<abstract xmlns="http://www.w3.org/1999/xhtml">

<p>Many methods have been developed for studying and comparing bacterial diversity. These methods suffer from a number of drawbacks. Culture-dependent methods have a drawback that only a small number of bacteria can be cultured. Although many modifications in the traditional cultivation approach have been made, such as the use of gellan instead of agar and high throughput dilution to extinction culturing, but a large fraction of microbes still remain uncultured. Culture-independent methods were developed to explore uncultured bacterial diversity but they have their own drawbacks. PCR-based methods have biases during DNA extraction and the removal of substances that may inhibit polymerase activity during PCR and digestion with restriction enzymes. “Omics” approach, i.e., metagenomics, metatranscriptomics, and metaproteomics, aim to link bacterial community structure with function. Different combinations of methods can be used to know more precisely about the bacterial diversity. To date, no known method can reveal the exact bacterial diversity of different environments. This lacuna needs to be filled and newer methods must be developed that can help in exploring the immense bacterial diversity created by nature.</p>
</abstract>

Many methods have been developed for studying and comparing bacterial diversity. These methods suffer from a number of drawbacks. Culture-dependent methods have a drawback that only a small number of bacteria can be cultured. Although many modifications in the traditional cultivation approach have been made, such as the use of gellan instead of agar and high throughput dilution to extinction culturing, but a large fraction of microbes still remain uncultured. Culture-independent methods were developed to explore uncultured bacterial diversity but they have their own drawbacks. PCR-based methods have biases during DNA extraction and the removal of substances that may inhibit polymerase activity during PCR and digestion with restriction enzymes. “Omics” approach, i.e., metagenomics, metatranscriptomics, and metaproteomics, aim to link bacterial community structure with function. Different combinations of methods can be used to know more precisely about the bacterial diversity. To date, no known method can reveal the exact bacterial diversity of different environments. This lacuna needs to be filled and newer methods must be developed that can help in exploring the immense bacterial diversity created by nature.

Exploring Bacterial Diversity: How Far Have We Reached?

Advancements of Microbiology

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

{"article-title":"Exploring Bacterial Diversity: How Far Have We Reached?"}

Many methods have been developed for studying and comparing bacterial diversity. These methods suffer from a number of drawbacks. Culture-dependent methods...

	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

Exploring Bacterial Diversity: How Far Have We Reached?

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

Słowa kluczowe
bacterial diversity, culture-dependent methods, metagenomics, metaproteomics, metatranscriptomics, T-RFLP

© 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.

Fig. 2.

Fig. 3.

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

Exploring Bacterial Diversity: How Far Have We Reached?

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

Słowa kluczowebacterial diversity, culture-dependent methods, metagenomics, metaproteomics, metatranscriptomics, T-RFLP

© 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.

Fig. 2.

Fig. 3.

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

Słowa kluczowe
bacterial diversity, culture-dependent methods, metagenomics, metaproteomics, metatranscriptomics, T-RFLP