No abstract is provided for this article.
Although soil microorganisms spend most of their lifetime at dormant or resting states, they are quickly activated by substrate input and easily switch to growth. Under steady-state, the double-stranded DNA (dsDNA) content is considered as a measure of total microbial biomass while the RNA content mainly indicates the active microbial fraction. In growing population, however, an increase in DNA is solely related to replication of microbial cells, while the RNA, besides growth, is also involved in non-growth processes. Therefore, the dsDNA and RNA content increase differently during microbial growth, applying the RNA:dsDNA ratio as promising indicator of growth-related and non-growth microbial activity. To what extend the ratio can be used to comparatively infer investment in microbial biomass production versus maintenance-related synthesis following substrate induction remains to be studied. We measured the RNA:dsDNA ratios of representative soil types of four different ecozones before and after glucose addition to prove the prediction capacity of physiological status of soil microorganisms. The RNA:dsDNA ratio remained stable after activation of microorganisms in Retisol and Luvisol indicating balanced growth. In contrast, very moderate increase in DNA in sandy Calcisol was accompanied by disproportionally high increase in RNA. As a result, the RNA:dsDNA ratio in Calcisol with low nutrient status increased by 36-fold after glucose amendment, indicating strong non-growth related processes. The RNA recovery decreased exponentially with increasing clay content, indicating the strong association to the textures of the soil types. This suggests, that the underestimation of RNA yields in clayey soils biased the RNA:dsDNA ratio, and subsequently the physiological state of the microbial community is not adequately represented in soils clay contents exceeding 30%. Monitoring the relative changes in dynamics are required to overcome the restricted applicability of RNA:dsDNA ratio in soils with high clay content.
Demand of all living organisms on the same nutrients forms the basis for interspecific competition between plants and microorganisms in soils. This competition is especially strong in the rhizosphere. To evaluate competitive and mutualistic interactions between plants and microorganisms and to analyse ecological consequences of these interactions, we analysed 424 data pairs from 41 (15)N-labelling studies that investigated (15)N redistribution between roots and microorganisms. Calculated Michaelis-Menten kinetics based on K(m) (Michaelis constant) and V(max) (maximum uptake capacity) values from 77 studies on the uptake of nitrate, ammonia, and amino acids by roots and microorganisms clearly showed that, shortly after nitrogen (N) mobilization from soil organic matter and litter, microorganisms take up most N. Lower K(m) values of microorganisms suggest that they are especially efficient at low N concentrations, but can also acquire more N at higher N concentrations (V(max)) compared with roots. Because of the unidirectional flow of nutrients from soil to roots, plants are the winners for N acquisition in the long run. Therefore, despite strong competition between roots and microorganisms for N, a temporal niche differentiation reflecting their generation times leads to mutualistic relationships in the rhizosphere. This temporal niche differentiation is highly relevant ecologically because it: protects ecosystems from N losses by leaching during periods of slow or no root uptake; continuously provides roots with available N according to plant demand; and contributes to the evolutionary development of mutualistic interactions between roots and microorganisms.
Sugars are the most abundant organic compounds in the biosphere because they are monomers of all polysaccharides. We summarize the results of the last 40 years on the sources, content, composition and fate of sugars in soil and discuss their main functions. We especially focus on sugar uptake, utilization and recycling by microorganisms as this is by far the dominating process of sugar transformation in soil compared to sorption, leaching or plant uptake. Moreover, sugars are the most important carbon (C) and energy source for soil microorganisms. Two databases have been created. The 1st database focused on the contents of cellulose, non-cellulose, hot-water and cold-water extractable sugars in soils (348 data, 32 studies). This enabled determining the primary (plant-derived) and secondary (microbially and soil organic matter (SOM) derived) sources of carbohydrates in soil based on the galactose + mannose/arabinose + xylose (GM/AX) ratio. The 2nd database focused on the fate of sugar C in soils (734 data pairs, 32 studies using 13C or 14C labeled sugars). 13C and 14C dynamics enabled calculating the: 1) initial rate of sugar mineralization, 2) mean residence time (MRT) of C of the applied sugars, and 3) MRT of sugar C incorporated into 3a) microbial biomass and 3b) SOM. The content of hexoses was 3–4 times higher than pentoses, because hexoses originate from plants and microorganisms. The GM/AX ratio of non-cellulose sugars revealed a lower contribution of hexoses in cropland and grassland (ratio 0.7–1) compare to forest (ratio 1.5) soils. 13C and 14C studies showed very high initial rate of glucose mineralization (1.1% min−1) and much higher rate of sugars uptake by microorganisms from the soil solution. Considering this rate along with the glucose input from plants and its content in soil solution, we estimate that only about 20% of all sugars in soil originate from the primary source – decomposition of plant litter and rhizodeposits. The remaining 80% originates from the secondary source – microorganisms and their residues. The estimated MRT of sugar C in microbial biomass was about 230 days, showing intense and efficient internal recycling within microorganisms. The assessed MRT of sugar C in SOM was about 360 days, reflecting the considerable accumulation of sugar C in microbial residues and its comparatively slow external recycling. The very rapid uptake of sugars by microorganisms and intensive recycling clearly demonstrate the importance of sugars for microbes in soil. We speculate that the most important functions of sugars in soil are to maintain and stimulate microbial activities in the rhizosphere and detritusphere leading to mobilization of nutrients by accelerated SOM decomposition – priming effects. We conclude that the actual contribution of sugar C (not only whole sugar molecules, which are usually determined) to SOM is much higher than the 10 ± 5% commonly measured based on their content.
The resource quantity and elemental stoichiometry play pivotal roles in shaping belowground biodiversity. However, a significant knowledge gap remains regarding the influence of different plant communities established through monoculture plantations on soil fungi and bacteria's taxonomic and functional dynamics. This study aimed to elucidate the mechanisms underlying the regulation and adaptation of microbial communities at the taxonomic and functional levels in response to communities formed over 34 years through monoculture plantations of coniferous species (Japanese larch, Armand pine, and Chinese pine), deciduous forest species (Katsura), and natural shrubland species (Asian hazel and Liaotung oak) in the temperate climate. The taxonomic and functional classifications of fungi and bacteria were examined for the mineral topsoil (0–10 cm) using MiSeq-sequencing and annotation tools of microorganisms (FAPROTAX and Funguild). Soil bacterial (6.52 ± 0.15) and fungal (4.46 ± 0.12) OTUs' diversity and richness (5.83*103±100 and 1.12*103±46.4, respectively) were higher in the Katsura plantation compared to Armand pine and Chinese pine. This difference was attributed to low soil DOC/OP (24) and DON/OP (11) ratios in the Katsura, indicating that phosphorus availability increased microbial community diversity. The Chinese pine plantation exhibited low functional diversity (3.34 ± 0.04) and richness (45.2 ± 0.41) in bacterial and fungal communities (diversity 3.16 ± 0.15 and richness 56.8 ± 3.13), which could be attributed to the high C/N ratio (25) of litter. These findings suggested that ecological stoichiometry, such as of enzyme, litter C/N, soil DOC/DOP, and DON/DOP ratios, was a sign of the decoupling of soil microorganisms at the genetic and functional levels to land restoration by plantations. It was found that the stoichiometric ratios of plant biomass served as indicators of microbial functions, whereas the stoichiometric ratios of available nutrients in soil regulated microbial genetic diversity. Therefore, nutrient stoichiometry could serve as a strong predictor of microbial diversity and composition during forest restoration.
'Priming Effects in Relation to Soil Conditions – Mechanisms' published in 'Encyclopedia of Agrophysics'
No abstract is provided for this article.
Energy is the driver of all microbial processes in soil. The changes in Gibbs energy are equal to the enthalpy changes during all processes in soil because these processes are ongoing under constant pressure and volume-without work generation. The enthalpy change by transformation of individual organic compounds or of complex organic matter in soil can be exactly quantified by the nominal oxidation state of carbon changes. Consequently, microbial energy use efficiency can be assessed by the complete combustion enthalpy of organic compounds when microorganisms use O