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Exploring Bacterial Diversity: How Far Have We Reached?

Himani Pandey

Himani Pandey

Redcliffe Labs, Electronic CityNoida, India
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Pandey, Himani
 oraz 
Devi Lal

Devi Lal

Ramjas College, University of DelhiDelhi, India
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Lal, Devi
  
09 lis 2023
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Data publikacji: 09 lis 2023
Zakres stron: 117 - 131
Otrzymano: 01 paź 2022
Przyjęty: 01 sty 2023
DOI: https://doi.org/10.2478/am-2023-0011
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© 2023 Himani Pandey et al., published by Sciendo
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

Fig. 1.

Systematic representation of 16S rRNA clone library construction and subsequent screening and sequencing clones.
Systematic representation of 16S rRNA clone library construction and subsequent screening and sequencing clones.

Fig. 2.

Denaturing Gradient Gel Electrophoresis. The figure shows 16S rRNA gene amplification from community DNA followed by gel electrophoresis. Wells A to D contain amplified products from individual bacterial species, well E contains a mixture of amplified products from A to D, well F contains amplified product from the soil community. The conventional agarose gel electrophoresis results in a single non-descriptive band but separation on denaturing acrylamide gels results in multiple bands, each representing the dominant member of the community.
Denaturing Gradient Gel Electrophoresis. The figure shows 16S rRNA gene amplification from community DNA followed by gel electrophoresis. Wells A to D contain amplified products from individual bacterial species, well E contains a mixture of amplified products from A to D, well F contains amplified product from the soil community. The conventional agarose gel electrophoresis results in a single non-descriptive band but separation on denaturing acrylamide gels results in multiple bands, each representing the dominant member of the community.

Fig. 3.

Terminal restriction fragment length polymorphism. The capillary electrophoresis system of an automated DNA sequencer to separate the digested product is used to obtain T-RFs shown as an electropherogram.
Terminal restriction fragment length polymorphism. The capillary electrophoresis system of an automated DNA sequencer to separate the digested product is used to obtain T-RFs shown as an electropherogram.

Pros and cons of culture-dependent and culture-independent approaches for exploring bacterial diversity_

Pros Cons
Culture-dependent approaches

Provides knowledge about physiological or functional properties of bacteria.

Inexpensive.

Only culturable bacteria can be studied.

Favours fast growing bacteria.
Culture-independent approaches

Non-cultivable bacteria can be detected.

Many samples can be analyzed simultaneously.

Help in linking bacterial community structure and function.

Differences in DNA extraction efficiency.

Bias due to differential amplification of 16S rRNA gene.

Interpretation of bands/peaks difficult and time consuming.

Problems during sequence assembly and interpretations.

Expensive
Języki:
Angielski, Polski
Częstotliwość wydawania:
4 razy w roku
Dziedziny czasopisma:
Nauki biologiczne, Mikrobiologia i wirusologia
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