@article {1439,
	title = {Land use, soil and litter chemistry drive bacterial community structures in samples of the rainforest and Cerrado (Brazilian Savannah) biomes in Southern Amazonia.},
	journal = {European Journal of Soil Biology},
	volume = {66},
	year = {2015},
	month = {2014 Nov},
	pages = {32-29},
	doi = {10.1016/j.ejsobi.2014.11.001},
	url = {http://www.sciencedirect.com/science/article/pii/S1164556314001022},
	author = {N{\"u}sslein, K and Lammel, D and Tsai, SM and Cerri, CC}
}
@article {1438,
	title = {Variation in diazotrophic community structure in forest soils reflects land use history.},
	journal = {Soil Biology and Biochemistry},
	volume = {80},
	year = {2015},
	month = {2014 Sep},
	pages = {1-8},
	doi = {10.1016/j.soilbio.2014.09.017},
	url = {http://www.sciencedirect.com/science/article/pii/S0038071714003253},
	author = {N{\"u}sslein, K and Izquierdo, J}
}
@article {731,
	title = {Biotechnological potential of aquatic plant-microbe interactions.},
	journal = {Curr Opin Biotechnol},
	volume = {21},
	year = {2010},
	month = {2010 Jun},
	pages = {339-45},
	abstract = {The rhizosphere in terrestrial systems is the region of soil surrounding plant roots where there is increased microbial activity; in aquatic plants, this definition may be less clear because of diffusion of nutrients in water, but there is still a zone of influence by plant roots in this environment [1]. Within that zone chemical conditions differ from those of the surrounding environment as a consequence of a range of processes that were induced either directly by the activity of plant roots or by the activity of rhizosphere microflora. Recently, there are a number of new studies related to rhizospheres of aquatic plants and specifically their increased potential for remediation of contaminants, especially remediation of metals through aquatic plant-microbial interaction.},
	keywords = {Biodegradation, Environmental, Biotechnology, Hydrogen-Ion Concentration, Plant Roots, Plants},
	issn = {1879-0429},
	doi = {10.1016/j.copbio.2010.04.004},
	author = {Stout, L and N{\"u}sslein, K}
}
@article {745,
	title = {Responses of rhizobia to desiccation in relation to osmotic stress, oxygen, and temperature.},
	journal = {Appl Environ Microbiol},
	volume = {73},
	year = {2007},
	month = {2007 Jun},
	pages = {3451-9},
	keywords = {Adaptation, Physiological, Dehydration, Hot Temperature, Osmotic Pressure, Oxidative Stress, Rhizobiaceae},
	issn = {0099-2240},
	doi = {10.1128/AEM.02991-06},
	author = {Vriezen, Jan Ac and de Bruijn, Frans J and N{\"u}sslein, K}
}
@article {749,
	title = {Desiccation responses and survival of Sinorhizobium meliloti USDA 1021 in relation to growth phase, temperature, chloride and sulfate availability.},
	journal = {Lett Appl Microbiol},
	volume = {42},
	year = {2006},
	month = {2006 Feb},
	pages = {172-8},
	abstract = {AIMS: To identify physical and physiological conditions that affect the survival of Sinorhizobium meliloti USDA 1021 during desiccation.

METHODS AND RESULTS: An assay was developed to study desiccation response of S. meliloti USDA 1021 over a range of environmental conditions. We determined the survival during desiccation in relation to (i) matrices and media, (ii) growth phase, (iii) temperature, and (iv) chloride and sulfate availability.

CONCLUSIONS: This study indicates that survival of S. meliloti USDA 1021 during desiccation is enhanced: (i) when cells were dried in the stationary phase, (ii) with increasing drying temperature at an optimum of 37 degrees C, and (iii) during an increase of chloride and sulfate, but not sodium or potassium availability. In addition, we resolved that the best matrix to test survival was nitrocellulose filters.

SIGNIFICANCE AND IMPACT OF THE STUDY: The identification of physical and physiological factors that determine the survival during desiccation of S. meliloti USDA 1021 may aid in (i) the strategic development of improved seed inocula, (ii) the isolation, and (iii) the development of rhizobial strains with improved ability to survive desiccation. Furthermore, this work may provide insights into the survival of rhizobia under drought conditions.},
	keywords = {Bacteriological Techniques, Chlorides, Desiccation, Models, Biological, Sinorhizobium meliloti, Sulfur Oxides, Temperature},
	issn = {0266-8254},
	doi = {10.1111/j.1472-765X.2005.01808.x},
	author = {Vriezen, J A C and de Bruijn, F J and N{\"u}sslein, K}
}
@article {753,
	title = {Soil bacterial community shift correlated with change from forest to pasture vegetation in a tropical soil.},
	journal = {Appl Environ Microbiol},
	volume = {65},
	year = {1999},
	month = {1999 Aug},
	pages = {3622-6},
	abstract = {The change in vegetative cover of a Hawaiian soil from forest to pasture led to significant changes in the composition of the soil bacterial community. DNAs were extracted from both soil habitats and compared for the abundance of guanine-plus-cytosine (G+C) content, by analysis of abundance of phylotypes of small-subunit ribosomal DNA (SSU rDNA) amplified from fractions with 63 and 35\% G+C contents, and by phylogenetic analysis of the dominant rDNA clones in the 63\% G+C content fraction. All three methods showed differences between the forest and pasture habitats, providing evidence that vegetation had a strong influence on microbial community composition at three levels of taxon resolution. The forest soil DNA had a peak in G+C content of 61\%, while the DNA of the pasture soil had a peak in G+C content of 67\%. None of the dominant phylotypes found in the forest soil were detected in the pasture soil. For the 63\% G+C fraction SSU rDNA sequence analysis of the three most dominant members revealed that their phyla changed from Fibrobacter and Syntrophomonas assemblages in the forest soil to Burkholderia and Rhizobium-Agrobacterium assemblages in the pasture soil.},
	keywords = {Agriculture, Bacteria, Base Composition, DNA, Bacterial, Ecosystem, Molecular Sequence Data, Soil Microbiology, Trees, Tropical Climate},
	issn = {0099-2240},
	author = {N{\"u}sslein, K and Tiedje, J M}
}
@article {754,
	title = {Characterization of the dominant and rare members of a young Hawaiian soil bacterial community with small-subunit ribosomal DNA amplified from DNA fractionated on the basis of its guanine and cytosine composition.},
	journal = {Appl Environ Microbiol},
	volume = {64},
	year = {1998},
	month = {1998 Apr},
	pages = {1283-9},
	abstract = {The small-subunit ribosomal DNA (rDNA) diversity was found to be very high in a Hawaiian soil community that might be expected to have lower diversity than the communities in continental soils because the Hawaiian soil is geographically isolated and only 200 years old, is subjected to a constant climate, and harbors low plant diversity. Since an underlying community structure could not be revealed by analyzing the total eubacterial rDNA, we first fractionated the DNA on the basis of guanine-plus-cytosine (G + C) content by using bisbenzimidazole and equilibrium centrifugation and then analyzed the bacterial rDNA amplified from a fraction with a high biomass (63\% G + C fraction) and a fraction with a low biomass (35\% G + C fraction). The rDNA clone libraries were screened by amplified rDNA restriction analysis to determine phylotype distribution. The dominant biomass reflected by the 63\% G + C fraction contained several dominant phylotypes, while the community members that were less successful (35\% G + C fraction) did not show dominance but there was a very high diversity of phylotypes. Nucleotide sequence analysis revealed taxa belonging to the groups expected for the G + C contents used. The dominant phylotypes in the 63\% G + C fraction were members of the Pseudomonas, Rhizobium-Agrobacterium, and Rhodospirillum assemblages, while all of the clones sequenced from the 35\% G + C fraction were affiliated with several Clostridium assemblages. The two-step rDNA analysis used here uncovered more diversity than can be detected by direct rDNA analysis of total community DNA. The G + C separation step is also a way to detect some of the less dominant organisms in a community.},
	keywords = {Base Composition, Clostridium, DNA, Bacterial, DNA, Ribosomal, Ecosystem, Genetic Variation, Hawaii, Phylogeny, Pseudomonas, Rhizobium, Rhodospirillum, Soil Microbiology},
	issn = {0099-2240},
	author = {N{\"u}sslein, K and Tiedje, J M}
}
@article {755,
	title = {Expression and transfer of engineered catabolic pathways harbored by Pseudomonas spp. introduced into activated sludge microcosms.},
	journal = {Appl Environ Microbiol},
	volume = {58},
	year = {1992},
	month = {1992 Oct},
	pages = {3380-6},
	abstract = {Two genetically engineered microorganisms (GEMs), Pseudomonas sp. strain B13 FR1(pFRC20P) (FR120) and Pseudomonas putida KT2440(pWWO-EB62) (EB62), were introduced into activated sludge microcosms that had the level of aeration, nutrient makeup, and microbial community structure of activated sludge reactors. FR120 contains an experimentally assembled ortho cleavage route for simultaneous degradation of 3-chlorobenzoate (3CB) and 4-methyl benzoate (4MB); EB62 contains a derivative TOL plasmid-encoded degradative pathway for toluene experimentally evolved so that it additionally processes 4-ethyl benzoate (4EB). Experiments assessed survival of the GEMs, their ability to degrade target substrates, and lateral transfer of plasmid-encoded recombinant DNA. GEMs added at initial densities of 10(6) to 10(7) bacteria per ml of activated sludge declined to stable population densities of 10(4) to 10(5) bacteria per ml. FR120 degraded combinations of 3CB and 4MB (1 mM each) following 3 days of adaptation in the microcosms. Indigenous microorganisms required an 8-day adaptation period before degradation of 4MB was observed; 3CB was degraded only after the concentration of 4MB was much reduced. The indigenous microbial community was killed when both compounds were present at concentrations of 4.0 mM. However, in parallel microcosms containing FR120, the microbial community maintained a normal density of viable cells. Indigenous microbes readily degraded 4EB (2 mM), and EB62 did not significantly increase the observed rate of degradation. In filter matings, transfer of pFRC20P, which specifies mobilization but not transfer functions, from FR120 to P. putida UWC1 was not detectable (< 10(-7) transconjugants per donor cell).(ABSTRACT TRUNCATED AT 250 WORDS)},
	keywords = {Benzoates, Biodegradation, Environmental, Gene Expression Regulation, Bacterial, Genetic Engineering, Industrial Waste, Pseudomonas, Transfection, Waste Disposal, Fluid},
	issn = {0099-2240},
	author = {N{\"u}sslein, K and Maris, D and Timmis, K and Dwyer, D F}
}
