Microbial Biotechnology

Cover image for Vol. 8 Issue 2

Early View (Online Version of Record published before inclusion in an issue)

Edited By: Kenneth N. Timmis, Juan Luis Ramos, Willem de Vos, Willy Verstraete, Siegfried E. Vlaeminck, and Martin Rosenberg

Impact Factor: 3.023

ISI Journal Citation Reports © Ranking: 2013: 40/119 (Microbiology); 47/165 (Biotechnology & Applied Microbiology)

Online ISSN: 1751-7915

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  1. 1 - 29
  1. Research Articles

    1. You have full text access to this OnlineOpen article
      Development of bioelectrocatalytic activity stimulates mixed-culture reduction of glycerol in a bioelectrochemical system

      Mi Zhou, Stefano Freguia, Paul G. Dennis, Jürg Keller and Korneel Rabaey

      Article first published online: 26 MAR 2015 | DOI: 10.1111/1751-7915.12240

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      High current density drives glycerol conversion to 1,3-propanediol whereas low current density leads to VFAs formation. Voltammetric analysis shows catalytic activity of cathode associated bacteria linked to glycerol consumption. On the long term the activity deteriorates and hydrogen becomes the main sink.

    2. You have full text access to this OnlineOpen article
      Four-stage dissolved oxygen strategy based on multi-scale analysis for improving spinosad yield by Saccharopolyspora spinosa ATCC49460

      Yun Bai, Peng-Peng Zhou, Pei Fan, Yuan-Min Zhu, Yao Tong, Hong-bo Wang and Long-Jiang Yu

      Article first published online: 26 MAR 2015 | DOI: 10.1111/1751-7915.12264

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      We provide a model of four-stage dissolved oxygen strategy which based on multi-scale analysis for improving spinosad yield by Saccharopolyspora spinosa ATCC49460,The proposed method provides a novel way to develop a precise DO strategy for fermentation.

    3. You have full text access to this OnlineOpen article
      Inoculum selection influences the biochemical methane potential of agro-industrial substrates

      Jo De Vrieze, Linde Raport, Bernard Willems, Silke Verbrugge, Eveline Volcke, Erik Meers, Largus T. Angenent and Nico Boon

      Article first published online: 10 MAR 2015 | DOI: 10.1111/1751-7915.12268

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      In this research the specific contribution of the methanogenic community on the BMP test results was evaluated. A significant effect of the selected inoculum on the BMP result was observed for two out of four substrates. This inoculum effect could be attributed to the abundance of methanogens and a potential inhibiting effect in the inoculum itself, demonstrating the importance of inoculum selection for BMP testing.

    4. You have full text access to this OnlineOpen article
      Exploring ComQXPA quorum-sensing diversity and biocontrol potential of Bacillus spp. isolates from tomato rhizoplane

      A. Oslizlo, P. Stefanic, S. Vatovec, S. Beigot Glaser, M. Rupnik and I. Mandic-Mulec

      Article first published online: 10 MAR 2015 | DOI: 10.1111/1751-7915.12258

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      This study reveals that Bacillus subtilis strains representing at least three distinct quorum sensing groups can coexists within a rhizoplane of a single plant and that they can show remarkable diversity of social traits involved in plant growth promotion (e.g. surfactin secretion, which is directly regulated by ComQXPA). This opens up many new ecological and evolutionary questions about the origin of such phenotypic diversity within the species, its evolutionary role, and its influence on stable coexistence and biocontrol performance of rhizoplane communities.

    5. You have full text access to this OnlineOpen article
      Environmental factors influencing the distribution of ammonifying and denitrifying bacteria and water qualities in 10 lakes and reservoirs of the Northeast, China

      XinYu Zhao, Zimin Wei, Yue Zhao, Beidou Xi, Xueqin Wang, Taozhi Zhao, Xu Zhang and Yuquan Wei

      Article first published online: 10 MAR 2015 | DOI: 10.1111/1751-7915.12260

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      ● Seasonal variation could influence the amount of the ammonifying and denitrifying bacteria in the investigated reservoirs.● Corresponding nitrogen compounds associated with distribution of ammonifying and denitrifying bacteria closely.● We researched the relationship between physical and chemical indicators and distribution of ammonifying and denitrifying bacteria levels among ten reservoirs.

    6. You have full text access to this OnlineOpen article
      Overexpression and optimization of glutamate decarboxylase in Lactobacillus plantarum Taj-Apis362 for high gamma-aminobutyric acid production

      Naser Tajabadi, Ali Baradaran, Afshin Ebrahimpour, Raha A. Rahim, Fatimah A. Bakar, Mohd Yazid A. Manap, Abdulkarim S. Mohammed and Nazamid Saari

      Article first published online: 10 MAR 2015 | DOI: 10.1111/1751-7915.12254

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      A full-length GAD gene was obtained by cloning the template DNA to pTZ57R/T vector. To improve the GABA-production, the GAD gene was cloned into pMG36e-LbGAD, and then expressed in Lactobacillus plantarum Taj-Apis362 cells. The over-expression was confirmed by SDS-PAGE and GAD activity, showing a 53 KDa protein with the enzyme activity increased by 7 folds compared to the original GAD activity.The optimal fermentation conditions for GABA production established using response surface methodology

    7. You have full text access to this OnlineOpen article
      The application of nitric oxide to control biofouling of membrane bioreactors

      Jinxue Luo, Jinsong Zhang, Robert J. Barnes, Xiaohui Tan, Diane McDougald, Anthony G. Fane, Guoqiang Zhuang, Staffan Kjelleberg, Yehuda Cohen and Scott A. Rice

      Article first published online: 6 MAR 2015 | DOI: 10.1111/1751-7915.12261

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      Nitric oxide (NO) has been shown to induce biofilm dispersal, through a non-toxic, signal mediated regulatory cascade. Here, we demonstrate that NO can prevent biofilm formation, biofouling, of membrane bioreactors (MBRs). Therefore, NO may improve MBR performance by controlling biofilm formation of a complex community.

    8. You have full text access to this OnlineOpen article
      Responses in gut microbiota and fat metabolism to a halogenated methane analogue in Sprague Dawley rats

      Yong Su, Yu-Heng Luo, Ling-Li Zhang, Hauke Smidt and Wei-Yun Zhu

      Article first published online: 6 MAR 2015 | DOI: 10.1111/1751-7915.12256

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      BCM treatment significantly reduced the fecal methanogen populations with no effect on the bacterial community and this effect was coupled with the change of fat metabolism in the rat as revealed by blood parameters and fat metabolism related gene expression.

    9. You have full text access to this OnlineOpen article
      Mesophilic versus thermophilic anaerobic digestion of cattle manure: methane productivity and microbial ecology

      Veronica Moset, Morten Poulsen, Radziah Wahid, Ole Højberg and Henrik Bjarne Møller

      Article first published online: 4 MAR 2015 | DOI: 10.1111/1751-7915.12271

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      Stable thermophilic and mesophilic anaerobic digestion of cattle manure has been evaluated in terms of physicochemical, microbiological and environmental criteria as well as productivity.Thermophilic anaerobic digestion showed higher organic matter degradation (especially fiber), higher methane yield and better percentage of ultimate methane yield retrieved and therefore lower residual CH4 emission. In addition, lower microbial diversity was found in the thermophilic reactors, especially for Bacteria, where a clear intensification towards Clostridia class members was evident.

    10. You have full text access to this OnlineOpen article
      Characterization of wheat straw-degrading anaerobic alkali-tolerant mixed cultures from soda lake sediments by molecular and cultivation techniques

      Katharina Porsch, Balázs Wirth, Erika M. Tóth, Florian Schattenberg and Marcell Nikolausz

      Article first published online: 4 MAR 2015 | DOI: 10.1111/1751-7915.12272

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      Three mixed anaerobic, lignocellulolytic cultures were enriched from sediments of two soda lakes with wheat straw as substrate under alkaline conditions. The physiological behavior and the microbial community structure of the cultures were stable even after several transfers, including effective straw degradation and stable biogas production. The microbial community structure and a bacteria isolation approach is described in this study.

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      A lithotrophic microbial fuel cell operated with pseudomonads-dominated iron-oxidizing bacteria enriched at the anode

      Thuy Thu Nguyen, Tha Thanh Thi Luong, Phuong Hoang Nguyen Tran, Ha Thi Viet Bui, Huy Quang Nguyen, Hang Thuy Dinh, Byung Hong Kim and Hai The Pham

      Article first published online: 25 FEB 2015 | DOI: 10.1111/1751-7915.12267

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      In this study, we attempted to enrich neutrophilic iron bacteria in a microbial fuel cell (MFC) typed reactor in order to develop a lithotrophic MFC system that can utilize ferrous iron as an inorganic electron donor and operate at neutral pHs. Our results proved the successful development of such a lithotrophic MFC system with iron bacteria enriched at its anode and suggest a chemolithotrophic anode reaction involving some Pseudomonas species as key players in such a system. The system potentially offers unique applications, such as accelerated bioremediation or on-site bio-detection of iron and/or manganese in water samples.

    12. You have full text access to this OnlineOpen article
      Dynamic variation of the microbial community structure during the long-time mono-fermentation of maize and sugar beet silage

      Johanna Klang, Susanne Theuerl, Ulrich Szewzyk, Markus Huth, Rainer Tölle and Michael Klocke

      Article first published online: 25 FEB 2015 | DOI: 10.1111/1751-7915.12263

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      Structure of the archaeal community involved in the biomethanation process of the maize silage (A) and sugar beet silage (B). Shown is the relative abundance of the detected terminal restriction fragments (TRFs) as a function of the percental fluorescence intensity of each individual TRF in relation to the total fluorescence intensity.

    13. You have full text access to this OnlineOpen article
      Hfq regulates antibacterial antibiotic biosynthesis and extracellular lytic-enzyme production in Lysobacter enzymogenes OH11

      Gaoge Xu, Yuxin Zhao, Liangcheng Du, Guoliang Qian and Fengquan Liu

      Article first published online: 13 FEB 2015 | DOI: 10.1111/1751-7915.12246

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      The regulation of hfq in extracellular chitinase production was in part through the impairment of the secretion of chitinase A.

    14. You have full text access to this OnlineOpen article
      Culture-dependent and culture-independent characterization of potentially functional biphenyl-degrading bacterial community in response to extracellular organic matter from Micrococcus luteus

      Xiao-Mei Su, Yin-Dong Liu, Muhammad Zaffar Hashmi, Lin-Xian Ding and Chao-Feng Shen

      Article first published online: 12 FEB 2015 | DOI: 10.1111/1751-7915.12266

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      This research paper highlights the application of an innovative method based on extracellular organic matter (EOM) from Micrococcus luteus for enhancing biphenyl-degrading capability in PCB-contaminated sediment. It also investigates the effects of EOM on the bacterial composition of the PCB-contaminated sediment, and explains how the bacterial composition is correlated to biphenyl biodegradation capability. Results suggest that EOM significantly enhanced the biphenyl biodegradation capability, which could be attributed to enrichment of some potentially difficult-to-culture biphenyl/PCB-degraders. Given the worldwide concerns about PCB contamination, EOM from M. luteus as an additive holds great potential for the efficient bioremediation of PCB-contaminated environment.

  2. Minireview

    1. You have full text access to this OnlineOpen article
      Genetic characterization of caffeine degradation by bacteria and its potential applications

      Ryan M. Summers, Sujit K. Mohanty, Sridhar Gopishetty and Mani Subramanian

      Article first published online: 12 FEB 2015 | DOI: 10.1111/1751-7915.12262

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      This review article discusses the recent discoveries of the genes responsible for bacterial caffeine degradation via two distinct pathways, N-demethylation and C-8 oxidation. All of the genes for the N-demethylation pathway reside on 13.2-kb genomic DNA fragment found in Pseudomonas putida CBB5 and a nearly identical DNA fragment, with homologous genes in similar orientation, is found in Pseudomonas sp. CES. Similarly, genes for C-8 oxidation of caffeine have been located on a 25.2-kb genomic DNA fragment of Pseudomonas sp. CBB1. Various biotechnological applications of these genes responsible for bacterial caffeine degradation, including bio-decaffeination, remediation of caffeine-contaminated environments, production of chemical and fuels, and development of diagnostic tests have also been demonstrated.

  3. Research Articles

    1. You have full text access to this OnlineOpen article
      Absence of lysogeny in wild populations of Erwinia amylovora and Pantoea agglomerans

      Dwayne R. Roach, David R. Sjaarda, Calvin P. Sjaarda, Carlos Juarez Ayala, Brittany Howcroft, Alan J. Castle and Antonet M. Svircev

      Article first published online: 12 FEB 2015 | DOI: 10.1111/1751-7915.12253

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      The extent of lysogeny was estimated in wild populations of Erwinia amylovora and Pantoea agglomerans. P. agglomerans is being used as a carrier for bacteriophages for the control of fire blight in the orchard. While lysogeny is possible in the laboratory, it is rare or absent in natural populations. There is a minimal risk of lysogenic conversion and transduction by Erwinia spp. phages.

  4. Opinion

    1. You have full text access to this OnlineOpen article
      Integrated omics for the identification of key functionalities in biological wastewater treatment microbial communities

      Shaman Narayanasamy, Emilie E. L. Muller, Abdul R. Sheik and Paul Wilmes

      Article first published online: 12 FEB 2015 | DOI: 10.1111/1751-7915.12255

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      The path from large-scale integrated omics to hypothesis testing and biotechnological application in the context of biological wastewater treatment

  5. Research Articles

    1. You have full text access to this OnlineOpen article
      A novel strain of Cellulosimicrobium funkei can biologically detoxify aflatoxin B1 in ducklings

      Lv-Hui Sun, Ni-Ya Zhang, Ran-Ran Sun, Xin Gao, Changqin Gu, Christopher Steven Krumm and De-Sheng Qi

      Article first published online: 23 JAN 2015 | DOI: 10.1111/1751-7915.12244

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      A novel strain of Cellulosimicrobium funkei isolated from soli showed aflatoxin B1 biodegradation ability in vitro. Moreover, C. funkei could be used to mitigate the negative effects of aflatoxicosis in ducklings. These findings suggest that the use of C. funkei in AFB1-contaminated feed offers a new strategy to reduce the adverse effects of aflatoxicosis in ducklings.

    2. You have full text access to this OnlineOpen article
      Detection and evolutionary analysis of picobirnaviruses in treated wastewater

      Shiwei Zhang, Ru Bai, Run Feng, Hongxun Zhang and Lixin Liu

      Article first published online: 27 DEC 2014 | DOI: 10.1111/1751-7915.12239

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      we examined picobirnaviruses (PBVs) from a wastewater treatment plant in China and submitted a total of 139 sequences to the GenBank. our paper indicated the PBVs presented high sequence diversity than that expected. And a new group of PBVs, including 21 sequences (group 4), was identified.

    3. You have full text access to this OnlineOpen article
      Pathogenic and commensal Escherichia coli from irrigation water show potential in transmission of extended spectrum and AmpC β-lactamases determinants to isolates from lettuce

      Patrick M. K. Njage and Elna M. Buys

      Article first published online: 9 DEC 2014 | DOI: 10.1111/1751-7915.12234

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      The role of the production environment in ESBL/AmpC gene transmission is poorly understood. The occurrence of ESBL/AmpC in E. coli from lettuce and irrigation water and the role of irrigation water in the transmission of resistant E. coli were studied. The presence of ESBL/AmpC, genetic similarity and phylogeny were typed using genotypic and phenotypic techniques. The frequency of β-lactamase gene transfer was studied in vitro. A high degree of genetic relatedness between E. coli from irrigation water and lettuce indicated possible common ancestry and pathway of transmission.

    4. You have full text access to this OnlineOpen article
      Use of lectins to in situ visualize glycoconjugates of extracellular polymeric substances in acidophilic archaeal biofilms

      R. Y. Zhang, T. R. Neu, S. Bellenberg, U. Kuhlicke, W. Sand and M. Vera

      Article first published online: 9 DEC 2014 | DOI: 10.1111/1751-7915.12188

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      Our article describes the first high-throughput screening of the presence of glycoconjugates in meso-and thermoacidophilic archaeal species on relevant surfaces by using fluorescently labeled lectin binding assays (FLBA) and confocal laser scanning microscopy (CLSM).

    5. You have full text access to this OnlineOpen article
      Functional and structural diversity in GH62 α-L-arabinofuranosidases from the thermophilic fungus Scytalidium thermophilum

      Amrit Pal Kaur, Boguslaw P. Nocek, Xiaohui Xu, Michael J. Lowden, Juan Francisco Leyva, Peter J. Stogios, Hong Cui, Rosa Di Leo, Justin Powlowski, Adrian Tsang and Alexei Savchenko

      Article first published online: 29 SEP 2014 | DOI: 10.1111/1751-7915.12168

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      This article describes the expression, structural and functional characterization of three GH62 alpha-L-arabinofuranosidases from a thermophilic fungus Scytalidium thermophilum. Phylogenetic, structural and sequence comparison between two subfamilies of GH62 enzymes revealed their distinct phylogenetic origin and adaptable mode of substrate binding.

    6. You have full text access to this OnlineOpen article
      Biogas production using anaerobic groundwater containing a subterranean microbial community associated with the accretionary prism

      Kyohei Baito, Satomi Imai, Makoto Matsushita, Miku Otani, Yu Sato and Hiroyuki Kimura

      Article first published online: 29 SEP 2014 | DOI: 10.1111/1751-7915.12179

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      A novel biogas production system that combines the bioreactors for producing CH4 and H2 and a natural subterranean methane reactor in a deep aquifer associated with an accretionary prism.

    7. You have full text access to this OnlineOpen article
      Generalist hydrocarbon-degrading bacterial communities in the oil-polluted water column of the North Sea

      Panagiota-Myrsini Chronopoulou, Gbemisola O. Sanni, Daniel I. Silas-Olu, Jan Roelof van der Meer, Kenneth N. Timmis, Corina P. D. Brussaard and Terry J. McGenity

      Article first published online: 24 SEP 2014 | DOI: 10.1111/1751-7915.12176

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      A permitted release of light crude oil into the North Sea resulted in no change in bacterial community composition 3 m beneath the spill. In contrast, there was a decrease in the dominant SAR11 phylotype and an increase in Pseudoalteromonas spp. in oiled mesocosms on board the ship (simulating a heavy spill in a harbour), as a consequence of the longer incubation, closer proximity of the samples to oil, and the lack of replenishment with seawater. Pseudoalteromonas spp. were enriched in media with hydrocarbons, whereas obligate hydrocarbonclastic bacteria were not; suggesting that generalist oil-degrading bacteria may be important in the water column beneath an oil slick.

    8. You have full text access to this OnlineOpen article
      Biocontrol and plant growth-promoting activity of rhizobacteria from Chinese fields with contaminated soils

      Xuefei Wang, Dmitri V. Mavrodi, Linfeng Ke, Olga V. Mavrodi, Mingming Yang, Linda S. Thomashow, Na Zheng, David M. Weller and Jibin Zhang

      Article first published online: 15 SEP 2014 | DOI: 10.1111/1751-7915.12158

      Growth-promoting rhizobacteria in polluted soils

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      Cytometric patterns reveal growth states of Shewanella putrefaciens

      Susanne Melzer, Gudrun Winter, Kathrin Jäger, Thomas Hübschmann, Gerd Hause, Frank Syrowatka, Hauke Harms, Attila Tárnok and Susann Müller

      Article first published online: 3 SEP 2014 | DOI: 10.1111/1751-7915.12154

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      Growth states of Shewanella putrefaciens can be followed and interpreted using flow cytometry and new bioinformatics tools. The results allow a fingerprint like description of the strains behavior under various mirco-environments like aerobic and anaerobic as well as feast or famine conditions or the strains planktonic or biofilm growth. The developed workflow is universal and can be applied to other organisms and environments.

  6. Brief Reports

    1. You have full text access to this OnlineOpen article
      Compositional profile of α / β-hydrolase fold proteins in mangrove soil metagenomes: prevalence of epoxide hydrolases and haloalkane dehalogenases in oil-contaminated sites

      Diego Javier Jiménez, Francisco Dini-Andreote, Júlia Ronzella Ottoni, Valéria Maia de Oliveira, Jan Dirk van Elsas and Fernando Dini Andreote

      Article first published online: 29 AUG 2014 | DOI: 10.1111/1751-7915.12157

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      We present an bioprospection report regarding the diversity of α/β-hydrolases-fold proteins in mangrove soil metagenomes. We highlight for the prevalence of epoxide hydrolases and haloalkane dehalogenases.

  7. Minireview

    1. You have full text access to this OnlineOpen article
      Fungal biosynthesis of gold nanoparticles: mechanism and scale up

      Michael Kitching, Meghana Ramani and Enrico Marsili

      Article first published online: 26 AUG 2014 | DOI: 10.1111/1751-7915.12151

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      Recent studies on AuNPs biosynthesis in fungi are comprehensively reviewed.The mechanisms of AuNPs biosynthesis in fungal biomass and cell-free extracts are critically discussedBioreactors configurations and method for scale-up of AuNP biosynthesis are proposed

  8. Research Articles

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      A refined technique for extraction of extracellular matrices from bacterial biofilms and its applicability

      Akio Chiba, Shinya Sugimoto, Fumiya Sato, Seiji Hori and Yoshimitsu Mizunoe

      Article first published online: 23 AUG 2014 | DOI: 10.1111/1751-7915.12155

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      Graphical image of bacterial cells embedded in ECMs. ECM components including proteins, polysaccharides, and eDNAs can bind to bacterial cells or each other via electrostatic attractive forces, ionic attractive forces, hydrophobic interactions and van der Waals interactions. Increasing concentrations of salts and detergents (e.g., NaCl and SDS) potentially disrupt these interactions by coating cell surfaces and ECM constituents and therefore lead to detachment of ECMs from the cells.

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