Biochemistry & Physiology: Open Access
Open Access

Soil biota, comprising microorganisms (bacteria, fungi, archaea), microfauna (nematodes, protozoa), and macrofauna (earthworms, arthropods), play pivotal roles in nutrient cycling, organic matter decomposition, and soil structure formation. To understand these complex biological processes, researchers employ a range of biochemical and physiological methodologies. This article provides an overview of these methods, focusing on their applications and contributions to soil biota research [2].

Microbial Respiration Assays

Methodology

Microbial respiration assays measure the rate of CO2 production by soil microorganisms, providing insights into microbial metabolic activity and soil health. The most common approach involves incubating soil samples and quantifying CO2 evolution using gas chromatography or infrared gas analyzers.

Applications

• Soil Health Assessment: Respiration rates indicate microbial activity levels and soil fertility.
• Impact of Environmental Changes: Assessing how factors such as moisture, temperature, and pollution affect microbial activity [3].
• Carbon Cycling Studies: Understanding microbial contributions to soil carbon dynamics.

Enzyme Activity Measurements

Methodology

Soil enzymes, produced by microorganisms and plant roots, mediate crucial biochemical processes. Enzyme activity assays involve adding specific substrates to soil samples and quantifying the resulting product, often using colorimetric or fluorometric methods [4].

Applications

• Nutrient Cycling: Enzymes like phosphatases, cellulases, and proteases are indicators of nutrient availability and organic matter decomposition.
• Soil Quality Monitoring: Enzyme activities reflect soil microbial functional diversity and environmental stress responses.
• Pollution Impact: Assessing changes in enzyme activities to monitor soil contamination and bioremediation efforts.

Stable Isotope Probing (SIP)

Methodology

Stable isotope probing (SIP) uses isotopically labeled compounds (e.g., ^13C or ^15N) to trace the incorporation of these elements into microbial biomass [5]. Following incubation with labeled substrates, microbial DNA, RNA, or proteins are extracted and analyzed to identify active microorganisms and their metabolic pathways.

Applications

• Microbial Ecology: Identifying active microorganisms involved in specific metabolic processes.
• Carbon and Nitrogen Cycling: Tracing the flow of carbon and nitrogen through soil microbial communities.
• Functional Group Identification: Linking microbial taxa with their ecological functions.

Metagenomics and Metatranscriptomics

Methodology

Metagenomics involves sequencing the collective genome of soil microbial communities, while metatranscriptomics focuses on their active gene expression [6-9]. High-throughput sequencing technologies provide comprehensive profiles of microbial diversity and functional potential.

Applications

• Microbial Diversity: Revealing the taxonomic composition and genetic diversity of soil biota.
• Functional Potential: Identifying genes and metabolic pathways involved in nutrient cycling and stress responses.
• Environmental Impact Studies: Assessing how environmental changes influence microbial community structure and function.

Soil Microfauna Analysis

Methodology

Soil microfauna, such as nematodes and protozoa, are extracted using methods like centrifugation, flotation, or filtration. Morphological identification and molecular techniques (e.g., DNA barcoding) are employed to characterize these organisms.

Applications

• Soil Food Web Dynamics: Understanding predator-prey relationships and energy flow within soil ecosystems.
• Indicator Species: Using microfauna as bioindicators of soil health and pollution.
• Ecosystem Functioning: Assessing the roles of microfauna in nutrient cycling and organic matter decomposition.

Conclusion

Integrating biochemical and physiological methodologies provides a comprehensive understanding of soil biota and their functional dynamics. Techniques such as microbial respiration assays, enzyme activity measurements, stable isotope probing, and metagenomics offer valuable insights into the complex interactions and metabolic activities within soil ecosystems [10]. These methodologies not only enhance our knowledge of soil biology but also inform sustainable land management practices and environmental conservation efforts.

References

1. Rico Y (2019)Landscape genetics of Mexican biodiversity: a review. Acta Univ 29: 1894.

Indexed at, Google Scholar, Crossref

2. Moreno-Estrada A, Gignoux CR, Fernández-López JC, Zakharia F, Sikora M, et al.(2014)The genetics of Mexico recapitulates Native American substructure and affects biomedical traits. Science 344: 1280–1285.

Indexed at, Google Scholar, Crossref

3. Pokhrel S, Chhetri R (2021)A literature review on impact of COVID-19 pandemic on teaching and learning. High.Educ Future 8: 133–141.

Indexed at, Google Scholar, Crossref

4. Thompson TJU, Collings AJ, Earwaker H, Horsman G, Nakhaeizadeh S (2020)Forensic undergraduate education during and after the COVID-19 imposed lockdown: strategies and reflections from India and the UK. Forensic Sci Int 316: 110500.

Indexed at, Google Scholar, Crossref

5. Tóth D, Petrus K, Heckmann V, Simon G, Poór VS (2021)Application of photogrammetry in forensic pathology education of medical students in response to COVID-19. J Forensic Sci 66: 1533–1537.

Indexed at, Google Scholar, Crossref

6. Kader SN, Ng WB, Tan SW, Fung FM (2020)Building an interactive immersive virtual reality crime scene for future chemists to learn forensic science chemistry. J Chem Educ 97: 2651–2656.

Indexed at, Google Scholar, Crossref

7. Bretz SL (2019)Evidence for the importance of laboratory courses. J Chem Educ 96: 193–195.

Indexed at, Google Scholar, Crossref

8. Magni P, Guercini S, Leighton A, Dadour I (2013)Forensic entomologists: An evaluation of their status. J Insect Sci1 3: 1-5.

Indexed at, Google Scholar, Crossref

9. Shepherd JP (1993)Presenting expert evidence in criminal proceedings. Br Med J 307: 817–818.

Indexed at, Google Scholar, Crossref

10. Fenton N (2014)Assessing evidence and testing appropriate hypotheses. Sci. Justice 54: 502–504.

Indexed at, Google Scholar, Crossref