Phospholipid fatty acids in soil—drawbacks and future prospects

The current opinion and position paper highlights (1) correct assignation of indicator phospholipid fatty acids (PLFA), (2) specificity and recycling of PLFA in microorganisms, and (3) complete extraction and detection of PLFA. The straight-chain PLFA 14:0, 15:0, 16:0, and 17:0 occur in all microorganisms, i.e., also in fungi and not only in bacteria. If the phylum Actinobacteria is excluded from the group of Gram-positive bacteria, all remaining bacteria belong to the bacterial phylum Firmicutes, which should be considered. The PLFA 16:1ω5 should be used as an indicator for the biomass of arbuscular mycorrhizal fungi (AMF) as there is no experimental evidence that they occur in marked amounts in Gram-negative bacteria. Fungal PLFA should embrace the AMF-specific 16:1ω5. In the presence of plants, ergosterol should be used instead of the PLFA 18:2ω6,9 and 18:1ω9 as fungal indicators for Mucoromycotina, Ascomycota, and Basidiomycota. The majority of indicator PLFA are not fully specific for a certain microbial group. This problem might be intensified by recycling processes during decomposition to an unknown extent. Soil handling and extraction conditions should be further optimized. The reliability and accuracy of gas chromatographic separation need to be regularly checked against unintentional variations. PLFA analysis will still be of interest over the next decades as an important independent control of DNA-based methods.

Phospholipid biomarkers analysis as a tool for microbial community assessment on radionuclides contaminated territories

The presence of specific components in the environment can change the state of cenoses. The effect of ionizing radiation on plant communities, animals and humans have been well studied, while the effect on soil microflora has not been insufficiently studied. In this paper investigated the effect of radionuclide contamination on microflora of soil samples from the territory of PTLRW "Red Forest 1" (trench), "Red Forest 2" (outside the trench), " Cooling Pond " and " Zalissia ". Phospholipid fatty acid (PLFA) content was obtained by PLFA analysis. The highest level of total PLFA was observed in the territory of "Zalissia" which was 17.40 ± 10.59 μg / h. From the territory of PTLRW "Red Forest 1" (trench) and "Red Forest 2" (outside the trench) the level of total PLFA was 16.29 ± 3.43 μg / g and 16.40 ± 2.90 μg / h, respectively. The PLFA content of the "Cooling Pond" was significantly different from the "Red Forest" and " Zalissia ". The taxonomic groups assessment of the samples, a fungus, gram-positive and gram-negative bacteria content increased in PTLRW "Red Forest" relative to the point "Zalissia ".

Assessing the Microbial Communities in Four Different Daqusby Using PCR-DGGE, PLFA, and Biolog Analyses

Daqu made from raw wheat, barley or pea is used as an inoculum for the fermentation of Chinese Baijiu. In this study, the microbial communities of four different types of Daqus (sauce-flavor Wuling Daqu, sauce and strong-flavor Baisha Daqu, strong-flavor Deshan Daqu, and light-flavor Niulanshan Daqu) were analyzed by polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE), phospholipid fatty acid (PLFA) analysis, and Biolog EcoPlates analysis (Biolog). Clear differences were seen between the microbial communities of the four Daqus. PCR-DGGE showed differences in the number and brightness of bands between the Daqus, indicating the presence of unique bacterial species in Deshan Daqu, Wuling Daqu, and Niulanshan Daqu. Lactobacillus sanfranciscensis, Bacillus thermoamylovorans, and some unclassified bacteria were unique to Wuling Daqu, Deshan Daqu, and Niulanshan Daqu, respectively. Moreover, some bacterial species were observed in all four Daqus. A total of 26 PLFAs between C12 to C20 were detected from the four Daqus by PLFA analysis. Wuling Daqu had the highest total and fungal biomasses, Baisha Daqu had the highest bacterial biomass, and Niulanshan Daqu had the highest ratio of fungal biomass to bacterial biomass. The Biolog results indicated differences in the carbon source use and mode of the four Daqus, and also demonstrated that each Daqu had varying abilities to utilize different types of carbon sources. The cluster analysis of the three methods showed that the microbial communities of the four Daqus were different. This study also demonstrates the applicability of the three analytical methods in the evaluating of the microbial communities of Daqus.