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Species Resource name RRC ID Author Title Journal Published Volume Pages Pubmed ID DOI
Algae   NIES-843   48678   Harke, M. J., Jankowiak, J. G., Morrell, B. K., Gobler, C. J.   Transcriptomic responses in the bloom-forming cyanobacterium Microcystis 2 induced during exposure to zooplankton.   Appl. Environ. Microbiol.   2016 -12 -21   83,   e02832-16 (article ID).      
General Microbes   JCM 31419   48172   Dong Y, Sanford RA, Boyanov MI, Kemner KM, Flynn TM, O'Loughlin EJ, Chang YJ, Locke RA Jr, Weber JR, Egan SM, Mackie RI, Cann I, Fouke BW.   Orenia metallireducens sp. nov. Strain Z6, a Novel Metal-Reducing Member of the Phylum Firmicutes from the Deep Subsurface.   Appl. Environ. Microbiol.   2016 -8 -28   82(21)   6440-6453   27565620   10.1128/AEM.02382-16  
General Microbes   JCM 30947   48171   Miyauchi R, Ono C, Ohnuki T, Shiba Y.   Nectrisine Biosynthesis Genes in Thelonectria discophora SANK 18292: Identification and Functional Analysis.   Appl. Environ. Microbiol.   2016 -8 -28   82(21)   6414-6422   27565616   10.1128/AEM.01709-16  
General Microbes   JCM 1254   48170   Chen X, Xu L, Jin L, Sun B, Gu G, Lu L, Xiao M.   Efficient and Regioselective Synthesis of β-GalNAc/GlcNAc-Lactose by a Bifunctional Transglycosylating β-N-Acetylhexosaminidase from Bifidobacterium bifidum.   Appl. Environ. Microbiol.   2016 -7 -17   82(18)   5642-52   27422836   10.1128/AEM.01325-16  
General Microbes   JCM 16574, JCM 16575   48169   Somorin Y, Abram F, Brennan F, O'Byrne C.   The General Stress Response Is Conserved in Long-Term Soil-Persistent Strains of Escherichia coli.   Appl. Environ. Microbiol.   2016 -5 -29   82(15)   4628-40   27235429   10.1128/AEM.01175-16  
General Microbes   JCM 11502   48168   Novinscak A, Goyer C, Zebarth BJ, Burton DL, Chantigny MH, Filion M.   Novel P450nor Gene Detection Assay Used To Characterize the Prevalence and Diversity of Soil Fungal Denitrifiers.   Appl. Environ. Microbiol.   2016 -5 -22   82(15)   4560-9   27208113   10.1128/AEM.00231-16  
General Microbes   JCM 18496   48167   Sun C, Fu GY, Zhang CY, Hu J, Xu L, Wang RJ, Su Y, Han SB, Yu XY, Cheng H, Zhang XQ, Huo YY, Xu XW, Wu M.   Isolation and Complete Genome Sequence of Algibacter alginolytica sp. nov., a Novel Seaweed-Degrading Bacteroidetes Bacterium with Diverse Putative Polysaccharide Utilization Loci.   Appl. Environ. Microbiol.   2016 -3 -13   82(10)   2975-87   26969704   10.1128/AEM.00204-16  
General Microbes   JCM 17581, JCM 14654   48166   Tanaka S, Yamamoto K, Yamada K, Furuya K, Uyeno Y.   Relationship of Enhanced Butyrate Production by Colonic Butyrate-Producing Bacteria to Immunomodulatory Effects in Normal Mice Fed an Insoluble Fraction of Brassica rapa L.   Appl. Environ. Microbiol.   2016 -2 -28   82(9)   2693-9   26921420   10.1128/AEM.03343-15  
General Microbes   JCM 30481   48174   Ji SQ, Wang B, Lu M, Li FL.   Defluviitalea phaphyphila sp. nov., a Novel Thermophilic Bacterium That Degrades Brown Algae.   Appl. Environ. Microbiol.   2015 -11 -22   82(3)   868-77   26590273   10.1128/AEM.03297-15  
General Microbes   JCM 30930   48173   McCarthy S, Johnson T, Pavlik BJ, Payne S, Schackwitz W, Martin J, Lipzen A, Keffeler E, Blum P.   Expanding the Limits of Thermoacidophily in the Archaeon Sulfolobus solfataricus by Adaptive Evolution.   Appl. Environ. Microbiol.   2015 -11 -22   82(3)   857-67   26590281   10.1128/AEM.03225-15  
General Microbes   JCM 2013   41058   Techaruvichit P, Takahashi H, Vesaratchavest M, Keeratipibul S, Kuda T, Kimura B.   Development of Multiple-Locus Variable-Number Tandem-Repeat Analysis for Molecular Subtyping of Campylobacter jejuni by Using Capillary Electrophoresis.   Appl. Environ. Microbiol.   2015 -5 -31   81(16)   5318-25   26025899   10.1128/AEM.01151-15  
General Microbes   JCM 5803, JCM 8731, JCM 5804, JCM 5885,...   41020   Maky MA, Ishibashi N, Zendo T, Perez RH, Doud JR, Karmi M, Sonomoto K.   Enterocin F4-9, a Novel O-Linked Glycosylated Bacteriocin.   Appl. Environ. Microbiol.   2015 -5 -10   81(14)   4819-26   25956765   10.1128/AEM.00940-15  
General Microbes   JCM 18229   40980   Watanabe A, Hiraga K, Suda M, Yukawa H, Inui M.   Functional Characterization of Corynebacterium alkanolyticum β-Xylosidase and Xyloside ABC Transporter in Corynebacterium glutamicum.   Appl. Environ. Microbiol.   2015 -4 -12   81(12)   4173-83   25862223   10.1128/AEM.00792-15  
General Microbes   JCM 19237, JCM 19240, JCM 19235, JCM 1923...   40873   Machado H, Gram L.   The fur gene as a new phylogenetic marker for Vibrionaceae species identification.   Appl. Environ. Microbiol.   2015 -2 -11   81(8)   2745-52   25662978   10.1128/AEM.00058-15  
General Microbes   JCM 2506, JCM 2508, JCM 2505, JCM 2502,...   40838   Kong M, Ryu S.   Bacteriophage PBC1 and its endolysin as an antimicrobial agent against Bacillus cereus.   Appl. Environ. Microbiol.   2015 -1 -18   81(7)   2274-83   25595773   10.1128/AEM.03485-14  
General Microbes   JCM 12072, JCM 18229   40837   Oide S, Gunji W, Moteki Y, Yamamoto S, Suda M, Jojima T, Yukawa H, Inui M.   Thermal and solvent stress cross-tolerance conferred to Corynebacterium glutamicum by adaptive laboratory evolution.   Appl. Environ. Microbiol.   2015 -1 -18   81(7)   2284-98   25595768   10.1128/AEM.03973-14  
General Microbes   JCM 5963   40814   Toda H, Ohuchi T, Imae R, Itoh N.   Microbial production of aliphatic (S)-epoxyalkanes by using Rhodococcus sp. strain ST-10 styrene monooxygenase expressed in organic-solvent-tolerant Kocuria rhizophila DC2201.   Appl. Environ. Microbiol.   2015 -1 -4   81(6)   1919-25   25556188   10.1128/AEM.03405-14  
General Microbes   JCM 13498, JCM18694   40810   Iino T, Ito K, Wakai S, Tsurumaru H, Ohkuma M, Harayama S.   Iron corrosion induced by nonhydrogenotrophic nitrate-reducing Prolixibacter sp. strain MIC1-1.   Appl. Environ. Microbiol.   2014 -12 -31   81(5)   1839-46   25548048   10.1128/AEM.03741-14  
General Microbes   JCM 13211   40763   Zhou L, Yu H, Ai G, Zhang B, Hu S, Dong X.   Transcriptomic and physiological insights into the robustness of long filamentous cells of Methanosaeta harundinacea, prevalent in upflow anaerobic sludge blanket granules.   Appl. Environ. Microbiol.   2014 -11 -16   81(3)   831-9   25398869   10.1128/AEM.03092-14  
General Microbes   JCM 7017, JCM 7019   40738   Bottacini F, O'Connell Motherway M, Casey E, McDonnell B, Mahony J, Ventura M, van Sinderen D.   Discovery of a conjugative megaplasmid in Bifidobacterium breve.   Appl. Environ. Microbiol.   2014 -10 -19   81(1)   166-76   25326305   10.1128/AEM.02871-14  
Yeast   BYP7373(pGK426)?   36197   Chujo M, Yoshida S, Ota A, Murata K, Kawai S.   Acquisition of the ability to assimilate mannitol by Saccharomyces cerevisiae through dysfunction of the general corepressor Tup1-Cyc8.   Appl. Environ. Microbiol.   2014 -10 -12   81(1)   9-16   25304510   10.1128/AEM.02906-14  
General Microbes   JCM 1465, JCM 5803, JCM 5804   34410   Ishibashi N, Himeno K, Masuda Y, Perez RH, Iwatani S, Zendo T, Wilaipun P, Leelawatcharamas V, Nakayama J, Sonomoto K.   Gene cluster responsible for secretion of and immunity to multiple bacteriocins, the NKR-5-3 enterocins.   Appl. Environ. Microbiol.   2014 -8 -26   80(21)   6647-55   25149515   10.1128/AEM.02312-14  
General Microbes   JCM 1207, JCM 13495   34403   Lugli GA, Milani C, Turroni F, Duranti S, Ferrario C, Viappiani A, Mancabelli L, Mangifesta M, Taminiau B, Delcenserie V, van Sinderen D, Ventura M.   Investigation of the evolutionary development of the genus Bifidobacterium by comparative genomics.   Appl. Environ. Microbiol.   2014 -8 -12   80(20)   6383-94   25107967   10.1128/AEM.02004-14  
General Microbes   JCM 15132   34390   Itoh N, Kariya S, Kurokawa J.   Efficient PCR-based amplification of diverse alcohol dehydrogenase genes from metagenomes for improving biocatalysis: screening of gene-specific amplicons from metagenomes.   Appl. Environ. Microbiol.   2014 -8 -3   80(20)   6280-9   25085492   10.1128/AEM.01529-14  
General Microbes   JCM 1207, JCM 13495   34391   Milani C, Lugli GA, Duranti S, Turroni F, Bottacini F, Mangifesta M, Sanchez B, Viappiani A, Mancabelli L, Taminiau B, Delcenserie V, Barrangou R, Margolles A, van Sinderen D, Ventura M.   Genomic encyclopedia of type strains of the genus Bifidobacterium.   Appl. Environ. Microbiol.   2014 -8 -3   80(20)   6290-302   25085493   10.1128/AEM.02308-14  
General Microbes   JCM 13039, JCM 13491, JCM 15428,   34350   Habib C, Houel A, Lunazzi A, Bernardet JF, Olsen AB, Nilsen H, Toranzo AE, Castro N, Nicolas P, Duchaud E.   Multilocus sequence analysis of the marine bacterial genus Tenacibaculum suggests parallel evolution of fish pathogenicity and endemic colonization of aquaculture systems.   Appl. Environ. Microbiol.   2014 -6 -29   80(17)   5503-14   24973065   10.1128/AEM.01177-14  
General Microbes   JCM 20098   34334   Bao Z, Okubo T, Kubota K, Kasahara Y, Tsurumaru H, Anda M, Ikeda S, Minamisawa K.   Metaproteomic identification of diazotrophic methanotrophs and their localization in root tissues of field-grown rice plants.   Appl. Environ. Microbiol.   2014 -6 -15   80(16)   5043-52   24928870   10.1128/AEM.00969-14  
General Microbes   JCM 3225   34328   Miyamoto KT, Komatsu M, Ikeda H.   Discovery of gene cluster for mycosporine-like amino acid biosynthesis from Actinomycetales microorganisms and production of a novel mycosporine-like amino acid by heterologous expression.   Appl. Environ. Microbiol.   2014 -6 -8   80(16)   5028-36   24907338   10.1128/AEM.00727-14  
General Microbes   JCM 12380   34296   Mora M, Bellack A, Ugele M, Hopf J, Wirth R.   The temperature gradient-forming device, an accessory unit for normal light microscopes to study the biology of hyperthermophilic microorganisms.   Appl. Environ. Microbiol.   2014 -5 -27   80(15)   4764-70   24858087   10.1128/AEM.00984-14  
General Microbes   JCM 1217   34287   Fujita K, Sakaguchi T, Sakamoto A, Shimokawa M, Kitahara K.   Bifidobacterium longum subsp. longum Exo-β-1,3-Galactanase, an enzyme for the degradation of type II arabinogalactan.   Appl. Environ. Microbiol.   2014 -5 -20   80(15)   4577-84   24837371   10.1128/AEM.00802-14  
General Microbes   JCM 7017, JCM 7019   34277   Egan M, O'Connell Motherway M, Ventura M, van Sinderen D.   Metabolism of sialic acid by Bifidobacterium breve UCC2003.   Appl. Environ. Microbiol.   2014 -5 -13   80(14)   4414-26   24814790   10.1128/AEM.01114-14  
Prokaryotes E. coli   JE6886(G1), JE6887(G2), JE5544(G3), JE597...   35657   Winkler JD, Garcia C, Olson M, Callaway E, Kao KC.   Evolved osmotolerant Escherichia coli mutants frequently exhibit defective N-acetylglucosamine catabolism and point mutations in cell shape-regulating protein MreB.   Appl. Environ. Microbiol.   2014 -4 -15   80(12)   3729-40   24727267   10.1128/AEM.00499-14  
Yeast     35131   Sugiyama M, Akase SP, Nakanishi R, Horie H, Kaneko Y, Harashima S.   Nuclear localization of Haa1, which is linked to its phosphorylation status, mediates lactic acid tolerance in Saccharomyces cerevisiae.   Appl. Environ. Microbiol.   2014 -4 -1   80(11)   3488-95   24682296   10.1128/AEM.04241-13  
General Microbes   JCM 19165   34113   Doi Y, Shimizu M, Fujita T, Nakamura A, Takizawa N, Takaya N.   Achromobacter denitrificans strain YD35 pyruvate dehydrogenase controls NADH production to allow tolerance to extremely high nitrite levels.   Appl. Environ. Microbiol.   2014 -1 -15   80(6)   1910-8   24413603   10.1128/AEM.03316-13  
General Microbes   JCM 11833   34093   Cao Y, Li J, Jiang N, Dong X.   Mechanism for stabilizing mRNAs involved in methanol-dependent methanogenesis of cold-adaptive Methanosarcina mazei zm-15.   Appl. Environ. Microbiol.   2013 -12 -10   80(4)   1291-8   24317083   10.1128/AEM.03495-13  
General Microbes   JCM 1090, JCM 1236, JCM 1237, JCM 1677,...   34061   Shintani M, Matsui K, Inoue J, Hosoyama A, Ohji S, Yamazoe A, Nojiri H, Kimbara K, Ohkuma M.   Single-cell analyses revealed transfer ranges of IncP-1, IncP-7, and IncP-9 plasmids in a soil bacterial community.   Appl. Environ. Microbiol.   2013 -10 -22   80(1)   138-45   24141122   10.1128/AEM.02571-13  
General Microbes   JCM 5810   29462   Ramachandran P, Lacher DW, Pfeiler EA, Elkins CA.   Development of a tiered multilocus sequence typing scheme for members of the Lactobacillus acidophilus complex.   Appl. Environ. Microbiol.   2013 -9 -17   79(23)   7220-8   24038697   10.1128/AEM.02257-13  
General Microbes   JCM 7017, JCM 7019   29414   O'Connell KJ, O'Connell Motherway M, O'Callaghan J, Fitzgerald GF, Ross RP, Ventura M, Stanton C, van Sinderen D.   Metabolism of four α-glycosidic linkage-containing oligosaccharides by Bifidobacterium breve UCC2003.   Appl. Environ. Microbiol.   2013 -8 -6   79(20)   6280-92   23913435   10.1128/AEM.01775-13  
General Microbes   JCM 7017, JCM 7019, JCM 7020, JCM 10602   29398   Ruiz-Moyano S, Totten SM, Garrido DA, Smilowitz JT, German JB, Lebrilla CB, Mills DA.   Variation in consumption of human milk oligosaccharides by infant gut-associated strains of Bifidobacterium breve.   Appl. Environ. Microbiol.   2013 -7 -31   79(19)   6040-9   23892749   10.1128/AEM.01843-13  
General Microbes   JCM 18545   27489   Kato S, Chan C, Itoh T, Ohkuma M.   Functional gene analysis of freshwater iron-rich flocs at circumneutral pH and isolation of a stalk-forming microaerophilic iron-oxidizing bacterium.   Appl. Environ. Microbiol.   2013 -7 -3   79(17)   5283-90   23811518   10.1128/AEM.03840-12  
Prokaryotes E. coli   ASKA collection   35614   Reyes LH, Abdelaal AS, Kao KC.   Genetic determinants for n-butanol tolerance in evolved Escherichia coli mutants: cross adaptation and antagonistic pleiotropy between n-butanol and other stressors.   Appl. Environ. Microbiol.   2013 -7 -3   79(17)   5313-20   23811509   10.1128/AEM.01703-13  
General Microbes   JCM 9974, JCM 10545, JCM 11548   27488   Suzuki H, Yoshida K, Ohshima T.   Polysaccharide-degrading thermophiles generated by heterologous gene expression in Geobacillus kaustophilus HTA426.   Appl. Environ. Microbiol.   2013 -6 -25   79(17)   5151-8   23793634   10.1128/AEM.01506-13  
General Microbes   JCM 12378   27487   Manzella MP, Reguera G, Kashefi K.   Extracellular electron transfer to Fe(III) oxides by the hyperthermophilic archaeon Geoglobus ahangari via a direct contact mechanism.   Appl. Environ. Microbiol.   2013 -6 -4   79(15)   4694-700   23728807   10.1128/AEM.01566-13  
Prokaryotes E. coli   ME9062(BW25113), JW0698-KC, JW1625-KC, JW...   35556   Gayán E, Mañas P, Álvarez I, Condón S.   Mechanism of the synergistic inactivation of Escherichia coli by UV-C light at mild temperatures.   Appl. Environ. Microbiol.   2013 -5 -21   79(14)   4465-73   23686270   10.1128/AEM.00623-13  
Yeast   BYP7570, BYP7573   27879   Moriguchi K, Edahiro N, Yamamoto S, Tanaka K, Kurata N, Suzuki K.   Transkingdom genetic transfer from Escherichia coli to Saccharomyces cerevisiae as a simple gene introduction tool.   Appl. Environ. Microbiol.   2013 -5 -15   79(14)   4393-400   23666333   10.1128/AEM.00770-13  
Prokaryotes E. coli, Yeast   ME8568(HB101), BYP560(pRS314), BYP561(pRS31...   35598   Moriguchi K, Edahiro N, Yamamoto S, Tanaka K, Kurata N, Suzuki K.   Transkingdom genetic transfer from Escherichia coli to Saccharomyces cerevisiae as a simple gene introduction tool.   Appl. Environ. Microbiol.   2013 -5 -15   79(14)   4393-400   23666333   10.1128/AEM.00770-13  
General Microbes   JCM 16307   27486   Gorlas A, Krupovic M, Forterre P, Geslin C.   Living side by side with a virus: characterization of two novel plasmids from Thermococcus prieurii, a host for the spindle-shaped virus TPV1.   Appl. Environ. Microbiol.   2013 -4 -16   79(12)   3822-8   23584787   10.1128/AEM.00525-13  
Prokaryotes E. coli   ME7986(MG1655)   35609   Van der Heiden E, Delmarcelle M, Lebrun S, Freichels R, Brans A, Vastenavond CM, Galleni M, Joris B.   A pathway closely related to the (D)-tagatose pathway of gram-negative enterobacteria identified in the gram-positive bacterium Bacillus licheniformis.   Appl. Environ. Microbiol.   2013 -3 -26   79(11)   3511-5   23524682   10.1128/AEM.03918-12  
General Microbes   JCM 1131   27485   Shiraishi T, Yokota S, Morita N, Fukiya S, Tomita S, Tanaka N, Okada S, Yokota A.   Characterization of a Lactobacillus gasseri JCM 1131T lipoteichoic acid with a novel glycolipid anchor structure.   Appl. Environ. Microbiol.   2013 -3 -19   79(10)   3315-8   23503311   10.1128/AEM.00243-13  
General Microbes   JCM 1290, JCM 1652, JCM 2013, JCM 2529,...   27484   Ishii S, Segawa T, Okabe S.   Simultaneous quantification of multiple food- and waterborne pathogens by use of microfluidic quantitative PCR.   Appl. Environ. Microbiol.   2013 -2 -26   79(9)   2891-8   23435884   10.1128/AEM.00205-13  
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