An improved method for single step purification of metagenomic DNA

Sharma, Pushpender Kumar; Capalash, Neena; Kaur, Jagdeep

doi:10.1007/s12033-007-0015-3

Cited by 61 publications

(39 citation statements)

References 16 publications

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“…Isolation of metagenomic DNA Total DNA was extracted from the three samples according to the method of Sharma et al (2007) with minor modifications.…”

Section: Molecular Characterizationmentioning

confidence: 99%

Effect of co-substrate feeding on methane yield of anaerobic digestion of Chlorella vulgaris

et al. 2016

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Microalgal production has many advantages over the use of terrestrial plants; therefore, increases in the use of microalgae for energy production can be expected. Algal biomass can be processed anaerobically to methane; however, the unfavorable C/N ratio of the substrate may have an inhibitory effect. The impact of the application of used cooking oil, maize silage, and mill residue on anaerobic co-digestion of the microalgal Chlorella vulgaris was studied in semi-continuous, laboratory-scale digestion. During the full period of the trial involving anaerobic digestion of algae in the case of mono-digestion and co-digestion with used cooking oil, maize silage, and mill residue, the volumetric methane yields were 0.38 ± 0.07, 1.56 ± 0.26, 1.19 ± 0.18, and 1.16 ± 0.13 L L −1 , respectively. Trials were carried out to determine the long-term effect of the total solid (TS) content of substrates (co-digestion of C. vulgaris and used cooking oil at 3.8 and 7.2 % of TS, respectively). Both designs could be increased to 5.5 g VS L, but a higher TS% resulted in increased methane production and a longer period of decline in the methane yield due to washout. The sharp decrease in methane content at the end of 90 days was accompanied by a reorganization of the methanogenic archaeal community.

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“…Isolation of metagenomic DNA Total DNA was extracted from the three samples according to the method of Sharma et al (2007) with minor modifications.…”

Section: Molecular Characterizationmentioning

confidence: 99%

Effect of co-substrate feeding on methane yield of anaerobic digestion of Chlorella vulgaris

et al. 2016

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“…Liquid nitrogen is most commonly used for homogenization (Wu et al, 2001). Some researchers used dry ice (Griffin et al, 2002), SDS lysis (Syn and Swarup, 2000), high-speed cell disruption (Muller et al, 1998) and glass bead/magnetic bead-vortexing/SDS lysis (Sambrook and Russel, 2001;Faggi et al, 2005), lysozyme lysis/enzyme digestion (Flamm et al, 1984a,b;Li et al, 2002), benzyl chloride lysis (Xue et al, 2006), sonication (Sharma et al, 2007), microwave exposure (Goodwin and Lee, 1993) and combinations of different methods (Zhang et al, 2008). In each method, the major objective lies with elimination of PCR inhibitors (metallic cations, polysaccharide, polyphenols, and other secondary metabolites) in DNA samples which would otherwise prevent DNA amplification.…”

Section: Fungal Dna Extraction Methodsmentioning

confidence: 99%

“…Sonification method: The ultra sonic waves can easily destroy the cell wall (Voget et al, 2003, Sharma et al, 2007. However, it is less used for extraction of DNA than other cellular components such as proteins and pigments.…”

Section: Fungal Dna Extraction Methodsmentioning

confidence: 99%

Exploring Rapid and Efficient Protocol for Isolation of Fungal DNA

Tripathy¹,

Maharana²,

Ithape³

et al. 2017

Int.J.Curr.Microbiol.App.Sci

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“…Total DNA extraction from samples DNA from the complex samples was extracted and purified according to described methods with some modifications [45]. Samples (0.5 g) were extracted with 1.3 mL extraction buffer (100 mM Tris-Cl pH 8.0, 100 mM EDTA pH 8.0, 1.5 M NaCl, 100 mM sodium phosphate pH 8.0, 1% CTAB).…”

Section: Methodsmentioning

confidence: 99%

- Microbial Community Functional Structures in Wastewater Treatment Plants as Characterized by GeoChip

Sánchez¹

2016

Bioremediation of Wastewater

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Background: Biohydrogen production through dark fermentation using organic waste as a substrate has gained increasing attention in recent years, mostly because of the economic advantages of coupling renewable, clean energy production with biological waste treatment. An ideal approach is the use of selected microbial inocula that are able to degrade complex organic substrates with simultaneous biohydrogen generation. Unfortunately, even with a specifically designed starting inoculum, there is still a number of parameters, mostly with regard to the fermentation conditions, that need to be improved in order to achieve a viable, large-scale, and technologically feasible solution. In this study, statistics-based factorial experimental design methods were applied to investigate the impact of various biological, physical, and chemical parameters, as well as the interactions between them on the biohydrogen production rates. Results: By developing and applying a central composite experimental design strategy, the effects of the independent variables on biohydrogen production were determined. The initial pH value was shown to have the largest effect on the biohydrogen production process. High-throughput sequencing-based metagenomic assessments of microbial communities revealed a clear shift towards a Clostridium sp.-dominated environment, as the responses of the variables investigated were maximized towards the highest H 2 -producing potential. Mass spectrometry analysis suggested that the microbial consortium largely followed hydrogen-generating metabolic pathways, with the simultaneous degradation of complex organic compounds, and thus also performed a biological treatment of the beer brewing industry wastewater used as a fermentation substrate. Conclusions: Therefore, we have developed a complex optimization strategy for batch-mode biohydrogen production using a defined microbial consortium as the starting inoculum and beer brewery wastewater as the fermentation substrate. These results have the potential to bring us closer to an optimized, industrial-scale system which will serve the dual purpose of wastewater pre-treatment and concomitant biohydrogen production.

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An improved method for single step purification of metagenomic DNA

Cited by 61 publications

References 16 publications

Effect of co-substrate feeding on methane yield of anaerobic digestion of Chlorella vulgaris

Effect of co-substrate feeding on methane yield of anaerobic digestion of Chlorella vulgaris

Exploring Rapid and Efficient Protocol for Isolation of Fungal DNA

- Microbial Community Functional Structures in Wastewater Treatment Plants as Characterized by GeoChip

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