Denaturing Gradient Gel Electrophoresis for Rapid Detection of Latent Carriers of a Subtype of Acute Intermittent Porphyria with Normal Erythrocyte Porphobilinogen Deaminase Activity

1992 ◽  
Vol 38 (1) ◽  
pp. 93-95 ◽  
Author(s):  
F Bourgeois ◽  
Xue-Fan Gu ◽  
J C Deybach ◽  
M P Te Velde ◽  
F de Rooij ◽  
...  

Abstract Acute intermittent porphyria is an autosomal dominant disorder defined by a partial deficiency of porphobilinogen deaminase (EC 4.3.1.8). Clinical manifestations of the disease are characterized by acute attacks of neurological dysfunction often linked to environmental factors. Early diagnosis of gene carriers is important in the prevention of attacks and is usually achieved by determining the porphobilinogen deaminase activity in erythrocytes. However, in a subtype of acute intermittent porphyria, the enzymatic defect is restricted to nonerythropoietic cells. Different mutations have already been described that account for this phenotype in two unrelated families. We previously detected asymptomatic carriers by using mutation-specific probes after in vitro amplification of the target DNA sequence. In this study, we investigated the DNA of eight unrelated subjects with the same subtype of acute intermittent porphyria by using the polymerase chain reaction, with subsequent analysis of the amplified products by denaturing gradient gel electrophoresis. Five of these patients shared the same single-base change. This technique was quite simple and efficient for detecting asymptomatic carriers. Importantly, it is potentially useful for studying families with the same phenotypic subtype of the disease and possibly different mutations in the same DNA region.

1994 ◽  
Vol 93 (1) ◽  
pp. 47-52 ◽  
Author(s):  
Xue-Fan Gu ◽  
Felix de Rooij ◽  
Gardi Voortman ◽  
Kor Te Velde ◽  
Jean-Charles Deybach ◽  
...  

Biofilms ◽  
2005 ◽  
Vol 2 (2) ◽  
pp. 145-152 ◽  
Author(s):  
H. D. Kurtz ◽  
R. Cox ◽  
C. Reisch

Study of natural microbial ecosystems is hampered by our inability to closely duplicate the development of a community in the laboratory environment. The lack of such systems is particularly acute when endolithic microbes are examined. In this study, we have developed a system that enables laboratory growth of cryptoendolithic microbial communities resembling those found in the porous sandstones making up the Colorado Plateau in southeastern Utah. Microscopic examination of natural and in vitro cryptoendolithic biofilms shows that, on a gross level, the laboratory biofilm is developing in a fashion that is structurally similar to that of the native community. Further confirmation that the laboratory system resembles the native community was obtained by using denaturing gradient gel electrophoresis (DGGE) and DNA sequence analysis to examine the biofilms for the presence of cyanobacteria and the Geobacteriaceae. We found that the molecular profiles for these two groups of bacteria were nearly identical in the native and in vitro biofilms. These data show that our system for growing cryptoendolithic bacteria in the laboratory is suitable for the study of these ecosystems and will allow for experimental manipulations that are not possible in the field.


Genome ◽  
1989 ◽  
Vol 31 (2) ◽  
pp. 590-593 ◽  
Author(s):  
William G. Thilly ◽  
Vivian F. Liu ◽  
Bennett J. Brown ◽  
Neal F. Cariello ◽  
Alexandra G. Kat ◽  
...  

By combining high fidelity in vitro DNA amplification and mutant DNA sequence separation by denaturing gradient gel electrophoresis, we are able to directly observe mutational hotspots in human genomic DNA. Our technological development has progressed through the stage of identifying mutant sequences in independently derived, 6-thioguanine-resistant human B cells. We are now analyzing uncloned, complex populations derived from several thousand 6-thioguanine-resistant cells and report preliminary data concerning the mutational spectra of benzo[a]pyrene diol epoxide and ultraviolet light in exon 3 of the hypoxanthine-guanine phosphoribosyltransferase gene. In addition, the approach appears to be general for any gene sequence for which a means to select mutants exists. The more global need to eliminate phenotypic selection is, however, our primary impetus. Our analysis leads us to conclude that no known in vitro DNA polymerase has sufficient fidelity to permit direct observation of unselected mutants. Therefore, an additional change in technology will be necessary to observe nonselected mutant DNA sequences at the low frequencies found in human tissues.Key words: mutational spectra, polymerase chain reaction, denaturing gradient gel electrophoresis.


2007 ◽  
Vol 2007 ◽  
pp. 22-22
Author(s):  
S.A. Huws ◽  
E.J. Kim ◽  
R. Sanderson ◽  
S. Muetzel ◽  
R.J. Wallace ◽  
...  

In vitroexperiments have revealed that members of theButyrivibriogroup can convert linoleic (C18:2n-6) and linolenic (C18:3n-3) acid to VA (C18:1trans-11), with some being able to further convert VA to stearate (C18:0). Advances in molecular microbial technology mean that we are now able to quantify these bacteria using quantitative PCR (qPCR) as well as look at total eubacterial andButyrivibrio–specific population changes using Denaturing Gradient Gel Electrophoresis (DGGE). The aims of this study were to assess the involvement ofButyrivibriospp. in the biohydrogenation pathwaysin vivoas well as investigate whether other bacterial species may be involved.


2019 ◽  
Vol 7 (5) ◽  
pp. 115 ◽  
Author(s):  
Emilio M. Ungerfeld ◽  
M. Fernanda Aedo ◽  
Emilio D. Martínez ◽  
Marcelo Saldivia

There is an interest in controlling rumen methanogenesis as an opportunity to both decrease the emissions of greenhouse gases and improve the energy efficiency of rumen fermentation. However, the effects of inhibiting rumen methanogenesis on fermentation are incompletely understood even in in vitro rumen cultures, as the recovery of metabolic hydrogen ([H]) in the main fermentation products consistently decreases with methanogenesis inhibition, evidencing the existence of unaccounted [H] sinks. We hypothesized that inhibiting methanogenesis in rumen batch cultures would redirect [H] towards microbial amino acids (AA) biosynthesis as an alternative [H] sink to methane (CH4). The objective of this experiment was to evaluate the effects of eight inhibitors of methanogenesis on digestion, fermentation and the production of microbial biomass and AA in rumen batch cultures growing on cellulose. Changes in the microbial community composition were also studied using denaturing gradient gel electrophoresis (DGGE). Inhibiting methanogenesis did not cause consistent changes in fermentation or the profile of AA, although the effects caused by the different inhibitors generally associated with the changes in the microbial community that they induced. Under the conditions of this experiment, inhibiting methanogenesis did not increase the importance of microbial AA synthesis as a [H] sink.


2020 ◽  
Vol 51 (2) ◽  
pp. 125-146
Author(s):  
Nasiruddin Nasiruddin ◽  
Yu Zhangxin ◽  
Ting Zhao Chen Guangying ◽  
Minghui Ji

We grew cucumber in pots in greenhouse for 9-successive cropping cycles and analyzed the rhizosphere Pseudomonas spp. community structure and abundance by PCR-denaturing gradient gel electrophoresis and quantitative PCR. Results showed that continuous monocropping changed the cucumber rhizosphere Pseudomonas spp. community. The number of DGGE bands, Shannon-Wiener index and Evenness index decreased during the 3rd cropping and thereafter, increased up to the 7th cropping, however, however, afterwards they decreased again. The abundance of Pseudomonas spp. increased up to the 5th successive cropping and then decreased gradually. These findings indicated that the structure and abundance of Pseudomonas spp. community changed with long-term cucumber monocropping, which might be linked to soil sickness caused by its continuous monocropping.


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