Liu, Z.; Zhang, C.; Ma, J.; Peng, Q.; Du, X.; Sun, S.; Cheng, J.; Peng, W.; Chen, L.; Gu, Z.; Zhang, W.; Su, P.; Zhang, D. Extraction Methods Determine the Quality of Soil Microbiota Acquisition. Microorganisms2024, 12, 403.
Liu, Z.; Zhang, C.; Ma, J.; Peng, Q.; Du, X.; Sun, S.; Cheng, J.; Peng, W.; Chen, L.; Gu, Z.; Zhang, W.; Su, P.; Zhang, D. Extraction Methods Determine the Quality of Soil Microbiota Acquisition. Microorganisms 2024, 12, 403.
Liu, Z.; Zhang, C.; Ma, J.; Peng, Q.; Du, X.; Sun, S.; Cheng, J.; Peng, W.; Chen, L.; Gu, Z.; Zhang, W.; Su, P.; Zhang, D. Extraction Methods Determine the Quality of Soil Microbiota Acquisition. Microorganisms2024, 12, 403.
Liu, Z.; Zhang, C.; Ma, J.; Peng, Q.; Du, X.; Sun, S.; Cheng, J.; Peng, W.; Chen, L.; Gu, Z.; Zhang, W.; Su, P.; Zhang, D. Extraction Methods Determine the Quality of Soil Microbiota Acquisition. Microorganisms 2024, 12, 403.
Abstract
Soil microbiome plays key role in plant health. Native soil microbiome inoculation, metagenomic profiling and high-throughput cultivation require efficient microbe extraction. The sonication and oscillation are most common methods to extract soil microbiome. However, the extraction efficiency of those methods has barely been investigated. Here, we compared the culturable microbe numbers, community structures and alpha diversities among the methods including sonication, oscillation, centrifugation and their processing time. The results showed that, sonication significantly increases culturable colony number compare with oscillation and centrifugation factors. Furthermore, sonication strategy shows a main factor influence extraction efficiency, but increased sonication time can recovery this impact. Finally, processing times of extraction show a significant negative relationship with α diversity among extracted microbiota. In conclusion, sonication is a main factor for enrich in-suit microbiota, and increased extraction time significantly decrease α diversity of extracted microbiota. These results can provide insights into the isolation and utilization of microorganism source.
Keywords
extraction microbiota; microbiota diversity; sonication; oscillation; processing times
Subject
Biology and Life Sciences, Biology and Biotechnology
Copyright:
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
