Gel Electrophoresis Based Genetic Fingerprinting Techniques on Environmental Ecology

Çetecioğlu, Zeynep; İnce, Orhan; İnce, Bahar

doi:10.5772/37063

Cited by 3 publications

(5 citation statements)

References 63 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…The use of DGGE had been a popular choice for assessing the shift of the environmental microbial community based on the changes of the banding patterns, as is shown in Figure 4. However, low sensitivity for the detection of rare microbial community [128], separation of small DNA fragments [129], a need for selecting suitable primers, as well as the presence of chimeric products or fidelity errors during PCR amplification [130] had been considered as the major limitations of DGGE for assessing the microbial community structure. Regardless, this method is still able to provide a general and rapid structural characterization of water bacteria clusters, as supported by Du et al [131] who observed the dominative river sediment bacteria which drive the overall increase of bacterial density in the presence of heavy metals.…”

Section: Assessment Of Microbial Community Using Molecular Fingerprinting Techniquesmentioning

confidence: 99%

A Review of Current and Emerging Approaches for Water Pollution Monitoring

Zolkefli

Sharuddin

Yusoff

et al. 2020

Water

View full text Add to dashboard Cite

The aquatic ecosystem is continuously threatened by the infiltration and discharge of anthropogenic wastewaters. This issue requires the unending improvement of monitoring systems to become more comprehensive and specific to targeted pollutants. This review intended to elucidate the overall aspects explored by researchers in developing better water pollution monitoring tools in recent years. The discussion is encircled around three main elements that have been extensively used as the basis for the development of monitoring methods, namely the dissolved compounds, bacterial indicator, and nucleic acids. The latest technologies applied in wastewater and surface water mapped from these key players were reviewed and categorized into physicochemical and compound characterizations, biomonitoring, and molecular approaches in taxonomical and functional analyses. Overall, researchers are continuously rallying to enhance the detection of causal source for water pollution through either conventional or mostly advanced approaches focusing on spectrometry, high-throughput sequencing, and flow cytometry technology among others. From this review’s perspective, each pollution evaluation technology has its own advantages and it would be beneficial for several aspects of pollutants assessments to be combined and established as a complementary package for better aquatic environmental management in the long run.

show abstract

Section: Assessment Of Microbial Community Using Molecular Fingerprinting Techniquesmentioning

confidence: 99%

A Review of Current and Emerging Approaches for Water Pollution Monitoring

Zolkefli

Sharuddin

Yusoff

et al. 2020

Water

View full text Add to dashboard Cite

show abstract

“…• dobór odpowiedniego startera do przedstawiania całej populacji mikroorganizmów, Metody DGGE/TGGE znajdują szerokie zastosowanie w badaniach dotyczących ekologii mikroorganizmów, a zwłaszcza w wykrywaniu i porównywaniu populacji drobnoustrojów, a także w analizie mikrobiologicznej różnorodności w obrębie różnych środowisk, w tym także gleb skażonych [5,41].…”

Section: Elektroforeza W Gradiencie Denaturującym Dgge Elektroforezaunclassified

“…Polimorfizm konformacji jednoniciowych fragmentów DNA, SSCP (Single Strand Conformation Polymorphism), jest to tzw. technika "odcisków palca" -"fingerprinting" mająca na celu rozdział elektroforetyczny fragmentów DNA o tej samej długości zgodnie z ich różnicami w ruchliwości, wywołanymi zmianami w strukturze drugorzędowej [5,33]. Metoda ta umożliwia różnicowanie cząsteczek DNA o takiej samej dłu gości, ale różnej sekwencje nukleotydowej [10].…”

Section: Polimorfizm Konformacji Jednoniciowych Fragmentów Dna Sscpunclassified

“…Zalety techniki PCR-SSCP są podobne jak w technice DGGE/TGGE z dodatkową korzyścią, że nie wymagają zastosowania tzw. ogona GC, gradientowej budowy żeli poliakrylamidowych oraz specjalistycznej aparatury [5,10,30,36,62]. W związku z tym jest łatwiejszą techniką w porównaniu do DGGE [62].…”

Section: Polimorfizm Konformacji Jednoniciowych Fragmentów Dna Sscpunclassified

“…"ogon" = "zacisk" GC, czyli fragment około 30 ÷ 40 par zasad GC, charakteryzujący się wysoką temperaturą topnienia, dzięki temu zapobiegamy całkowitemu rozszczepieniu (dysocjacji) nici DNA (przynajmniej część DNA pozostaje dwuniciowa). W przypadku braku "ogona" GC, DNA będzie ulegało denaturacji na pojedyncze nici [5,8,10,35,56,87]. Najczęściej używanym "zaciskiem" GC jest zaprojektowany przez Muyzer i wsp.…”

Section: Elektroforeza W Gradiencie Denaturującym Dgge Elektroforeza W Gradiencie Temperatury Tggeunclassified

See 2 more Smart Citations

Genetic differentiation methods of microorganisms in the soil – plant system

Łyszcz

Gałązka

2017

Postępy Mikrobiologii - Advancements of Microbiology

View full text Add to dashboard Cite

Biodiversity is a key concept in finding important features of new microorganisms. Microorganisms play an important role in the soil ecosystem and participate, among others, in such processes as the maintenance of soil structure, humification, release of organic compounds, disposal of pollutants and transformation of organic matter. The maintenance of competent state of soil microbial communities, i.e. the appropriate microorganism count, activity and diversity, is a necessary condition for the functioning of a highly complex system such as the soil. Phyllosphere bacteria have the potential to influence plant biogeography and ecosystem function through their influence on plant performance under different environmental conditions, but the drivers of variation in leaf-associated bacterial biodiversity among host plants are not well understood. Hence, undoubtedly, an important research aspect is the selection and development of indicators to evaluate microbial biodiversity of the soil and plant phyllosphere. In this publication, selected molecular methods used for the diversity assessment of microorganisms have been presented.

show abstract

Application of molecular techniques for the assessment of microorganism diversity on cultural heritage objects.

2014

View full text Add to dashboard Cite

As a result of their unpredictable ability to adapt to varying environmental conditions, microorganisms inhabit different types of biological niches on Earth. Owing to the key role of microorganisms in many biogeochemical processes, trends in modern microbiology emphasize the need to know and understand the structure and function of complex microbial communities. This is particularly important if the strategy relates to microbial communities that cause biodeterioration of materials that constitute our cultural heritage. Until recently, the detection and identification of microorganisms inhabiting objects of cultural value was based only on cultivation-dependent methods. In spite of many advantages, these methods provide limited information because they identify only viable organisms capable of growth under standard laboratory conditions. However, in order to carry out proper conservation and renovation, it is necessary to know the complete composition of microbial communities and their activity. This paper presents and characterizes modern techniques such as genetic fingerprinting and clone library construction for the assessment of microbial diversity based on molecular biology. Molecular methods represent a favourable alternative to culturedependent methods and make it possible to assess the biodiversity of microorganisms inhabiting technical materials and cultural heritage objects.

show abstract

Gel Electrophoresis Based Genetic Fingerprinting Techniques on Environmental Ecology

Cited by 3 publications

References 63 publications

A Review of Current and Emerging Approaches for Water Pollution Monitoring

A Review of Current and Emerging Approaches for Water Pollution Monitoring

Genetic differentiation methods of microorganisms in the soil – plant system

Application of molecular techniques for the assessment of microorganism diversity on cultural heritage objects.

Contact Info

Product

Resources

About