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Species Resource name Author Title Journal Year published Volume Pages Pubmed ID
E.coli  DH5α, pGree...  Matsushima R, Danno H, Uchida M, Ishihara K, Suzuki T, Kaneniwa M, Ohtsubo Y, Nagata Y, Tsuda M.  Analysis of extracellular alginate lyase and its gene from a marine bacterial strain, Pseudoalteromonas atlantica AR06.  Appl Microbiol Biotechnol.  2010  86(2)  567-76  19844705  
E.coli  ME8788(CAG1...  Ando, T., Itakura, S., Uchii, K., Sobue, R. and Maeda, S.  Horizontal transfer of non-conjugative plasmid in colony biofilm of Escherichia coli on food-based media.  World J. Microbiol. Biotechnol.  2009  25(10)  1865-1869   
E.coli  ME9062(BW25...  Arnold T, Zeth K, Linke D.  Structure and function of colicin S4, a colicin with a duplicated receptor-binding domain.  J Biol Chem.  2009  284(10)  6403-13  19056731  
E.coli  ME7986(MG16...  Bekker M, de Vries S, Ter Beek A, Hellingwerf KJ, de Mattos MJ.  Respiration of Escherichia coli can be fully uncoupled via the nonelectrogenic terminal cytochrome bd-II oxidase.  J Bacteriol.  2009  191(17)  5510-7  19542282  
E.coli  ME9062(BW25...  Bi H, Sun L, Fukamachi T, Saito H, Kobayashi H.  HU participates in expression of a specific set of genes required for growth and survival at acidic pH in Escherichia coli.  Curr Microbiol..  2009  58(5)  443-8  19127382  
E.coli  ME9062(BW25...  Chuang JS, Rivoire O, Leibler S.  Simpson's paradox in a synthetic microbial system.  Science.  2009  323(5911)  272-5  19131632  
E.coli  JW3284  Diner EJ, Hayes CS.  Recombineering reveals a diverse collection of ribosomal proteins L4 and L22 that confer resistance to macrolide antibiotics.  J Mol Biol..  2009  386(2)  300-15  19150357  
E.coli    Ebhardt HA, Xu Z, Fung AW, Fahlman RP.  Quantification of the Post-Translational Addition of Amino Acids to Proteins by MALDI-TOF Mass Spectrometry.  Anal Chem..  2009  81(5)  1937-43  19186990  
E.coli    Ebisu K, Tateno H, Kuroiwa H, Kawakami K, Ikeuchi M, Hirabayashi J, Sisido M, Taki M.  N-terminal specific point-immobilization of active proteins by the one-pot NEXT-A method.  Chembiochem..  2009  10(15)  2460-4  19739192  
E.coli  ME7986 (MG1...  Engl C, Jovanovic G, Lloyd LJ, Murray H, Spitaler M, Ying L, Errington J, Buck M.  In vivo localizations of membrane stress controllers PspA and PspG in Escherichia coli.  Mol Microbiol..  2009  73(3)  382-96  19555453  
E.coli  Vector Coll...  Ferguson AA, Fisher AL.  Retrofitting ampicillin resistant vectors by recombination for use in generating C. elegans transgenic animals by bombardment.  Plasmid..  2009  62(2)  140-5  19520111  
E.coli  ME8568 (HB1...  Fukiya S, Arata M, Kawashima H, Yoshida D, Kaneko M, Minamida K, Watanabe J, Ogura Y, Uchida K, Itoh K, Wada M, Ito S, Yokota A.  Conversion of cholic acid and chenodeoxycholic acid into their 7-oxo derivatives by Bacteroides intestinalis AM-1 isolated from human feces.  FEMS Microbiol Lett..  2009  293(2)  263-70  19243441  
E.coli  NIG2017, 20...  Furuya K, Niki H.  Isolation of heterothallic haploid and auxotrophic mutants of Schizosaccharomyces japonicus.  Yeast..  2009  26(4)  221-33  19330769  
E.coli  JW1875, JW1...  Greenfield D, McEvoy AL, Shroff H, Crooks GE, Wingreen NS, Betzig E, Liphardt J.  Self-organization of the Escherichia coli chemotaxis network imaged with super-resolution light microscopy.  PLoS Biol..  2009  7(6)  e1000137  19547746  
E.coli  ME5305(AG1)...  Harrison JJ, Tremaroli V, Stan MA, Chan CS, Vacchi-Suzzi C, Heyne BJ, Parsek MR, Ceri H, Turner RJ.  Chromosomal antioxidant genes have metal ion-specific roles as determinants of bacterial metal tolerance.  Environ Microbiol..  2009  11(10)  2491-509  19555372  
E.coli  ME5305(AG1)...  Harrison JJ, Wade WD, Akierman S, Vacchi-Suzzi C, Stremick CA, Turner RJ, Ceri H.  The chromosomal toxin gene yafQ is a determinant of multidrug tolerance for Escherichia coli growing in a biofilm.  Antimicrob Agents Chemother..  2009  53(6)  2253-8  19307375  
E.coli  JW0441, JW3...  Inwood WB, Hall J, Kim KS, Demirkhanyan L, Wemmer D, Zgurskaya H, Kustu S.  Epistatic Effects of the Protease/Chaperone HflB on Some Damaged Forms of the E. coli Ammonium Channel AmtB.  Genetics.  2009  183(4)  1327-40  19596908  
E.coli  ME9062(BW25...  Isak G, Rydén-Aulin M.  Hypomodification of the wobble base in tRNAGlu, tRNALys, and tRNAGln suppresses the temperature-sensitive phenotype caused by mutant release factor 1.  J Bacteriol.  2009  191(5)  1604-9  19103926  
E.coli  ME9062(BW25...  Janakiraman A, Fixen KR, Gray AN, Niki H, Goldberg MB.  A genome-scale proteomic screen identifies a role for DnaK in chaperoning of polar autotransporters in Shigella.  J Bacteriol.  2009  191(20)  6300-11  19684128  
E.coli  ME9062(BW25...  Jordan DB, Mertens JA, Braker JD.  Aminoalcohols as probes of the two-subsite active site of beta-D-xylosidase from Selenomonas ruminantium.  Biochim Biophys Acta..  2009  1794(1)  144-58  18973836  
E.coli  ME7986(MG16...  Jovanovic G, Engl C, Buck M.  Physical, functional and conditional interactions between ArcAB and phage shock proteins upon secretin-induced stress in Escherichia coli.  Mol Microbiol..  2009  74(1)  16-28  19682256  
E.coli  ME8569(DH1)  Kashiwagi A, Sakurai T, Tsuru S, Ying BW, Mori K, Yomo T.  Construction of Escherichia coli gene expression level perturbation collection.  Metab Eng..  2009  11(1)  56-63  18790072  
E.coli  ASKA  Khalil S, Pawelek PD.  Ligand-induced conformational rearrangements promote interaction between the Escherichia coli enterobactin biosynthetic proteins EntE and EntB.  J Mol Biol..  2009  393(3)  658-71  19699210  
E.coli  ME8998(B178...  Kumar CM, Khare G, Srikanth CV, Tyagi AK, Sardesai AA, Mande SC.  Facilitated oligomerization of mycobacterial GroEL: evidence for phosphorylation-mediated oligomerization.  J Bacteriol.  2009  191(21)  6525-38  19717599  
E.coli  CV-25(DH5al...  Lee EG, Yoon SH, Das A, Lee SH, Li C, Kim JY, Choi MS, Oh DK, Kim SW.  Directing vanillin production from ferulic acid by increased acetyl-CoA consumption in recombinant Escherichia coli.  Biotechnol Bioeng..  2009  102(1)  200-8  18683263  
E.coli  Keio JW2514  Liu IF, Annamalai T, Sutherland JH, Tse-Dinh YC.  Hydroxyl radicals are involved in cell killing by the bacterial topoisomerase I cleavage complex.  J Bacteriol.  2009  191(16)  5315-9  19525344  
E.coli  CV-25(DH5al...  Messing SA, Gabelli SB, Liu Q, Celesnik H, Belasco JG, Piñeiro SA, Amzel LM.  Structure and biological function of the RNA pyrophosphohydrolase BdRppH from Bdellovibrio bacteriovorus.  Structure..  2009  17(3)  472-81  19278661  
E.coli  ME7986(MG16...  Meyer R  The r1162 mob proteins can promote conjugative transfer from cryptic origins in the bacterial chromosome.  J Bacteriol.  2009  191(5)  1574-80  19074386  
E.coli    Murakami T, Maeda T, Yokota A, Wada M.  Gene cloning and expression of pyridoxal 5'-phosphate-dependent L-threo-3-hydroxyaspartate dehydratase from Pseudomonas sp. T62, and characterization of the recombinant enzyme.  J Biochem..  2009  145(5)  661-8  19193709  
E.coli  ME9062(BW25...  Nakahigashi K, Toya Y, Ishii N, Soga T, Hasegawa M, Watanabe H, Takai Y, Honma M, Mori H, Tomita M.  Systematic phenome analysis of Escherichia coli multiple-knockout mutants reveals hidden reactions in central carbon metabolism.  Mol Syst Biol..  2009  5()  306  19756045  
E.coli  JD23488, JD...  Nakajima M, Nishino Y, Tamura M, Mase K, Masai E, Otsuka Y, Nakamura M, Sato K, Fukuda M, Shigehara K, Ohara S, Katayama Y, Kajita S.  Microbial conversion of glucose to a novel chemical building block, 2-pyrone-4,6-dicarboxylic acid.  Metab Eng..  2009  11(4-5)  213-20  19281857  
E.coli  ME7986(MG16...  Nakashima N, Tamura T.  Conditional gene silencing of multiple genes with antisense RNAs and generation of a mutator strain of Escherichia coli.  Nucleic Acids Res.  2009  37(15)  e103  19515932  
E.coli  CV-41(JM109...  Naseem R, Wann KT, Holland IB, Campbell AK.  ATP regulates calcium efflux and growth in E. coli.  J Mol Biol..  2009  391(1)  42-56  19481094  
E.coli  ME9062(BW25...  Ninnis RL, Spall SK, Talbo GH, Truscott KN, Dougan DA.  Modification of PATase by L/F-transferase generates a ClpS-dependent N-end rule substrate in Escherichia coli.  EMBO J..  2009  28(12)  1732-44  19440203  
E.coli  ME9062(BW25...  Noor R, Murata M, Nagamitsu H, Klein G, Raina S, Yamada M.  Dissection of sigma(E)-dependent cell lysis in Escherichia coli: roles of RpoE regulators RseA, RseB and periplasmic folding catalyst PpiD.  Genes Cells..  2009  14(7)  885-99  19549168  
E.coli  ME9062(BW25...  Noor R, Murata M, Yamada M.  Oxidative Stress as a Trigger for Growth Phase-Specific sigma-Dependent Cell Lysis in Escherichia coli.  J Mol Microbiol Biotechnol..  2009  17(4)  177-187  19729880  
E.coli  ME7986(MG16...  Nord S, Bylund GO, Lövgren JM, Wikström PM.  The RimP protein is important for maturation of the 30S ribosomal subunit.  J Mol Biol..  2009  386(3)  742-53  19150615  
E.coli  mobile plas...  Näsvall SJ, Nilsson K, Björk GR.  The ribosomal grip of the peptidyl-tRNA is critical for reading frame maintenance.  J Mol Biol..  2009  385(2)  350-67  19013179  
E.coli  pBAD24  Oku Y, Kurokawa K, Matsuo M, Yamada S, Lee BL, Sekimizu K.  Pleiotropic roles of polyglycerolphosphate synthase of lipoteichoic acid in growth of Staphylococcus aureus cells.  J Bacteriol.  2009  191(1)  141-51  18952789  
E.coli  ME9062(BW25...  Pimkin M, Pimkina J, Markham GD.  A regulatory role of the Bateman domain of IMP dehydrogenase in adenylate nucleotide biosynthesis.  J Biol Chem.  2009  284(12)  7960-9  19153081  
E.coli  ME8913(CAG1...  Rath D, Mangoli SH, Mahajan SK, Jawali N.  A novel mutation spatially remote from the G-domain in IF2 affects the cold stress adaptation of Escherichia coli.  Res Microbiol..  2009  160(8)  576-80  19716413  
E.coli  Keio  Rosner JL, Martin RG.  An excretory function for the Escherichia coli outer membrane pore TolC: upregulation of marA and soxS transcription and Rob activity due to metabolites accumulated in tolC mutants.  J Bacteriol.  2009  191(16)  5283-92  19502391  
E.coli  ME8083, AQ1...  Salem AM, Nakano T, Takuwa M, Matoba N, Tsuboi T, Terato H, Yamamoto K, Yamada M, Nohmi T, Ide H.  Genetic analysis of repair and damage tolerance mechanisms for DNA-protein cross-links in Escherichia coli.  J Bacteriol.  2009  191(18)  5657-68  19617358  
E.coli    Schroeder LA, Gries TJ, Saecker RM, Record MT Jr, Harris ME, DeHaseth PL.  Evidence for a tyrosine-adenine stacking interaction and for a short-lived open intermediate subsequent to initial binding of Escherichia coli RNA polymerase to promoter DNA.  J Mol Biol..  2009  385(2)  339-349  18976666  
E.coli  pFT-A  Shimizu T, Ohta Y, Noda M.  Shiga toxin 2 is specifically released from bacterial cells by two different mechanisms.  Infect Immun..  2009  77(7)  2813-23  19380474  
E.coli  ME9062(BW25...  Sinha S, Cameron AD, Redfield RJ.  Sxy induces a CRP-S regulon in Escherichia coli.  J Bacteriol.  2009  191(16)  5180-95  19502395  
E.coli  pDW363  Sun C, Nakatake Y, Akagi T, Ura H, Matsuda T, Nishiyama A, Koide H, Ko MS, Niwa H, Yokota T.  Dax1 binds to Oct3/4 and inhibits its transcriptional activity in embryonic stem cells.  Mol Cell Biol..  2009  29(16)  4574-83  19528230  
E.coli  ME9062(BW25...  Tal N, Schuldiner S.  A coordinated network of transporters with overlapping specificities provides a robust survival strategy.  Proc Natl Acad Sci U S A.  2009  106(22)  9051-6  19451626  
E.coli    Tsuru S, Ichinose J, Kashiwagi A, Ying BW, Kaneko K, Yomo T.  Noisy cell growth rate leads to fluctuating protein concentration in bacteria.  Phys Biol..  2009  6(3)  36015  19567940  
E.coli  BL21(DE3), ...  Brouns SJ, Jore MM, Lundgren M, Westra ER, Slijkhuis RJ, Snijders AP, Dickman MJ, Makarova KS, Koonin EV, van der Oost J.  Small CRISPR RNAs guide antiviral defense in prokaryotes.  Science.  2008  321(5891)  960-4  18703739  
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