UW-Madison Symbiosis - Publications

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- 2007 - Scott JJ, Oh DC, Yuceer MC, Klepzig KD, Clardy J, Currie CR.Bacterial protection of beetle-fungus mutualism. Science. 2008 Oct 3;322(5898):63   Lopez R, Demick KP, Mansfield JM, Paulnock DM.Type I IFNs play a role in early resistance, but subsequent susceptibility, to the African trypanosomes. J Immunol. 2008 Oct 1;181(7):4908-17.   Cardoza YJ, Moser JC, Klepzig KD, Raffa KF.Multipartite Symbioses Among Fungi, Mites, Nematodes, and the Spruce Beetle, Dendroctonus rufipennis. Environ Entomol. 2008 Aug;37(4):956-63.   Ruby EG.Symbiotic conversations are revealed under genetic interrogation. Nat Rev Microbiol. 2008 Oct;6(10):752-62.   Cloud-Hansen KA, Kuehner JN, Tong L, Miller S, Handelsman J.Money, sex, and drugs: a case study to teach the genetics of antibiotic resistance. CBE Life Sci Educ. 2008 Fall;7(3):302-9.   Zarnowski R, Cooper KG, Brunold LS, Calaycay J, Woods JP.Histoplasma capsulatum secreted gamma-glutamyltransferase reduces iron by generating an efficient ferric reductant. Environ Sci Technol. Mol Microbiol. 2008 Aug 29.   Hinckley GT, Johnson CJ, Jacobson KH, Bartholomay C, McMahon KD, McKenzie D, Aiken JM, Pedersen JA. Persistence of pathogenic prion protein during simulated wastewater treatment processes. Environ Sci Technol. 2008 Jul 15;42(14):5254-9.   Chun CK, Troll JV, Koroleva I, Brown B, Manzella L, Snir E, Almabrazi H, Scheetz TE, Fatima Bonaldo M, Casavant TL, Soares MB, Ruby EG, and McFall-Ngai MJ Effects of colonization, luminescence, and autoinducer on host transcription during development of the squid-vibrio association. PNAS. 2008 Aug 12. Vol: 105. No:32. Pgs:11323-11328   Jahn CE, Charkowski AO, Willis DK. Evaluation of isolation methods and RNA integrity for bacterial RNA quantitation. J Microbiol Methods. 2008 Jul 15. [Epub ahead of print]   Borlee BR, Geske GD, Robinson CJ, Blackwell HE, Handelsman J.Quorum-sensing signals in the microbial community of the cabbage white butterfly larval midgut. ISME J. 2008 Jul 24. [Epub ahead of print]   Peterson SB, Warnecke F, Madejska J, McMahon KD, Hugenholtz P.Environmental distribution and population biology of Candidatus Accumulibacter, a primary agent of biological phosphorus removal. Environ Microbiol. 2008 Jul 17. [Epub ahead of print]]   Liang C, Read HW, Balser TC. Reliability of Muramic Acid as a Bacterial Biomarker is Influenced by Methodological Artifacts from Streptomycin. Microb Ecol. 2008 Jun 28. [Epub ahead of print]   Little AE, Currie CR. Black yeast symbionts compromise the efficiency of antibiotic defenses in fungus-growing ants. Current Microbiology. 2008 May;DOI 10.1007/s00284-008-9168-y   Little A, Robinson C, Peterson SB, Raffa KF, Handelsman J.Rules of Engagement: Interspecies Interactions that Regulate Microbial Communities. Ecology. 2008 May;89(5):1216-22.   Zarnowski R, Dobrzyn A, Ntambi JM, Woods JP. Ferrous, But Not Ferric, Iron Maintains Homeostasis in Histoplasma capsulatum Triacylglycerides. Annual Review of Microbiology. 2008. 62:375–401   Kent AD, Yannarell AC, Rusak JA, Triplett EW, McMahon KD. Synchrony in aquatic microbial community dynamics. ISME J. 2007 May;1(1):38-47   Charles E. Cowles and Heidi Goodrich-Blair The Xenorhabdus nematophila nilABC Genes Confer the Ability of Xenorhabdus spp. To Colonize Steinernema carpocapsae Nematodes J. Bacteriol. 2008 190: 4121-4128.   Zarnowski R, Dobrzyn A, Ntambi JM, Woods JP. Ferrous, But Not Ferric, Iron Maintains Homeostasis in Histoplasma capsulatum Triacylglycerides. Curr Microbiol. 2008 May 28.   Yang S, Peng Q, Zhang Q, Yi X, Choi CJ, Reedy RM, Charkowski AO, Yang CH. Dynamic regulation of GacA in type III secretion, pectinase gene expression, pellicle formation, and pathogenicity of Dickeya dadantii (Erwinia chrysanthemi 3937). Mol Plant Microbe Interact. 2008 Jan;21(1):133-42.   Zhang MM, Poulsen M, Currie CR. Symbiont recognition of mutualistic bacteria by Acromyrmex leaf-cutting ants. ISME J. 2007 Aug;1(4):313-20. Epub 2007 Jun 7.   Dyer DH, Wessely V, Forest KT, Lan Q. Three-dimensional structure/function analysis of SCP-2-like2 reveals differences among SCP-2 family members. J Lipid Res. 2008 Mar;49(3):644-53. Epub 2007 Dec 15.   Felnagle EA, Jackson EE, Chan YA, Podevels AM, Berti AD, McMahon MD, Thomas MG. Nonribosomal peptide synthetases involved in the production of medically relevant natural products. Mol Pharm. 2008 Mar-Apr;5(2):191-211.   Richards GR, Herbert EE, Park Y, Goodrich-Blair H. Xenorhabdus nematophila lrhA is necessary for motility, lipase activity, toxin expression, and virulence toward Manduca sexta insects. J Bacteriol. 2008 May 23.   Yap MN, Yang CH, Charkowski AO The Response regulator HrpY of Dickeya dadantii 3937 regulates virulence genes not linked to the hrp cluster. Mol Plant Microbe Interact. 2008 Mar;21(3):304-14.   Mandel MJ, Stabb EV, Ruby EG Comparative genomics-based investigation of resequencing targets in Vibrio fischeri: focus on point miscalls and artefactual expansions. BMC Genomics. 2008 Mar 25;9:138.   Studer SV, Mandel MJ, Ruby EG AinS quorum sensing regulates the Vibrio fischeri acetate switch. J Bacteriol. 2008 May 16.   Jones SE, Newton RJ, McMahon KD. Potential for atmospheric deposition of bacteria to influence bacterioplankton communities. FEMS Microbiol Ecol. 2008 Apr 2; [Epub ahead of print]   Cowles CE, Goodrich-Blair H. The Xenorhabdus nematophila nilABC genes confer the ability of Xenorhabdus spp. to colonize Steinernema carpocapase nematodes. J Bacteriol. 2008 Apr 4; [Epub ahead of print]   Boone CK, Six DL, Zheng Y, Raffa KF. Parasitoids and dipteran predators exploit volatiles from microbial symbionts to locate bark beetles.Environ Entomol. 2008 Feb;37(1):150-61.   Ané JM, Zhu H, Frugoli J. Recent Advances in Medicago truncatula Genomics. Int J Plant Genomics. 2008:256597.   Shade A, Jones SE, McMahon KD. The influence of habitat heterogeneity on freshwater bacterial community composition and dynamics. Environ Microbiol. 2008 Jan 23.   Mansfield JM, Paulnock DM. Genetic manipulation of African trypanosomes as a tool to dissect the immunobiology of infection. Parasite Immunol. 2008 Jan 17.   Wagner JR, Zhang J, von Stetten D, Gunther M, Murgida DH, Morginski MA, Walker JM, Forest KT, Hildebrandt P, Vierstra RD. Mutational analysis of deinococcus radiodurans bacteriophytochrome reveals key amino acids necessary for the photochromicity and proton exchange cycle of phytochromes. J Biol Chem. 2008 Jan 10.   Zoltán Kevei, Géraldine Lougnon, Peter Mergaert, Gábor V. Horváth, Attila Kereszt, Dhileepkumar Jayaraman, Najia Zaman, Fabian Marcel, Krzysztof Regulski, György B. Kiss, Adam Kondorosi, Gabriella Endre, Eva Kondorosi, and Jean-Michel Ané 3-Hydroxy-3-Methylglutaryl Coenzyme A Reductase1 Interacts with NORK and Is Crucial for Nodulation in Medicago truncatula. The Plant Cell. 2007 Dec 21.   Isenbarger TA, Finney M, Ríos-Velázquez C, Handelsman J, Ruvkun G. Miniprimer PCR, a new lens for viewing the microbial world. Appl Environ Microbiol. 2007 Dec 14.   Adin DM, Phillips NJ, Gibson BW, Apicella MA, Ruby EG, McFall-Ngai MJ, Hall DB, Stabb EV. Characterization of htrB and msbB mutants of the light organ symbiont Vibrio fischeri. Appl Environ Microbiol. 2007 Dec 7.   Newton RJ, Jones SE, Helmus MR, McMahon KD.Phylogenetic Ecology of the Freshwater Actinobacteria acI Lineage. Appl Environ Microbiol. 2007 Nov;73(22):7169-76. Epub 2007 Sep 7.   McMahon KD, Yilmaz S, He S, Gall DL, Jenkins D, Keasling JD. Polyphosphate kinase genes from full-scale activated sludge plants. Appl Microbiol Biotechnol. 2007 Nov;77(1):167-73. Epub 2007 Aug 2.   Zarnowski R, Dobrzyn A, Ntambi JM, Woods JP. Neutral Storage Lipids of Histoplasma capsulatum: Effect of Culture Age. Curr Microbiol. 2007 Oct 25.   Herbert EE, Cowles KN, Goodrich-Blair H. Abstract CpxRA Regulates Mutualism and Pathogenesis in Xenorhabdus nematophila. Appl Environ Microbiol. 2007 Oct 19.   Cho YK, Donohue TJ, Tejedor I, Anderson MA, McMahon KD, Noguera DR. Development of a solar-powered microbial fuel cell. J Appl Microbiol. 2007 Oct 10.   Kao-Kniffin J, Balser TC. Soil Fertility and the Impact of Exotic Invasion on Microbial Communities in Hawaiian Forests. Microb Ecol. 2007 Oct 4.   Poulsen M, Erhardt DP, Molinaro DJ, Lin TL, Currie CR. Antagonistic Bacterial Interactions Help Shape Host-Symbiont Dynamics within the Fungus-Growing Ant-Microbe Mutualism. PLoS ONE. 2007 Sep 26;2(9):e960.   Swartz TE, Tseng TS, Frederickson MA, Paris G, Comerci DJ, Rajashekara G, Kim JG, Mudgett MB, Splitter GA, Ugalde RA, Goldbaum FA, Briggs WR, and Bogomolni RA. Blue-Light-Activated Histidine Kinases: Two-Component Sensors in Bacteria. Science. 2007 Aug 24; 317:1090-1093.   Newton RJ, Jones SE, Helmus MR, McMahon KD. The Phylogenetic Ecology of the Freshwater acI Lineage. Appl Environ Microbiol. 2007 Sep 7.   Antunes LC, Schaefer AL, Ferreira RB, Qin N, Stevens AM, Ruby EG, Greenberg EP. A Transcriptome Analysis of the Vibrio fischeri LuxR-LuxI Regulon. J Bacteriol. 2007 Sep 7.   Messinese E, Mun JH, Yeun LH, Jayaraman D, Rouge P, Barre A, Lougnon G, Schornack S, Bono JJ, Cook DR, Ane JM. A novel nuclear protein interacts with the symbiotic DMI3 calcium- and calmodulin-dependent protein kinase of Medicago truncatula. Mol Plant Microbe Interact. 2007 Aug;20(8):912-21.   Zhang MM, Poulsen M, Currie CR. Symbiont recognition of mutualistic bacteria by Acromyrmex leaf-cutting ants. The ISME Journal (2007) 1, 313-320.   Little AE, Currie CR. Symbiotic complexity: discovery of a fifth symbiont in the attine ant-microbe symbiosis. Biol Lett. 2007 Aug 7.   Gerardo NM, Caldera EJ. Labile associations between fungus-growing ant cultivars and their garden pathogens. The ISME Journal advance online publication, 12 July 2007; dol:10.1038/ismej.2007.57.   He S, Gall DL, McMahon KD. Accumulibacter Population Structure in Enhanced Biological Phosphorus Removal Sludges Revealed by Polyphosphate Kinase Genes. Appl Environ Microbiol. 2007 Aug 3.   McMahon KD, Yilmaz S, He S, Gall DL, Jenkins D, Keasling JD. Polyphosphate kinase genes from full-scale activated sludge plants. Appl Microbiol Biotechnol. 2007 Aug 2.   Hansen JK, Demick KP, Mansfield JM, Forest KT.Conserved Regions from Neisseria gonorrhoeae Pilin Are Immunosilent and Not Immunosuppressive. Infect Immun. 2007 Aug;75(8):4138-47. Epub 2007 Jun 11.   Peiter E, Sun J, Heckmann AB, Venkateshwaran M, Riley BK, Otegui MS, Edwards A, Freshour G, Hahn MG, Cook DR, Sanders D, Oldroyd GE, Downie JA, Ane JM.The Medicago truncatula DMI1 Protein Modulates Cytosolic Calcium Signaling. Plant Physiol. 2007 Jul 13.   Herbert EE, Goodrich-Blair H. Friend and foe: the two faces of Xenorhabdus nematophila. Nat Rev Microbiol. 2007 Jul 9.   Raffa KF, Hobson KR, Lafontaine S, Aukema BH. Can chemical communication be cryptic? Adaptations by herbivores to natural enemies exploiting prey semiochemistry.Oecologia. 2007 Jul 6.   Brown DG, Swanson JK, Allen C Two Host-Induced Ralstonia solanacearum Genes, acrA and dinF, Encode Multidrug Efflux Pumps and Contribute to Bacterial Wilt Virulence. Applied and Environmental Microbiology, June 2007, p. 3779-3786.   Gonzalez ET, Brown DG, Swanson JK, Allen C Using the Ralstonia solanacearum Tat Secretome To Identify Bacterial Wilt Virulence Factors. Applied and Environmental Microbiology, June 2007, p. 3779-3786.   Swanson JK, Montes L, Mejia L, Allen C Detection of Latent Infections of Ralstonia solanacearum Race 3 Biovar 2 in Geranium. 2007 Plant Dis. 91:828-834.   He S, Gu AZ, McMahon KD.Progress Toward Understanding the Distribution of Accumulibacter Among Full-Scale Enhanced Biological Phosphorus Removal Systems. Microb Ecol. 2007 Jun 29.   Berti AD, Greve NJ, Christensen QH, Thomas MG.Identification of a Biosynthetic Gene Cluster and the Six Associated Lipopeptides Involved in Swarming Motility of Pseudomonas syringae pv. tomato DC3000.J Bacteriol. 2007 Jun 29.   Leppert BJ, Mansfield JM, Paulnock DM The Soluble Variant Surface Glycoprotein of African Trypanosomes Is Recognized by a Macrophage Scavenger Receptor and Induces I {kappa}B{alpha} Degradation Independently of TRAF6-Mediated TLR Signaling. J Immunol. 2007 Jul 1;179(1):548-56.   Hussa EA, O'shea TM, Darnell CL, Ruby EG, Visick KL Two-component response regulators of Vibrio fischeri: their identification, mutagenesis and characterization. J Bacteriol. 2007 Jun 22 ; [Epub ahead of print] PMID: 17586650 [PubMed - as supplied by publisher]   Hansen JK, Demick KP, Mansfield JM, Forest KT The conserved Regions from Neisseria gonorrhoeae Pilin are Immunosilent and Not Immunosuppressive. Infect Immun. 2007 Jun 11.   Goodrich-Blair H. They've got a ticket to ride: Xenorhabdus nematophila-Steinernema carposapsae symbiosis. Curr Opin Microbiol. 2007 Jun 4.   Zarnowski R, Connolly PA, Wheat LJ, Woods JP.Production of extracellular proteolytic activity by Histoplasma capsulatum grown in Histoplasma-macrophage medium is limited to restriction fragment length polymorphism class 1 isolates. Diagn Microbiol Infect Dis. 2007 May 15.   McMahon KD, Martin HG, Hugenholtz P.Integrating ecology into biotechnology. Curr Opin Biotechnol. 2007 May 15.   Zarnowski R, Miyazaki M, Dobrzyn A, Ntambi JM, Woods JP. Typing of Histoplasma capsulatum strains by fatty acid profile analysis. J Med Microbiol. 2007 Jun;56(Pt 6):788-97.   Goodrich -Blair H., Clarke DJ.Mutualism and pathogenesis in Xenorhabdus and Photorhabdus: two roads to the same destination. Mol Microbiol. 2007 Apr; 64(2):260-8.   Felnagle EA, Rondon MR, Berti AD, Crosby HA, Thomas MG Identification of the Biosynthetic Gene Cluster and an Additional Resistance Gene for the Antituberculosis Drug Capreomycin. Appl Environ Microbiol. 2007 May 11.   Schloss PD, Handelsman J. The Last Word: Books as a Statistical Metaphor for Microbial Communities. Annu Rev Microbiol. 2007 Apr 17.   Wagner JR, Zhang J, Brunzelle JS, Vierstra RD, Forest KT.High resolution structure of deinococcus bacteriophytochrome yields new insights into phytochrome architecture and evolution. J Biol Chem. 2007 Apr 20;282(16):12298-309. Epub 2007 Feb 23.   Guan C, Ju J, Borlee BR, Williamson LL, Shen B, Raffa KF, Handelsman J. Signal mimics derived from a metagenomic analysis of gypsy moth gut microbiota. Appl Environ Microbiol. 2007 Apr 13.   Jones SE, Kent AD, McMahon KD, Newton RJ, Shade A, and Triplett EW. Interannual dynamics and phenology of bacterial communities in a eutrophic lake. Limnology and Oceanography. 2007 March; 52(2):487-494.   Bohse ML, Woods JP. RNA interference - mediated silencing of the YPS3 gene of Histoplasma capsulatum reveals virulence defects. Infect Immun. 2007 Apr 2.   Satyshur KA, Worzalla GA, Meyer LS, Heiniger EK, Aukema KG, Misic AM, Forest KT. Crystal Structures of the Pilus Retraction Motor PilT Suggest Large Domain Movements and Subunit Cooperation Drive Motility. Structure. 2007 Mar;15(3):363-76.   Park Y, Herbert EE, Cowles CE, Cowles KN, Menard ML, Orchard SS, Goodrich-Blair H. Clonal variation in Xenorhabdus nematophila virulence and suppression of Manduca sexta immunity. Cell Microbiol. 2007 Mar;9(3):645-56. Epub 2006 Sep 26.   Nelson EJ, Tunsjo HS, Fidopiastis PM, Sorum H, Ruby EG. A novel lux operon in the cryptically bioluminescent fish pathogen vibrio salmonicida is associated with virulence. Appl Environ Microbiol. 2007 Mar;73(6):1825-33. Epub 2007 Feb 2.   Bohse ML, Woods JP. Expression and interstrain variability of the YPS3 gene of Histoplasma capsulatum. Eukaryot Cell. 2007 Mar 2.   Harris TH, Mansfield JM, Paulnock DM. CpG ODN treatment enhances innate resistance and acquired immunity to African trypanosomes. Infect Immun. 2007 Mar 5.   Riely BK, Lougnon G, Ane JM, Cook DR. The symbiotic ion channel homolog DMI1 is localized in the nuclear membrane of Medicago truncatula roots.Plant J. 2007 Jan;49(2):208-16. Epub 2006 Dec 14.   Koropatnick, Kimbell, and Mcfall-Ngai. Responses of hosthemocytes during the initiation of the squid-Vibrio symbiosis. Biol. Bull. 2007 Feb; 212:29-39.   McFall-Ngai M. Adaptive immunity: care for the community.Nature. 2007 Jan 11;445(7124):153.   McFall-Ngai M. Love the one you're with: vertebrate guts shape their microbiota.Cell. 2006 Oct 20;127(2):247-9.   Nelson EJ, Tunsjo HS, Fidopiastis PM, Sorum H, Ruby EG. A novel lux operon in the cryptically bioluminescent fish pathogen Vibrio salmonicida is associated with virulence.Appl Environ Microbiol. 2007 Feb 2.   Auerbach EA, Seyfried EE, McMahon KD. Tetracycline resistance genes in activated sludge wastewater treatment plants.Water Res. 2007 Jan 18.   Cowles KN, Cowles CE, Richards GR, Martens EC, Goodrich-Blair H.m The global regulator Lrp contributes to mutualism, pathogenesis and phenotypic variation in the bacterium Xenorhabdus nematophila.Cell Microbiol. 2007 Jan 11.   Mwangi W, Brown WC, Splitter GA, Davies CJ, Howard CJ, Hope JC, Aida Y, Zhuang Y, Hunter BJ, Palmer GH. A DNA vaccine construct incorporating intercellular trafficking and intracellular targeting motifs effectively primes and induces memory B and T cell responses in outbred animals.Clin Vaccine Immunol. 2007 Jan 10.   - 2006 - Yang S, Zhang Q, Guo J, Charkowski AO, Glick BR, Ibekwe AM, Cooksey DA, Yang CH. Global effect of Indole-3-acetic acid (IAA) biosynthesis on multiple virulence factors of Erwinia chrysanthemi 3937. Appl Environ Microbiol. 2006 Dec 22; [Epub ahead of print] PMID: 17189441 [PubMed - as supplied by publisher]   Kendrick AP, Raffa KF. Sources of insect and plant volatiles attractive to cottonwood leaf beetles feeding on hybrid poplar.J Chem Ecol. 2006 Dec;32(12):2585-94. PMID: 17089182 [PubMed - in process]   Jones SE, Shade AL, McMahon KD, Kent AD. Comparison of Primer Sets for Use in Automated Ribosomal Intergenic Spacer Analysis (ARISA) of Aquatic Bacterial Communities: An Ecological Perspective. Appl Environ Microbiol. 2006 Nov 22; [Epub ahead of print] PMID: 17122397 [PubMed - as supplied by publisher]   Cowles CE, Goodrich-Blair H. nilR is necessary for co-ordinate repression of Xenorhabdus nematophila mutualism genes.Mol Microbiol. 2006 Nov;62(3):760-71. PMID: 17076669 [PubMed - in process]   Schloss PD, Handelsman J. Introducing SONS, a tool for operational taxonomic unit-based comparisons of microbial community memberships and structures.Appl Environ Microbiol. 2006 Oct;72(10):6773-9. PMID: 17021230 [PubMed - indexed for MEDLINE]   Chan YA, Boyne MT 2nd, Podevels AM, Klimowicz AK, Handelsman J, Kelleher NL, Thomas MG. Hydroxymalonyl-acyl carrier protein (ACP) and aminomalonyl-ACP are two additional type I polyketide synthase extender units.Proc Natl Acad Sci U S A. 2006 Sep 26;103(39):14349-54. Epub 2006 Sep 18. PMID: 16983083 [PubMed - indexed for MEDLINE]   Heninger E, Hogan LH, Karman J, Macvilay S, Hill B, Woods JP, Sandor M. Characterization of the Histoplasma capsulatum-induced granuloma.J Immunol. 2006 Sep 1;177(5):3303-13. PMID: 16920971 [PubMed - indexed for MEDLINE]   Little AE, Murakami T, Mueller UG, Currie CR. Defending against parasites: fungus-growing ants combine specialized behaviours and microbial symbionts to protect their fungus gardens.Biol Lett. 2006 Mar 22;2(1):12-6. PMID: 17148313 [PubMed - in process]   Hansen JK, Forest KT. Type IV pilin structures: insights on shared architecture, fiber assembly, receptor binding and type II secretion.J Mol Microbiol Biotechnol. 2006;11(3-5):192-207. Review. PMID: 16983195 [PubMed - indexed for MEDLINE]   Lum HD, Buhtoiarov IN, Schmidt BE, Berke G, Paulnock DM, Sondel PM, Rakhmilevich AL. Tumoristatic effects of anti-CD40 mAb-activated macrophages involve nitric oxide and tumour necrosis factor-alpha. Immunology. 2006 Jun;118(2):261-70. PMID: 16771862 [PubMed - indexed for MEDLINE]   Broderick NA, Raffa KF, Handelsman J. Midgut bacteria required for Bacillus thuringiensis insecticidal activity. Proc Natl Acad Sci U S A. 2006 Sep 27. Park Y, Herbert EE, Cowles CE, Cowles KN, Menard ML, Orchard SS, Goodrich-Blair H. Clonal variation in Xenorhabdus nematophila virulence and suppression of Manduca sexta immunity. Cell Microbiol. 2006 Sep 26. Goodson MS, Crookes-Goodson WJ, Kimbell JR, McFall-Ngai MJ. Characterization and role of p53 family members in the symbiont-induced morphogenesis of the Euprymna scolopes light organ. Biol Bull. 2006 Aug;211(1):7-17. He S, Gu AZ, McMahon KD. Fine-scale differences between Accumulibacter-like bacteria in enhanced biological phosphorus removal activated sludge. Water Sci Technol. 2006;54(1):111-7. Cloud-Hansen KA, Peterson SB, Stabb EV, Goldman WE, McFall-Ngai MJ, Handelsman J. Breaching the great wall: peptidoglycan and microbial interactions. Nat Rev Microbiol. 2006 Sep;4(9):710-6. Epub 2006 Aug 7. Peterson SB, Dunn AK, Klimowicz AK, Handelsman J. Peptidoglycan from Bacillus cereus mediates commensalism with rhizosphere bacteria from the Cytophaga-Flavobacterium group. Appl Environ Microbiol. 2006 Aug;72(8):5421-7. Kent AD, Jones SE, Lauster GH, Graham JM, Newton RJ, McMahon KD. Experimental manipulations of microbial food web interactions in a humic lake: shifting biological drivers of bacterial community structure. Environ Microbiol. 2006 Aug;8(8):1448-59. Harris TH, Cooney NM, Mansfield JM, Paulnock DM. Signal transduction, gene transcription, and cytokine production triggered in macrophages by exposure to trypanosome DNA. Infect Immun. 2006 Aug;74(8):4530-7. Schloss PD, Handelsman J. Toward a census of bacteria in soil. PLoS Comput Biol. 2006 Jul 21;2(7):e92. Chun CK, Scheetz TE, Bonaldo MF, Brown B, Clemens A, Crookes-Goodson WJ, Crouch K, Demartini T, Eyestone M, Goodson MS, Janssens B, Kimbell JL, Koropatnick TA, Kucaba T, Smith C, Stewart JJ, Tong D, Troll JV, Webster S, Winhall-Rice J, Yap C, Casavant TL, McFall-Ngai MJ, Soares MB. An annotated cDNA library of juvenile Euprymna scolopes with and without colonization by the symbiont Vibrio fischeri. BMC Genomics. 2006 Jun 16;7(1):154 Sabree ZL, Bergendahl V, Liles MR, Burgess RR, Goodman RM, Handelsman J. Identification and characterization of the gene encoding the Acidobacterium capsulatum major sigma factor. Gene. 2006 Apr 5; [Epub ahead of print] Newton RJ, Kent AD, Triplett EW, McMahon KD. Microbial community dynamics in a humic lake: differential persistence of common freshwater phylotypes. Environ Microbiol. 2006 Jun;8(6):956-70. Anderson BD, Gilson MC, Scott AA, Biehl BS, Glasner JD, Rajashekara G, Splitter GA, Perna NT. CGHScan: finding variable regions using high-density microarray comparative genomic hybridization data. BMC Genomics. 2006 Apr 25;7:91. Rajashekara G, Glover DA, Banai M, O'Callaghan D, Splitter GA. Attenuated bioluminescent Brucella melitensis mutants GR019 (virB4), GR024 (galE), and GR026 (BMEI1090-BMEI1091) confer protection in mice. Infect Immun. 2006 May;74(5):2925-36. Peng Q, Yang S, Charkowski AO, Yap MN, Steeber DA, Keen NT, Yang CH. Population behavior analysis of dspE and pelD regulation in Erwinia chrysanthemi 3937. Mol Plant Microbe Interact. 2006 Apr;19(4):451-7. Fraterrigo JM, Balser TC, Turner MG. Microbial community variation and its relationship with nitrogen mineralization in historically altered forests. Ecology. 2006 Mar;87(3):570-9. Schloss PD, Handelsman J. Introducing TreeClimber, a test to compare microbial community structures. Appl Environ Microbiol. 2006 Apr;72(4):2379-84. Lum HD, Buhtoiarov IN, Schmidt BE, Berke G, Paulnock DM, Sondel PM, Rakhmilevich AL. In vivo CD40 ligation can induce T cell-independent antitumor effects that involve macrophages. J Leukoc Biol. 2006 Mar 24; [Epub ahead of print] Yap MN, Rojas CM, Yang CH, Charkowski AO. Harpin mediates cell aggregation in Erwinia chrysanthemi 3937. J Bacteriol. 2006 Mar;188(6):2280-4. Zhu H, Riely BK, Burns NJ, Ane JM. Tracing non-legume orthologs of legume genes required for nodulation and arbuscular mycorrhizal symbioses. Genetics. 2006 Feb 1. Cao Y, Song F, Goodman RM, Zheng Z. Molecular characterization of four rice genes encoding ethylene-responsive transcriptional factors and their expressions in response to biotic and abiotic stress. J Plant Physiol. 2006 Jan 22. Sycuro LK, Ruby EG, McFall-Ngai M. Confocal microscopy of the light organ crypts in juvenile Euprymna scolopes reveals their morphological complexity and dynamic function in symbiosis. J Morphol. 2006 Jan 20. Gabriel DW, Allen C, et al. Identification of open reading frames unique to a select agent: Ralstonia solanacearum race 3 biovar 2. Mol Plant Microbe Interact. 2006 Jan;19(1):69-79. Currie CR, Poulsen M, Mendenhall J, Boomsma JJ, Billen J. Coevolved crypts and exocrine glands support mutualistic bacteria in fungus-growing ants. Science. 2006 Jan 6;311(5757):81-3. Shoemaker DD, Ahrens ME, Ross KG. Molecular phylogeny of fire ants of the Solenopsis saevissima species-group based on mtDNA sequences. Mol Phylogenet Evol. 2006 Jan;38(1):200-15. - 2005 - Martens EC, Goodrich-Blair H. The Steinernema carpocapsae intestinal vesicle contains a subcellular structure with which Xenorhabdus nematophila associates during colonization initiation. Cell Microbiol. 2005 Dec;7(12):1723-35. Rajashekara G, Krepps M, Eskra L, Mathison A, Montgomery A, Ishii Y, Splitter G. Unraveling Brucella genomics and pathogenesis in immunocompromised IRF-1-/- mice. Am J Reprod Immunol. 2005 Dec;54(6):358-68. Landis FC, Gargas A, Givnish TJ. The influence of arbuscular mycorrhizae and light on Wisconsin (USA) sand savanna understories 2. Plant competition. Mycorrhiza. 2005 Nov;15(7):555-62. Landis FC, Gargas A, Givnish TJ. The influence of arbuscular mycorrhizae and light on Wisconsin (USA) sand savanna understories 1. Plant community composition. Mycorrhiza. 2005 Nov;15(7):547-53. Wagner JR, Brunzelle JS, Forest KT, Vierstra RD. A light-sensing knot revealed by the structure of the chromophore-binding domain of phytochrome. Nature. 2005 Nov 17;438(7066):325-31. Goodson MS, Kojadinovic M, Troll JV, Scheetz TE, Casavant TL, Soares MB, McFall-Ngai MJ. Identifying components of the NF-kappaB pathway in the beneficial Euprymna scolopes-Vibrio fischeri light organ symbiosis. Appl Environ Microbiol. 2005 Nov;71(11):6934-46. Mansfield JM, Paulnock DM. Regulation of innate and acquired immunity in African trypanosomiasis. Parasite Immunol. 2005 Oct-Nov;27(10-11):361-71. Orchard SS, Goodrich-Blair H. 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