Community analysis by Biolog: curve integration for statistical analysis of activated sludge microbial habitats

Guckert, James B.; Carr, Gregory J.; Johnson, Troy D.; Hamm, Burt G.; Davidson, Daniel; Kumagai, Yoshiharu

doi:10.1016/s0167-7012(96)00948-7

Cited by 147 publications

(87 citation statements)

References 13 publications

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“…BIOLOG optical density (OD) readings from the plate reader were imported into a database and fed into a Microsoft Visual Basic-Excel program that approximated the area under the growth curve for each of the 95 substrates for each genotype replicate. Following the general method of Guckert et al (1996), the program calculates a trapezoidal area that approximates the result of fitting and integrating each individual growth curve. This curve area approach collapses several values from a growth curve into a single value and integrates several properties (e.g.…”

Section: Methodsmentioning

confidence: 99%

Rapid phenotypic change and diversification of a soil bacterium during 1000 generations of experimental evolution

et al. 2001

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Evolutionary pathways open to even relatively simple organisms, such as bacteria, may lead to complex and unpredictable phenotypic changes, both adaptive and non-adaptive. The evolutionary pathways taken by 18 populations of Ralstonia strain TFD41 while they evolved in defined environments for 1000 generations were examined. Twelve populations evolved in liquid media, while six others evolved on agar surfaces. Phenotypic analyses of these derived populations identified some changes that were consistent across all populations and others that differed among them. The evolved populations all exhibited morphological changes in their cell envelopes, including reductions of the capsule in each population and reduced prostheca-like surface structures in most populations. Mean cell length increased in most populations (in one case by more than fourfold), although a few populations evolved shorter cells. Carbon utilization profiles were variable among the evolved populations, but two distinct patterns were correlated with genetic markers introduced at the outset of the experiment. Fatty acid methyl ester composition was less variable across populations, but distinct patterns were correlated with the two physical environments. All 18 populations evolved greatly increased sensitivity to bile salts, and all but one had increased adhesion to sand ; both patterns consistent with changes in the outer envelope. This phenotypic diversity contrasts with the fairly uniform increases in competitive fitness observed in all populations. This diversity may represent a set of equally probable adaptive solutions to the selective environment ; it may also arise from the chance fixation of non-adaptive mutations that hitchhiked with a more limited set of beneficial mutations.

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Section: Methodsmentioning

confidence: 99%

Rapid phenotypic change and diversification of a soil bacterium during 1000 generations of experimental evolution

et al. 2001

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“…For these calculations, the number of utilized substrates (i.e., the number of substrates with an absorbance value >0.25) was used as proxy for species richness, and absorbance values at each well as equivalent to species abundance. The maximum slope and the area under the absorbance curve were measured following a trapezoidal approximation (Guckert et al, 1996).…”

Section: Presence Of Contaminantsmentioning

confidence: 99%

Characterization of Composted Organic Amendments for Agricultural Use

Epelde

Jauregi

Urra

et al. 2018

Front. Sustain. Food Syst.

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“…Overall color development in the Biolog plates was expressed as average well color development (AWCD) (Garland and Mills, 1991). Th e AWCD areas (the accumulated AWCD with time) (Guckert et al, 1996) were calculated to assess the substrate utilization activity of the microbial community.…”

Section: Community-level Physiological Profi Les From Sole Carbon Soumentioning

confidence: 99%

Elevated Ozone Changed Soil Microbial Community in a Rice Paddy

Zhan

Wang

Yao

et al. 2010

Soil Science Soc of Amer J

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Although the environmental impact of ozone (O3) has been widely investigated, there have been few studies about the effect of O3 on underground processes, especially soil microbial communities. This study aimed to investigate O3 effects on the soil microbial community structure and function in a rice paddy field, China. There were three treatments within open‐top chambers: charcoal‐filtered air (CF as a check treatment), CF plus 100 nL O3 L−1 (O3−1), and CF plus 150 nL O3 L−1 (O3−2). Soil samples were collected in August, September, and October to assess microbial biomass C, community‐level physiological profiles (CLPPs), and phospholipid fatty acids (PLFAs) of soil microbes. The results showed that soil microbial biomass under elevated O3 concentration was statistically significantly decreased compared with the check treatment in October. Soil microbial functional indices including average well color development, richness, and Shannon diversity were significantly decreased by elevated O3 in September. Principal components analysis of CLPP data showed that elevated O3 significantly changed the C sources utilization pattern of microbes in September (Principle Component 1, P < 0.05). During all growing stages, elevated O3 had significant effects on soil microbial composition expressed as PLFA percentage, which indicated that PLFA was more sensitive than CLPP for study of the microbial community. The stress indicators, including the ratio of saturated to unsaturated fatty acids and the ratio of cyclopropyl fatty acids to their precursors, such as cy17:0 to 16:1ω7c, also increased under elevated O3 exposure.

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Community analysis by Biolog: curve integration for statistical analysis of activated sludge microbial habitats

Cited by 147 publications

References 13 publications

Rapid phenotypic change and diversification of a soil bacterium during 1000 generations of experimental evolution

Rapid phenotypic change and diversification of a soil bacterium during 1000 generations of experimental evolution

Characterization of Composted Organic Amendments for Agricultural Use

Elevated Ozone Changed Soil Microbial Community in a Rice Paddy

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