scholarly journals Application of PCR-Denaturing-Gradient Gel Electrophoresis (DGGE) Method to Examine Microbial Community Structure in Asparagus Fields with Growth Inhibition due to Continuous Cropping

2012 ◽  
Vol 27 (1) ◽  
pp. 43-48 ◽  
Author(s):  
Yasufumi Urashima ◽  
Takahiro Sonoda ◽  
Yuko Fujita ◽  
Atsuko Uragami
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Growth Inhibition ◽  
Microbial Community Structure ◽  
Gel Electrophoresis ◽  
Denaturing Gradient Gel Electrophoresis ◽  
Continuous Cropping ◽  
Gradient Gel Electrophoresis

Spatial variation in microbial community structure, richness, and diversity in an alluvial aquifer

2012 ◽  
Vol 58 (9) ◽  
pp. 1135-1151 ◽  
Author(s):  
P.G. Medihala ◽  
J.R. Lawrence ◽  
G.D.W. Swerhone ◽  
D.R. Korber
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Spatial Variability ◽  
Microbial Communities ◽  
Microbial Community Structure ◽  
Gel Electrophoresis ◽  
Denaturing Gradient Gel Electrophoresis ◽  
Microbial Community Composition ◽  
Alluvial Aquifer ◽  
Gradient Gel Electrophoresis

Relatively little is known regarding the spatial variability of microbial communities in aquifers where well fouling is an issue. In this study 2 water wells were installed in an alluvial aquifer located adjacent to the North Saskatchewan River and an associated piezometer network developed to facilitate the study of microbial community structure, richness, and diversity. Carbon utilization data analysis revealed reduced microbial activity in waters collected close to the wells. Functional PCR and quantitative PCR analysis indicated spatial variability in the potential for iron-, sulphate-, and nitrate-reducing activity at all locations in the aquifer. Denaturing gradient gel electrophoresis analysis of aquifer water samples using principal components analyses indicated that the microbial community composition was spatially variable, and denaturing gradient gel electrophoresis sequence analysis revealed that bacteria belonging to the genera Acidovorax , Rhodobacter , and Sulfuricurvum were common throughout the aquifer. Shannon’s richness (H′) and Pielou’s evenness (J′) indices revealed a varied microbial diversity (H′ = 1.488–2.274) and an even distribution of microbial communities within the aquifer (J′ = 0.811–0.917). Overall, these analyses revealed that the aquifer’s microbial community varied spatially in terms of composition, richness, and metabolic activity. Such information may facilitate the diagnosis, prevention, and management of fouling.

scholarly journals Detritus-Dependent Development of the Microbial Community in an Experimental System: Qualitative Analysis by Denaturing Gradient Gel Electrophoresis

1999 ◽  
Vol 65 (6) ◽  
pp. 2478-2484 ◽  
Author(s):  
Erik J. van Hannen ◽  
Wolf Mooij ◽  
Miranda P. van Agterveld ◽  
Herman J. Gons ◽  
Hendrikus J. Laanbroek
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Bacterial Community ◽  
Gel Electrophoresis ◽  
Denaturing Gradient Gel Electrophoresis ◽  
Experimental System ◽  
Rrna Genes ◽  
Green Algal ◽  
Gradient Gel Electrophoresis ◽  
18S Rrna Genes

ABSTRACT Correlations between the biomass of phytoplankton and the biomass of bacteria and between the biomass of bacteria and the biomass of protozoans suggest that there is coupling between these compartments of the “microbial loop.” To investigate this coupling on the species level, bacteria and protozoans from untreated lake water inocula were allowed to grow on detritus of the green alga Ankistrodesmus falcatus or the cyanobacterium Oscillatoria limneticain continuous-flow systems for 1 month. Denaturing gradient gel electrophoresis (DGGE) of the 16S and 18S rRNA genes was used to monitor the development of the bacterial community structure and the eukaryotic community structure, respectively. Nonmetric multidimensional scaling of the DGGE profiles revealed the changes in the microbial community structure. This analysis showed that significantly different bacterial communities developed on the green algal detritus and on the cyanobacterial detritus. Although similar results were obtained for the eukaryotic communities, the differences were not significant. Hence, our findings indicate that the origin of detritus can affect the structure of at least the bacterial community. A phylogenetic analysis of 20 18S ribosomal DNA clones that were isolated from the continuous cultures revealed that many sequences were related to the sequences of bacterivorous protozoans (members of the Ciliophora, Rhizopoda, Amoeba, and Kinetoplastida). One clone grouped in a recently established clade whose previously described members are all parasites. The affiliations of about 20% of the clones could not be determined.

Comparison of vaginal microbial community structure of beef cattle between luteal phase and follicular phase

2018 ◽  
Author(s):  
Jun Wang ◽  
Chang Liu ◽  
Lucky T. Nesengani ◽  
Yongsheng Gong ◽  
Yujiang Yang ◽  
...  
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Beef Cattle ◽  
Microbial Community Structure ◽  
Luteal Phase ◽  
Denaturing Gradient Gel Electrophoresis ◽  
Follicular Phase ◽  
Vaginal Microflora ◽  
Significant Difference ◽  
Gradient Gel Electrophoresis

The aim of the current study was to evaluate the vaginal microbial community structure in beef cattle between follicular and luteal phase. Fifteen healthy beef cattle were subjected to an estrus synchronization protocol, and vaginal samples were collected in the follicular and luteal phases. Polymerase chain reaction (PCR) followed by denaturing gradient gel electrophoresis (PCR-DGGE) and real-time PCR were used to determine the vaginal community structure. The results showed that the vaginal microflora of beef cattle mainly comprised of Aerococcus vaginalis, Aerococcus viridans, Haemophilus somnus, Streptococcus pluranimalium, Psychrobacter marincola, Escherichia coli, and Sphingomonas roseiflava. There was no significant difference in the total number of bacteria in the vaginas of beef cattle between the follicular and luteal phase. The quantity of vaginal Streptococcus spp. in the luteal phase was significantly higher than in the follicular phase, while the number of vaginal Lactobacillus spp. in the follicular phase was significantly higher than in the luteal phase. The results indicated that there was moderate significant difference in the structure of the vaginal microbial community in beef cattle between the luteal phase and follicular phase.

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