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The analysis and interpretation of A/C(i) curves (net CO(2) assimilation rate, A, versus calculated substomatal CO(2) concentration, C(i)) is dependent upon a number of underlying assumptions. The influence of the C(i) value at which the A/C(i) curve switches between the Rubisco- and electron transport-limited portions of the curve was examined on A/C(i)(More)
Molecular-based approaches to assess microbial biomass and diversity from soil and other ecosystems are rapidly becoming the standard methodology for analysis. While these techniques are advantageous, because they do not rely on the need to culture organisms, each technique may have its own biases and/or limitations when used to assess fungal diversity from(More)
Plant roots constantly secrete compounds into the soil to interact with neighboring organisms presumably to gain certain functional advantages at different stages of development. Accordingly, it has been hypothesized that the phytochemical composition present in the root exudates changes over the course of the lifespan of a plant. Here, root exudates of in(More)
ABSTRACT Since the early 1990s, Swiss needle cast disease caused by Phaeocryptopus gaeumannii has been increasing in Douglas-fir plantations in the Oregon Coast Range. Considerable variation in disease severity across the affected area often has been noted. We investigated the influence of site microclimate on fungal colonization as a basis for this(More)
Our objective is to provide an optimistic strategy for reversing soil degradation by increasing public and private research efforts to understand the role of soil biology, particularly microbiology, on the health of our world's soils. We begin by defining soil quality/soil health (which we consider to be interchangeable terms), characterizing healthy soil(More)
The Bacillus anthracis Sterne plasmid pXO1 was sequenced by random, "shotgun" cloning. A circular sequence of 181,654 bp was generated. One hundred forty-three open reading frames (ORFs) were predicted using GeneMark and GeneMark.hmm, comprising only 61% (110,817 bp) of the pXO1 DNA sequence. The overall guanine-plus-cytosine content of the plasmid is(More)
In this study we used stool profiling to identify intestinal bacteria and metabolites that are differentially represented in humans with colorectal cancer (CRC) compared to healthy controls to identify how microbial functions may influence CRC development. Stool samples were collected from healthy adults (n = 10) and colorectal cancer patients (n = 11)(More)
A Gram-negative, nonpigmented bacterium designated strain B1 was isolated from a laboratory bioreactor that reduced selenate to elemental red selenium (Se(0)). 16S rRNA gene-sequence alignment identified the isolate as a Rhizobium sp. belonging to the Rhizobium clade, which includes R. daejeonense, R. giardinii, R. undicola, R. larrymoorei, R. radiobacter,(More)
The need to enhance the sustainability of intensive agricultural systems is widely recognized One promising approach is to encourage beneficial services provided by soil microorganisms to decrease the inputs of fertilizers and pesticides. However, limited success of this approach in field applications raises questions as to how this might be best(More)
In this study, we examined the effect of various pooling strategies on the characterization of soil microbial community composition and phylotype richness estimates. Automated ribosomal intergenic spacer analysis (ARISA) profiles were determined from soil samples that were (i) unpooled (extracted and amplified individually), (ii) pooled prior to PCR(More)