. 2012. Molecular indicators of Nitrobacter spp. population and growth activity during an induced inhibition event in a bench scale nitrification reactor. Water Research 46:1793-802.
  16. Human Microbiome Project Consortium (Vishnivetskaya TA). 2012. A framework for human microbiome research. Nature. 486:215-221.
  17. Human Microbiome Project Consortium (Vishnivetskaya TA). 2012. Structure, function and diversity of the healthy human microbiome. Nature 486:207-214.
  18. Hurst SE, Minkin SC, Biggerstaff J, Dhar MS. 2012. Transient silencing of a type IV P-type ATPase, Atp10c, results in decreased glucose uptake in C2C12 myotubes. J. Nutr. Metab. 2012, e152902.
  19. Hurst SE, Paulusma C, Dunlap J, Biggerstaff J, Dhar M. 2012. Flipping out! Overexpression and localization of a novel flippase, ATP10C. FASEB Journal 26.
  20. Jardim WF, Montagner CC, Pescara IC, Umbuzeiro GA, Bergamasco AMD, Eldridge ML, Sodre FF. 2012. An integrated approach to evaluate emerging contaminants in drinking water. Separation and Purification Technology 84:3-8.
  21. Jiang K, Chauhan A, Sanseverino J, Allen MS, Layton AC, Wang Y, DeBruyn JM, Moser S, Jegier P, Close D, Lucas S, Copeland A, Lapidus A, Glavina del Rio T, Dalin E, Tice H, Bruce D, Goodwin L, Pitluck S, Sims D, Brettin T, Detter JC, Han C, Larimer F, Land M, Hauser L, Kyrpides NC, Mikhailova N, Sayler GS. 2012. Complete genome sequence of Thauera aminoaromatica strain MZ1T. Standards in Genomic Sciences 6:doi 10.4056/sigs.2696029.
  22. Karig DK, Iyer S, Simpson ML, Doktycz MJ. 2012. Expression optimization and synthetic gene networks in cell-free systems. Nucleic Acids Research 40:3763-3774.
  23. Knappett PSK, McKay LD, Layton A, Williams DE, Alam MJ, Huq MR, Mey J, Feighery JE, Culligan PJ, Mailloux BJ, Zhuang J, Escamilla V, Emch M, Perfect E, Sayler GS, Ahmed KM, van Geen A. 2012. Implications of fecal bacteria input from latrine-polluted ponds for wells in sandy aquifers. Environmental Science & Technology 46:1361-1370.
  24. Knappett PSK, McKay LD, Layton A, Williams DE, Alam MJ, Mailloux BJ, Ferguson AS, Culligan PJ, Serre ML, Emch M, Ahmed KM, Sayler GS, van Geen A. 2012. Unsealed tubewells lead to increased fecal contamination of drinking water. Journal of Water and Health 10:565-578.
  25. Layton AC, Smartt AE, Chauhan A, Ripp S, Williams DE, Burton W, Moser S, Phillips J, Palumbo AV, Sayler GS. 2012. Ameliorating risk: Culturable and metagenomic monitoring of the 14 year decline of a genetically engineered microorganism at a bioremediation field site. OMICS Journal of Bioremediation and Biodegradation S1:e009. doi: 10.4172/2155- 6199.S1-009.
  26. Li H, Lopes N, Moser S, Sayler G, Ripp S. 2012. Silicon photomultiplier (SPM) detection of low-level bioluminescence for the development of deployable whole-cell biosensors: Possibilities and limitations. Biosensors & Bioelectronics 33:299-303.
  27. Long AP, Manneschmidt AK, VerBrugge B, Dortch MR, Minkin SC, Prater KE, Biggerstaff JP, Dunlap JR, Dalhaimer P. 2012. Lipid droplet de novo formation and fission are linked to the cell cycle in fission yeast. Traffic 13:705-714.
  28. Lopes N, Hawkins S, Jegier P, Menn F-M, Sayler G, Ripp S. 2012. Detection of dichloromethane with a bioluminescent (lux) bacterial bioreporter. Journal of Industrial Microbiology & Biotechnology 39:45-53.
  29. Mason OU, Hazen TC, Borglin S, Chain PSG, Dubinsky EA, Fortney JL, Han J, Holman HYN, Hultman J, Lamendella R, Mackelprang R, Malfatti S, Tom LM, Tringe SG, Woyke T, Zhou JH, Rubin EM, Jansson JK. 2012. Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill. ISME J. 6:1715-1727.
  30. McCracken GF, Westbrook JK, Brown VA, Eldridge M, Federico P, Kunz TH. 2012. Bats track and exploit changes in insect pest populations. PLoS ONE 7:e43839.
  31. Mohamed T, Strohaber J, Nava R, Kolomenskii A, Thonnard N, Schuessler HA. 2012. Krypton separation from ambient air for application in collinear fast beam laser spectroscopy. Journal of the American Society for Mass Spectrometry 23:1260-1265.
  32. Mosher JJ, Vishnivetskaya TA, Elias DA, Podar M, Brooks SC, Brown SD, Brandt CC, Palumbo AV. 2012. Characterization of the Deltaproteobacteria in contaminated and uncontaminated stream sediments and identification of potential mercury methylators. Aquatic Microbial Ecology 66:271–282.
  33. Nissen S, Liu XX, Chourey K, Hettich RL, Wagner DD, Pfiffner SM, Loffler FE. 2012. Comparative c-type cytochrome expression analysis in Shewanella oneidensis strain MR-1 and Anaeromyxobacter dehalogenans strain 2CP-C grown with soluble and insoluble oxidized metal electron acceptors. Biochemical Society Transactions 40:1204-U68.
  34. Osimitz TG, Eldridge ML, Sloter E, Welsh W, Ai N, Sayler GS, Menn F, Toole C. 2012. Lack of androgenicity and estrogenicity of the three monomers used in Eastman’s Tritan copolyesters. Food Chemical Toxicology 50:2196-205.
  35. Park J-W, Heah TP, Gouffon JS, Henry TB, Sayler GS. 2012. Global gene expression in larval zebrafish (Danio rerio) exposed to selective serotonin reuptake inhibitors (fluoxetine and sertraline) reveals unique expression profiles and potential biomarkers of exposure. Environmental Pollution 167:163-170.
  36. Petersen EJ, Henry TB. 2012. Methodological considerations for testing the ecotoxicity of carbon nanotubes and fullerenes: Review. Environmental Toxicology and Chemistry 31:60-72.
  37. Prado ME, Ghosh D, Ripp S. 2012. Applications of bacteriophages for the control of veterinary pathogens, p. 41-68. In Boulanger A, Blanc M (ed.), Bacterial Pathogens: Virulence Mechanisms, Diagnosis and Management. Nova Science Publishers, Inc., Hauppauge, NY.
  38. Prater KE, Prater RD, Biggerstaff JP. 2012. 3-dimensional imaging and quantification of cell adherence on curved surfaces of medical grade devices using confocal laser-scanning microscopy. FASEB Journal 26.
  39. Ritalahti KM, Justicia-Leon SD, Cusick KD, Ramos-Hernandez N, Rubin M, Dornbush J, Loffler FE. 2012. Sphaerochaeta globosa gen. nov., sp nov and Sphaerochaeta pleomorpha sp nov., free-living, spherical spirochaetes. International Journal of Systematic and Evolutionary Microbiology 62:210-216.
  40. Smartt AE, Xu T, Jegier P, Carswell JJ, Blount SA, Sayler GS, Ripp S. 2012. Pathogen detection using engineered bacteriophages. Analytical and Bioanalytical Chemistry 402:3127-3146.
  41. Smith RS, Zhang Z, Bouchard M, Li J, Lapp HS, Brotske GR, Lucchino DL, Weaver D, Roth LA, Coury A, Biggerstaff J, Sukavaneshvar S, Langer R, Loose C. 2012. Vascular catheters with a nonleaching poly-sulfobetaine surface modification reduce thrombus formation and microbial attachment. Science Translational Medicine 4:153ra132-153ra132. doi: 10.1126/scitranslmed.3004120.
  42. Trogl J, Chauhan A, Ripp S, Layton AC, Kuncova G, Sayler GS. 2012. Pseudomonas fluorescens HK44: Lessons learned from a model whole-cell bioreporter with a broad application history. Sensors 12:1544-1571.
  43. van Straalen NM, Feder ME, Sayler GS. 2012. Guest comment: environmental genomics focus issue. Environmental Science & Technology 46:1-2.
  44. Vishnivetskaya TA, Raman B, Phelps TJ, Podar M, Elkins JG. 2012. Cellulolytic microorganisms from thermal environments, p. 131-158. In Anitori RP (ed.), Extremophiles: Microbiology and Biotechnology. Caister Academic Press, Hethersett, Norwich, UK.
  45. Vulava VM, McKay LD, Broholm MM, McCarthy JF, Driese SG, Sayler GS. 2012. Dissolution and transport of coal tar compounds in fractured clay-rich residuum. Journal of Hazardous Materials 203-204:283-9.
  46. White CR, Davies SJ, Henry TB. 2012. Malachite green toxicity and effects on reproductive success in zebrafish Danio rerio. Zebrafish 9:135-139.