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- Author:
- Jeanjean, Robert; Talla, Emmanuel; Latifi, Amel; Havaux, Michel; Janicki, Annick; Zhang, Cheng-Cai
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2574-2585
- ISSN:
- 1462-2912
- Subject:
- Anabaena; chromosomes; iron; ligases; multigene family; mutants; oxidative stress; polyketide synthases; secondary metabolites; siderophores; stress response
- Abstract:
- ... Non-ribosomal peptide synthetases (NRPSs) and polyketide synthases (PKSs) are necessary for the production of a variety of secondary metabolites, such as siderophores involved in iron acquisition. In response to iron limitation, the cyanobacterium Anabaena sp. strain PCC 7120 synthesizes several siderophores. The chromosome of this organism contains a large gene cluster of 76 kb with 24 open-readi ...
- DOI:
- 10.1111/j.1462-2920.2008.01680.x
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01680.x
- Author:
- Gordon, David M.; Clermont, Olivier; Tolley, Heather; Denamur, Erick
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2484-2496
- ISSN:
- 1462-2912
- Subject:
- DNA; Escherichia coli; algorithms; genes; genotype; life history; niches; nucleotide sequences; phylogeny; polymerase chain reaction
- Abstract:
- ... It is well recognized that Escherichia coli consists of a number of distinct phylo-groups and that strains of the different phylo-groups vary in their ecological niches, life-history characteristics and propensity to cause disease. Consequently, much can be learnt by assigning a strain of E. coli to one of the recognized phylo-groups. A triplex PCR-based method that enables strains of E. coli to b ...
- DOI:
- 10.1111/j.1462-2920.2008.01669.x
- PubMed:
- 18518895
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01669.x
- Author:
- Thomas, Vincent; Loret, Jean-François; Jousset, Michel; Greub, Gilbert
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2728-2745
- ISSN:
- 1462-2912
- Subject:
- Acanthamoeba castellanii; Legionella; Mycobacterium mucogenicum; Parachlamydia acanthamoebae; activated carbon; bacteria; biodiversity; biofilm; coculture; disinfection; drinking water; filters; filtration; hosts; ozonation; risk reduction; river water; rivers; sand; water treatment
- Abstract:
- ... The complex ecology of free-living amoebae (FLA) and their role in spreading pathogenic microorganisms through water systems have recently raised considerable interest. In this study, we investigated the presence of FLA and amoebae-resisting bacteria (ARB) at various stages of a drinking water plant fed with river water. We isolated various amoebal species from the river and from several points wi ...
- DOI:
- 10.1111/j.1462-2920.2008.01693.x
- PubMed:
- 18637950
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01693.x
- Author:
- Pirone, Luisa; Bragonzi, Alessandra; Farcomeni, Alessio; Paroni, Moira; Auriche, Cristina; Conese, Massimo; Chiarini, Luigi; Dalmastri, Claudia; Bevivino, Annamaria; Ascenzioni, Fiorentina
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2773-2784
- ISSN:
- 1462-2912
- Subject:
- Burkholderia; DNA; amidase; cystic fibrosis; epithelial cells; genes; lungs; mice; microbial load; models; mortality; patients; rhizosphere; virulence
- Abstract:
- ... Given the widespread presence of Burkholderia cenocepacia in the rhizosphere it is important to determine whether rhizosphere strains are pathogenic for cystic fibrosis patients or not. Eighteen B. cenocepacia strains of rhizosphere and clinical origin were typed by multi-locus sequence typing (MLST) analysis and compared for their ability to invade pulmonary epithelial cells and their virulence i ...
- DOI:
- 10.1111/j.1462-2920.2008.01697.x
- PubMed:
- 18643926
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01697.x
- Author:
- Fazi, Stefano; Amalfitano, Stefano; Piccini, Claudia; Zoppini, Annamaria; Puddu, Alberto; Pernthaler, Jakob
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2760-2772
- ISSN:
- 1462-2912
- Subject:
- Actinobacteria; Brevundimonas; Caulobacter; DNA; alkaline phosphatase; bacteria; community structure; enzyme activity; microbial activity; nucleotide sequences; plankton; predation; ribosomal RNA; rivers; sediments; sequence analysis; Italy; Sardinia
- Abstract:
- ... We studied the diversity, community composition and activity of the primary microbial colonizers of the water above freshly re-wetted sediments from a temporary river. Dried sediments, collected from Mulargia River (Sardinia, Italy), were covered with sterile freshwater in triplicate microcosms, and changes of the planktonic microbial assemblage were monitored over a 48 h period. During the first ...
- DOI:
- 10.1111/j.1462-2920.2008.01695.x
- PubMed:
- 18643927
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01695.x
- Author:
- Putrinš, Marta; Ilves, Heili; Kivisaar, Maia; Hõrak, Rita
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2886-2893
- ISSN:
- 1462-2912
- Subject:
- DNA; Pseudomonas putida; bacteria; carbon; cell membranes; flow cytometry; glucose; iodides; membrane permeability; mutants; proteins; Republic of the Congo
- Abstract:
- ... ColRS two-component system is well conserved in pseudomonads, but its exact role has remained obscure. Here, we report that Pseudomonas putida deficient in ColR experiences serious carbon source-specific stress that leads to the lysis of a subpopulation of bacteria growing on solid glucose medium. We observed that on glucose medium colR-deficient bacteria aggregated, produced a Congo Red-binding s ...
- DOI:
- 10.1111/j.1462-2920.2008.01705.x
- PubMed:
- 18657172
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01705.x
- Author:
- Quaiser, Achim; López-García, Purificación; Zivanovic, Yvan; Henn, Matthew R.; Rodriguez-Valera, Francisco; Moreira, David
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2704-2717
- ISSN:
- 1462-2912
- Subject:
- Acidobacteria; ecosystems; genomic libraries; microbial communities; open reading frames; operon; plankton; soil; soil sequences
- Abstract:
- ... Acidobacteria constitute a still poorly studied phylum that is well represented in soils. Recent studies suggest that members of this phylum may be also abundant in deep-sea plankton, but their relative abundance and ecological role in this ecosystem are completely unknown. A recent screening of three metagenomic deep-sea libraries of bathypelagic plankton from the South Atlantic (1000 m depth), t ...
- DOI:
- 10.1111/j.1462-2920.2008.01691.x
- PubMed:
- 18627413
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01691.x
- Author:
- Zheng, Guili; Wang, Cynthia; Williams, Henry N.; Pineiro, Silvia A.
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2515-2526
- ISSN:
- 1462-2912
- Subject:
- Bacteriovorax; Gram-negative bacteria; detection limit; genes; nucleotide sequences; paper; polymerase chain reaction; population distribution; population dynamics; quantitative analysis; reproduction; ribosomal DNA; ribosomal RNA; saline water
- Abstract:
- ... Bdellovibrio-and-like-organisms (BALOs) are small, Gram-negative predatory bacteria with the ability to prey on a wide variety of Gram-negative bacteria, and which may have a significant ecological role. Detection and quantification of BALOs by culture-dependent methods are complicated, as their reproduction is dependent upon the use of appropriate prey. For this reason, a sensitive and specific m ...
- DOI:
- 10.1111/j.1462-2920.2008.01676.x
- PubMed:
- 18631362
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01676.x
- Author:
- Yishay, Moran; Burdman, Saul; Valverde, Angel; Luzzatto, Tal; Ophir, Ron; Yedidia, Iris
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2746-2759
- ISSN:
- 1462-2912
- Subject:
- Brassica oleracea; Geographical Locations; Ornithogalum; Pectobacterium carotovorum subsp. carotovorum; Solanum tuberosum; Zantedeschia aethiopica; amplified fragment length polymorphism; genetic variation; hosts; nucleotide sequences; ornamental plants; pathogens; ribosomal RNA; virulence
- Abstract:
- ... The capability of Pectobacterium carotovorum isolates to infect monocotyledonous plants has been previously reported; however, no full consideration was given to characterize the association between such isolates and their monocot hosts. To assess differences in aggressiveness among P. carotovorum ssp. carotovorum isolates originating from monocotyledonous or dicotyledonous plants, we used as mode ...
- DOI:
- 10.1111/j.1462-2920.2008.01694.x
- PubMed:
- 18681897
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01694.x
- Author:
- Shalchian-Tabrizi, Kamran; Bråte, Jon; Logares, Ramiro; Klaveness, Dag; Berney, Cédric; Jakobsen, Kjetill S.
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2635-2644
- ISSN:
- 1462-2912
- Subject:
- Cryptomonas; eukaryotic cells; freshwater; habitats; history; nucleotide sequences; phylogeny; ribosomal RNA
- Abstract:
- ... The cryptomonads is a well-defined lineage of unicellular eukaryotes, composed of several marine and freshwater groups. However, the evolutionary relationships among these groups are unclear due to conflicting inferences between morphological and molecular phylogenies. Here, we have inferred the evolutionary relationships among marine and freshwater species in order to better understand the import ...
- DOI:
- 10.1111/j.1462-2920.2008.01685.x
- PubMed:
- 18643928
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01685.x
- Author:
- Wang, Hao-Xin; Geng, Zhao-Liang; Zeng, Ying; Shen, Yue-Mao
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2684-2691
- ISSN:
- 1462-2912
- Subject:
- Actinobacteria; Proteobacteria; biomass; drugs; genes; genomic libraries; host plants; microorganisms; nucleotide sequences; oceans; plant tissues; ribosomal DNA; ribotypes; sequence analysis; sodium chloride; sodium dodecyl sulfate; soil
- Abstract:
- ... Plant microbiota (the microorganisms that live in any associations with plant tissues) represents a rather unexplored area of metagenomic research compared with soils and oceans. Constructing a metagenomic library for plant microbiota is technically challenging. Using all the biomass without pre-enrichment could lead to vast proportions of the host plant DNA in the metagenomic library, doubtless o ...
- DOI:
- 10.1111/j.1462-2920.2008.01689.x
- PubMed:
- 18631363
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01689.x
- Author:
- Bunge, Michael; Wagner, Anke; Fischer, Marco; Andreesen, Jan R.; Lechner, Ute
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2670-2683
- ISSN:
- 1462-2912
- Subject:
- Dehalococcoides; bacteria; dechlorination; electrons; enrichment culture; genes; hexadecane; hydrogen; isolation techniques; methanogens; microscopy; organic acids and salts; polymerase chain reaction; restriction fragment length polymorphism; ribosomal RNA; vancomycin
- Abstract:
- ... Enrichment cultures capable of reductively dechlorinating 1,2,4-trichlorodibenzo-p-dioxin (1,2,4-TrCDD) were shown to dechlorinate 1,2,3-trichlorobenzene (1,2,3-TrCB) to 1,3-dichlorobenzene. To test if this activity can be used to enrich for dioxin-dechlorinating bacteria, a two-liquid phase cultivation with 200 mM 1,2,3-TrCB dissolved in hexadecane was established. During the dechlorination of 1, ...
- DOI:
- 10.1111/j.1462-2920.2008.01688.x
- PubMed:
- 18627411
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01688.x
- Author:
- Peterson, S. Brook; Warnecke, Falk; Madejska, Julita; McMahon, Katherine D.; Hugenholtz, Philip
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2692-2703
- ISSN:
- 1462-2912
- Subject:
- activated sludge; environmental impact; estuarine sediments; freshwater; genes; habitats; metagenomics; phosphates; phosphorus; phylogeny; population distribution; wastewater treatment
- Abstract:
- ... Members of the uncultured bacterial genus Candidatus Accumulibacter are capable of intracellular accumulation of inorganic phosphate in activated sludge wastewater treatment plants (WWTPs) performing enhanced biological phosphorus removal, but were also recently shown to inhabit freshwater and estuarine sediments. Additionally, metagenomic sequencing of two bioreactor cultures enriched in Candidat ...
- DOI:
- 10.1111/j.1462-2920.2008.01690.x
- PubMed:
- 18643843
- PubMed Central:
- PMC2561248
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01690.x
- Author:
- Goffredi, Shana K.; Jones, William J.; Erhlich, Hermann; Springer, Armin; Vrijenhoek, Robert C.
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2623-2634
- ISSN:
- 1462-2912
- Subject:
- Decapoda; bacteria; biogeochemical cycles; crabs; electron microscopy; enzymes; fluorescence microscopy; legs; oxidation; ribotypes; sulfates; sulfur; tricarboxylic acid cycle
- Abstract:
- ... The Yeti crab, Kiwa hirsuta Macpherson et al., is the single known species in a recently discovered crab family Kiwaidae (Decapoda: Galatheoidea) from deep-sea hydrothermal vents. Its chelipeds, walking legs and the ventral surface of its cephalothorax are covered with dense setae that, in turn, are covered with clusters of filamentous bacteria, making the crab appear extraordinarily 'hairy'. Elec ...
- DOI:
- 10.1111/j.1462-2920.2008.01684.x
- PubMed:
- 18564185
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01684.x
- Author:
- Auguet, Jean-Christophe; Borrego, Carles M.; Bañeras, Lluís; Casamayor, Emilio O.
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2527-2536
- ISSN:
- 1462-2912
- Subject:
- Crenarchaeota; DNA fingerprinting; DNA primers; bacteria; biogeochemistry; carbon; carbon dioxide; denaturing gradient gel electrophoresis; ecosystems; enzymes; genes; genetic variation; lakes; mountains; nucleotide sequences; polymerase chain reaction; ribosomal RNA; sequence analysis; surveys
- Abstract:
- ... We designed and tested a set of specific primers for specific PCR amplification of the biotin carboxylase subunit gene (accC) of the Acetyl CoA carboxylase (ACCase) enzyme. The primer set yielded a PCR product of c. 460 bp that was suitable for denaturing gradient gel electrophoresis (DGGE) fingerprinting followed by direct sequencing of excised DGGE bands and sequence analysis. Optimization of PC ...
- DOI:
- 10.1111/j.1462-2920.2008.01677.x
- PubMed:
- 18557770
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01677.x
- Author:
- Wang, Jianjun; Wu, Yucheng; Jiang, Hongchen; Li, Chunhai; Dong, Hailiang; Wu, Qinglong; Soininen, Janne; Shen, Ji
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2537-2549
- ISSN:
- 1462-2912
- Subject:
- bacteria; bacterial communities; community structure; denaturing gradient gel electrophoresis; environmental factors; history; sediments
- Abstract:
- ... While there have been a vast number of studies on bacterial alpha diversity in the shallow terrestrial subsurface, beta diversity - how the bacterial community composition changes with spatial distance - has received surprisingly limited attention. Here, bacterial beta diversity and its controlling factors are investigated by denaturing gradient gel electrophoresis and cloning of samples from a 70 ...
- DOI:
- 10.1111/j.1462-2920.2008.01678.x
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01678.x
- Author:
- Fraune, Sebastian; Zimmer, Martin
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2497-2504
- ISSN:
- 1462-2912
- Subject:
- diet; foods; survival rate; longevity; humans; Isopoda; hosts; symbionts; midgut; phylogeny; host specificity; habitats; pathogens
- Abstract:
- ... Mycoplasms are known as pathogens of economic and medical interest in plants, animals and man. Here, we show a positive correlation between the presence of Mycoplasma-like symbionts in their isopod hosts and survivorship on low-quality food. Most isopods that survived feeding on a cellulose-based low-quality diet for 90 days harboured 'Candidatus Hepatoplasma' in their midgut glands, while those t ...
- DOI:
- 10.1111/j.1462-2920.2008.01672.x
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01672.x
- Author:
- Higes, Mariano; Martín-Hernández, Raquel; Botías, Cristina; Bailón, Encarna Garrido; González-Porto, Amelia V.; Barrios, Laura; del Nozal, M. Jesús; Bernal, José L.; Jiménez, Juan J.; Palencia, Pilar García; Meana, Aránzazu
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2659-2669
- ISSN:
- 1462-2912
- Subject:
- etiology; Apis mellifera; winter; Nosema ceranae; antibiotics; honey bees; Apis cerana; disease control; spring; death; brood rearing; pollen; honey; honey bee colonies
- Abstract:
- ... In recent years, honeybees (Apis mellifera) have been strangely disappearing from their hives, and strong colonies have suddenly become weak and died. The precise aetiology underlying the disappearance of the bees remains a mystery. However, during the same period, Nosema ceranae, a microsporidium of the Asian bee Apis cerana, seems to have colonized A. mellifera, and it's now frequently detected ...
- DOI:
- 10.1111/j.1462-2920.2008.01687.x
- PubMed:
- 18647336
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01687.x
- Author:
- Vogl, Kajetan; Wenter, Roland; Dreßen, Martina; Schlickenrieder, Martina; Plöscher, Matthias; Eichacker, Lutz; Overmann, Jörg
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2842-2856
- ISSN:
- 1462-2912
- Subject:
- gene transfer; proteins; sugars; autoradiography; open reading frames; enzymes; symbiosis; bioinformatics; hybridization; amino acid sequences; Chlorobiales; genes; toxins; tripeptides; bacteria; ethylene glycol tetraacetic acid
- Abstract:
- ... The consortium 'Chlorochromatium aggregatum' currently represents the most highly developed interspecific association between prokaryotes. It consists of green sulfur bacteria, so-called epibionts, which surround a central, motile, chemotrophic bacterium. Four putative symbiosis genes of the epibiont were recovered by suppression subtractive hybridization and bioinformatics approaches. These genes ...
- DOI:
- 10.1111/j.1462-2920.2008.01709.x
- PubMed:
- 18707609
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01709.x
- Author:
- Gittel, Antje; Mußmann, Marc; Sass, Henrik; Cypionka, Heribert; Könneke, Martin
- Source:
- Environmental microbiology 2008 v.10 no.10 pp. 2645-2658
- ISSN:
- 1462-2912
- Subject:
- Desulfobacter; Desulfobacterium catecholicum; Desulfobacula phenolica; Desulfobulbaceae; Firmicutes; acetates; anaerobes; fluorescence in situ hybridization; hydrogen; nucleotide sequences; nutrients; oligonucleotide probes; ribosomal RNA; sand; sulfate-reducing bacteria; sulfates; sulfides
- Abstract:
- ... The identity and abundance of potentially active sulfate-reducing bacteria (SRB) in several metre deep sediments of a tidal sand flat in the German Wadden Sea were assessed by directed cultivation and cultivation-independent CARD-FISH analysis (catalysed reporter deposition fluorescence in situ hybridization). Presumably abundant SRB from different sediment layers between 0.5 and 4 m depth were se ...
- DOI:
- 10.1111/j.1462-2920.2008.01686.x
- PubMed:
- 18627412
-
http://dx.doi.org/10.1111/j.1462-2920.2008.01686.x