Irene F. Torres

Soil restoration with organic amendments: linking cellular functionality and ecosystem processes

A hot topic in recent decades, the application of organic amendments to arid-degraded soils has been shown to benefit microbially-mediated processes. However, despite the importance of soils for global sustainability, a gap has not been addressed yet in soil science: is there any connection between ecosystem-community processes, cellular functionality, and microbial lifestyles (i.e. oligotrophy-copiotrophy) in restored soils? Together with classical ecosystem indicators (fatty-acids, extracellular-enzyme activities, basal respiration), state-of-the-art metaproteomics was applied to fill this gap in a model-restoration experiment initiated 10-years ago by the addition of sewage-sludge and compost. Organic amendment strongly impacted ecosystem processes. Furthermore, the type of material used induced differences in the cellular functionalities through variations in the percentages of proteins involved in translation, transcription, energy production and C-fixation. We conclude that the long-term impact of organic restoration goes beyond ecosystem processes and affects cellular functionalities and phyla-lifestyles coupled with differences in microbial-community structures.

The active microbial diversity drives ecosystem multifunctionality and is physiologically related to carbon availability in Mediterranean semi-arid soils.

Biogeochemical processes and ecosystemic functions are mostly driven by soil microbial communities. However, most methods focus on evaluating the total microbial community and fail to discriminate its active fraction which is linked to soil functionality. Precisely, the activity of the microbial community is strongly limited by the availability of organic carbon (C) in soils under arid and semi‐arid climate. Here, we provide a complementary genomic and metaproteomic approach to investigate the relationships between the diversity of the total community, the active diversity and ecosystem functionality across a dissolved organic carbon (DOC) gradient in southeast Spain. DOC correlated with the ecosystem multifunctionality index composed by soil respiration, enzyme activities (urease, alkaline phosphatase and β‐glucosidase) and microbial biomass (phospholipid fatty acids, PLFA). This study highlights that the active diversity (determined by metaprotoemics) but not the diversity of the whole microbial community (evaluated by amplicon gene sequencing) is related to the availability of organic C and it is also connected to the ecosystem multifunctionality index. We reveal that DOC shapes the activities of bacterial and fungal populations in Mediterranean semi‐arid soils and determines the compartmentalization of functional niches. For instance, Rhizobales thrived at high‐DOC sites probably fuelled by metabolism of one‐C compounds. Moreover, the analysis of proteins involved in the transport and metabolism of carbohydrates revealed that Ascomycota and Basidiomycota occupied different nutritional niches. The functional mechanisms for niche specialization were not constant across the DOC gradient.

Differential sensitivity of total and active soil microbial communities to drought and forest management

Climate change will affect semiarid ecosystems through severe droughts that increase the competition for resources in plant and microbial communities. In these habitats, adaptations to climate change may consist of thinning-that reduces competition for resources through a decrease in tree density and the promotion of plant survival. We deciphered the functional and phylogenetic responses of the microbial community to 6 years of drought induced by rainfall exclusion and how forest management affects its resistance to drought, in a semiarid forest ecosystem dominated by Pinus halepensis Mill. A multiOMIC approach was applied to reveal novel, community-based strategies in the face of climate change. The diversity and the composition of the total and active soil microbiome were evaluated by 16S rRNA gene (bacteria) and ITS (fungal) sequencing, and by metaproteomics. The microbial biomass was analyzed by phospholipid fatty acids (PLFAs), and the microbially mediated ecosystem multifunctionality was studied by the integration of soil enzyme activities related to the cycles of C, N, and P. The microbial biomass and ecosystem multifunctionality decreased in drought-plots, as a consequence of the lower soil moisture and poorer plant development, but this decrease was more notable in unthinned plots. The structure and diversity of the total bacterial community was unaffected by drought at phylum and order level, but did so at genus level, and was influenced by seasonality. However, the total fungal community and the active microbial community were more sensitive to drought and were related to ecosystem multifunctionality. Thinning in plots without drought increased the active diversity while the total diversity was not affected. Thinning promoted the resistance of ecosystem multifunctionality to drought through changes in the active microbial community. The integration of total and active microbiome analyses avoids misinterpretations of the links between the soil microbial community and climate change.

Compost, leonardite, and zeolite impacts on soil microbial community under barley crops

There is little information about the potential effects of compost and zeolite or zeolite with leonardite as soil amendments in barley cultivation. Thus in this study, the following objectives were proposed: i) to compare the effects of the addition of compost, alone or simultaneously with zeolite, and of the addition of leonarditeenriched zeolite with those of the conventional NPK fertilization used in barley cultivation, on the soil nutritional status, microbial community structure, and enzyme activity in different stages of barley cultivation; and ii) to establish relationships between the different soil parameter trends, soil microbial community structure, and barley crop yield. In the field experiment carried out with a barley crop, the alternative fertilization treatments tested had an overall positive effect, in comparison with conventional fertilization with a mineral NPK fertilizer, when soil quality parameters, the nutritional level and yield of the barley crop were analyzed. Zeolite with leonardite increased barley yield in comparison with the compost treatments, either with zeolite or without, but had an excessive contribution to the water soluble contents of Na and N in soil. So, using environmental and agronomic criteria, the most rational action would be the use of compost in agriculture.

Enzyme activity, microbial biomass and community structure in a long-term restored soil under semi-arid conditions

Our aim was to evaluate the long-term influences of urban organic amendments on the enzymes involved in the carbon cycle under semi-arid conditions, including changes in the biomass and structure of the microbial community. A soil was restored 24 years ago with an organic amendment based on domestic organic waste. Organic amendment was applied to soil in order to increase the content of total organic carbon (TOC) by 0.5% and 1.5% with respect to the original TOC content. Enzyme isoform composition was studied by using zymographic techniques based on protein extraction, separation by gel electrophoresis and further enzyme-specific, in-gel staining. Total cellulose and β-glucosidase activities, microbial biomass estimated by phospholipid-fatty acid analysis and the number of isoforms of each enzyme showed increases related to the initial amount of organic amendment and the consequent development of vegetation. The information obtained by enzyme activity assays may be improved by the use of zymographic techniques, which allow the investigation of the variety of isoforms of each enzyme. This information could improve the understanding of the relationship between the microbial community and carbon cycling in restored areas.