Belowground Plant Research Articles

Precipitation- rather than temperature-driven pattern in belowground biomass and root:shoot ratio across the Qinghai-Tibet Plateau

The Qinghai-Tibet Plateau faces dramatic global change, which can greatly affect its plant growth, biomass accumulation, and carbon cycling. However, it is still unclear how belowground plant biomass, which is the major part of vegetation biomass on the plateau, changes with different environmental factors, impeding accurate prediction of ecosystem carbon cycling under future global change scenarios.To reveal the patterns of belowground biomass and root:shoot ratio with environmental factors in different vegetation types on the Qinghai-Tibet Plateau, we synthesized data for 158 sites from 167 publications, including 585 and 379 observations for above- and below-ground biomass, respectively. Data on temperature, precipitation, soil nitrogen content, evapotranspiration and solar radiation were collected from open databases.The results showed that precipitation, rather than temperature, was closely associated with other environmental factors including soil N and solar radiation. Also, both above- and below-ground biomass significantly increased with annual precipitation and its related environmental factors, while elevation-related coldness only slightly decreased aboveground biomass. In addition, the positive effect of precipitation on belowground biomass is more obvious in higher elevations (colder areas). As a result, root:shoot ratio significantly increased with precipitation in colder areas but not in warmer areas. Finally, the positive relationship between biomass and precipitation was stronger for dryer steppes than for wetter meadows and shrublands.Our findings indicate that precipitation, as well as the associated nitrogen availability and solar radiation, together are more important drivers than temperature for ecosystem productivity and biomass allocation on the Qinghai-Tibet Plateau. Given the heterogeneous trend of precipitation change on the plateau, productivity response to global change can be highly variable across different regions and vegetation types, which can consequently impact soil carbon dynamics and regional carbon cycling.

Defined synthetic microbial communities colonize and benefit field-grown sorghum.

The rhizosphere constitutes a dynamic interface between plant hosts and their associated microbial communities. Despite the acknowledged potential for enhancing plant fitness by manipulating the rhizosphere, the engineering of the rhizosphere microbiome through inoculation has posed significant challenges. These challenges are thought to arise from the competitive microbial ecosystem where introduced microbes must survive, and the absence of adaptation to the specific metabolic and environmental demands of the rhizosphere. Here, we engineered a synthetic rhizosphere community (SRC1) with the anticipation that it would exhibit a selective advantage in colonizing the host Sorghum bicolor, thereby potentially fostering its growth. SRC1 was assembled from bacterial isolates identified either for their potential role in community cohesion through network analysis or for their ability to benefit from host-specific exudate compounds. The growth performance of SRC1 was assessed in vitro on solid media, in planta under gnotobiotic laboratory conditions, and in the field. Our findings reveal that SRC1 cohesion is most robust when cultivated in the presence of the plant host under laboratory conditions, with lineages being lost from the community when grown either in vitro or in a native field setting. We establish that SRC1 effectively promotes the growth of both above- and below-ground plant phenotypes in both laboratory and native field contexts. Furthermore, in laboratory conditions, these growth enhancements correlate with the transcriptional dampening of lignin biosynthesis in the host. Collectively, these results underscore the potential utility of synthetic microbial communities for modulating crop performance in controlled and native environments alike.

Phytoreactor for Arsenic Biodetoxification: An Integrated Sequential Process of Phytoremediation Involving Multi-Kingdom Organisms

Phytoremediation of polluted environments has received attention and developed rapidly in recent decades. Plant performance assessment is conducted around the effectiveness and efficiency of reducing the concentration of pollutants and certain plant-associated organisms. While supporting these advances, this paper aims to develop integrated phytoremediation as a pollutant treatment reactor involving all processes and multi-kingdoms of organisms, referred to as phytoreactor. The data collected comes from the results of previous studies related to various kinds of phytoremediation processes. Screening and selection of data were based on criteria for differences in plant processes, involvement of various plant-associated organisms, and aesthetics. An arsenic pollutant, one of the most toxic metalloids and ubiquitous, the kingdom’s involvement of plant-associated organisms between aboveground and belowground plant parts. A new perspective in phytoremediation is creating a phytoreactor that integrates three sequential processes. Starting with the containment of toxic pollutants, followed by a primary process consisting of physicochemical and biological processes, and completed by a secondary process in plants, which produces nontoxic environmental media conditions. The primary biological processes are carried out in the rhizosphere and phyllosphere. The involvement of the plant-associated organism kingdom is different in the rhizosphere and phyllosphere due to the suitability of the habitat, the type of pollutant, and the aesthetics of the application of the phytoreactor. Phytoreactor for the remediation of polluted environments involves synergistic multi-kingdoms of plant-associated organisms for specific types of pollutants in the rhizosphere and phyllosphere.

Root and rhizosphere contribution to the net soil COS exchange

Background and aimsPartitioning the measured net ecosystem carbon dioxide (CO2) exchange into gross primary productivity (GPP) and ecosystem respiration remains a challenge, which scientists try to tackle by using the properties of the trace gas carbonyl sulfide (COS). Its similar pathway into and within the leaf makes it a potential photosynthesis proxy. The application of COS as an effective proxy depends, among other things, on a robust inventory of potential COS sinks and sources within ecosystems. While the soil received some attention during the last couple of years, the role of plant roots is mostly unknown. In our study, we investigated the effects of live roots on the soil COS exchange.MethodsAn experimental setup was devised to measure the soil and the belowground plant parts of young beech trees observed over the course of 9 months.ResultsDuring the growing season, COS emissions were significantly lower when roots were present compared to chambers only containing soil, while prior to the growing season, with photosynthetically inactive trees, the presence of roots increased COS emissions. The difference in the COS flux between root-influenced and uninfluenced soil was fairly constant within each month, with diurnal variations in the COS flux driven primarily by soil temperature changes rather than the presence or absence of roots.ConclusionWhile the mechanisms by which roots influence the COS exchange are largely unknown, their contribution to the overall ground surface COS exchange should not be neglected when quantifying the soil COS exchange.

Grazing weakens the linkages between plants and soil biotic communities in the alpine grassland

Livestock grazing alters the diversity and composition of plants and soil biota in grassland ecosystems. However, whether and how grazing affects plant-soil biota interactions are limited. Here, we performed a field investigation on the Tibetan grasslands to determine the relationships between plant community properties (biomass, diversity and richness) and soil biota (abundance, diversity and composition of bacteria, fungi and nematodes) in the long-term yak grazing and ungrazed plots, and responses of plant-soil biota linkages to grazing in alpine meadows and alpine swampy meadows were compared. The results found that grazing did not cause significant changes in plant community properties but increased the soil water content. Further, grazing weakened plant-soil microbes/nematode relationships in alpine meadows. The bacterial and fungal abundances were correlated with plant belowground biomass and Simpson index in the ungrazed plots of alpine meadows, while the correlation was not significant under grazing. Bacterial composition was correlated with plant richness only in the ungrazed meadows. Plant-soil nematode linkages were more sensitive to grazing than plant-microbes linkages. Grazing decoupled the relationships between the abundances of nematode trophic groups and plant aboveground biomass, richness and Simpson index in alpine meadows, while the decoupling phenomenon is less evident in alpine swampy meadows. The SEM results indicate that grazing altered the plant above- and belowground biomass to affect the soil nematode community, while influenced soil microbes only through alterations of plant belowground biomass. The findings highlight the importance of grazing in influencing the interactions between aboveground plant communities and soil biological communities in Tibetan grasslands.

The Supply of Macro- and Microelements to Cotton Plants at Different Distances from a Fertilizer Production Factory

Environmental pollution from industrial factories via air deposition is an urgent problem worldwide. Phosphate fertilizers, derived from rock phosphate, are characterized by the presence of potentially toxic elements, such as Zn, Co, Pb, Ni, Cr, Mn, Fe, and Cu, which are dispersed in the form of solid dust-like materials from the pipes of the factory. This study aimed to investigate the effects of airborne industrial emissions on the chemical and biochemical compositions of cotton grown in the immediate vicinity of a fertilizer factory in Uzbekistan. The composition of airborne dust deposited on the plants, the chemical composition of the cotton leaves before and after washing, as well as that of above- and below-ground plant organs, and their protein contents were determined. The concentrations of macro- and microelements in the leaves and roots were determined using an atomic absorption spectrophotometer. The fluorine contents in the leaves and in the roots were determined using a fluorine-selective electrode. The radius of dispersion of industrial emissions in the air was best described by measuring the fluorine contents in washed and unwashed cotton leaves. The relationships among P, K, Mg, Ca, S, F, and Mn in plant roots and leaves as a function of distance from the pollutant source were analyzed. Based on the fluorine contents in washed and unwashed cotton leaves, the two following zones of technogenic pollution were distinguished: the zone < 5 km from the factory, with high technogenic pollution, and the zone > 5 km from the factory, with moderate technogenic pollution. It was found that the resistance of cotton to air pollution from industrial emissions is determined by the ability of cotton plants to neutralize toxic compounds by increasing the influx of alkaline earth metals into the affected tissues. This study showed the possibility of growing cotton at a distance of >5 km from the fertilizer factory. It is strongly recommended to analyze the chemical composition of plants located in a highly polluted zone only after the dust particles have been washed off of the plant’s surface. Despite the resilience of cotton to industrial pollution, the monitoring of areas identified as pollution zones is recommended.

Nitrogen addition alters aboveground C:N:P stoichiometry of plants but not for belowground in an Inner Mongolia grassland

Abstract Nitrogen (N) deposition exhibits significant impacts on ecosystem functions and processes. Previous studies have indicated that N addition has an impact on the stoichiometry of plant leaf C:N:P ratios. However, few studies have focused on effects of N addition on belowground systems. This study aims to examine the impact of 7 years of N addition on above- and belowground C:N:P stoichiometry at plant community level in a temperate grassland located in Inner Mongolia. A 7-year field N addition experiment was conducted, which included six treatments: Cont: control; N1: 0.4 mol·m−2 N; N2: 0.8 mol·m−2 N; N3: 1.6 mol·m−2 N; N4: 2.8 mol·m−2 N; N5: 4 mol·m−2 N with six replicates. Above- and belowground plant biomass and C:N:P stoichiometry were measured and analyzed. Our results showed that N addition resulted in a reduction of aboveground C concentration, but an increase in aboveground N and P concentrations, with a decrease in C:N and C:P ratios and an increase in N:P ratio. Furthermore, the aboveground C, N, and P pools all exhibited an increase as a result of N addition. However, N addition did not have any significant effect on belowground C, N, P concentrations, ratios, pools, or stoichiometric characteristics in the soil layers of 0–10, 10–30, 30–50, and 50–100 cm. These results suggest that increasing levels of N deposition significantly alter the aboveground C:N:P stoichiometry at the plant community level, which may affect functions and processes in the grassland ecosystem, but have little effect on belowground C:N:P stoichiometry.

Aboveground antagonists mitigate belowground plant–antagonist interactions but not affect plant–mutualist interactions

Species interactions exert important influences on biodiversity and ecosystem stability. In complex natural communities, species interactions have gone beyond pairwise mechanisms, as interactions between two species can be regulated by one or more other species (higher-order species interactions). However, few studies consider higher-order interactions among organisms that are indirectly contacted, particularly under high soil nutrient conditions. Here, we performed a common garden experiment to investigate how natural herbivory (aboveground weevil) and simulated herbivory (leaf clipping) affect plant (Triadica sebifera) interactions with soil antagonists (root-knot nematodes) and mutualists (arbuscular mycorrhizal fungi; AMF) under nitrogen and phosphorus addition. We also tested the effects of nitrogen, phosphorus, and herbivory-stimuli on T. sebifera leaf extrafloral nectary (EFN) production. We found that T. sebifera can compensate for biomass loss caused by clipping or weevil feeding, moreover, high nitrogen availability caused plant biomass to outpace herbivory-stimuli. Plant–antagonist (root-knot nematodes) interactions were not affected by clipping or weevil feeding under ambient nitrogen condition but were reduced by clipping or weevil feeding under high nitrogen supply, however, we did not find the same pattern under phosphorus addition. Aboveground herbivory-stimuli did not affect plant–mutualist (AMF) interactions, whether fertilized or not. In addition, nitrogen addition stimulated plants to secrete more EFN against clipping but did not increase EFN production against weevil feeding. Clipping and weevil feeding exhibited consistent effects on both plant–antagonist (root-knot nematodes) interactions and plant–mutualist (AMF) interactions. These results suggest that aboveground antagonists mainly mitigate belowground plant–antagonist interactions but not affect plant–mutualist interactions, and higher-order species interactions depend on nitrogen addition but not phosphorus addition.

Effects of grazing on grassland biomass and biodiversity: A global synthesis

ContextLivestock grazing, a common method of grassland utilization, has profound effects on the plant biomass and biodiversity of grassland ecosystems. However, the overall directions and magnitudes of such effects, especially involving multiple livestock types and grazing seasons, remain poorly understood on a global scale. ObjectivesWe conducted a meta-analysis to evaluate the size and direction of the overall effects of grazing on grassland plant biomass and plant diversity; and to estimate the variation of these responses with area types, livestock types, grazing seasons, and grazing intensities. MethodsWe performed a comprehensive search of the Web of Science® and the China National Knowledge Infrastructure (CNKI) (1950–2019) using certain search terms, and considered the studies cited by several recent related syntheses. We compiled data from 175 field manipulative studies at 200 sites by selecting studies that satisfied five criteria. ResultsGrazing significantly decreased aboveground (−38.5%), belowground (−14.7%), and total biomass (−20.6%), but did not significantly change root–shoot ratio, species richness, or evenness. The effects of grazing on plant biomass and diversity depended on climate types and grazing patterns. Specifically, grazing significantly decreased plant total biomass and belowground biomass in dry areas only, but increased rootshoot ratio in wet areas only. Growing season and year-long grazing decreased total biomass, whereas non-growing season grazing had not changed total biomass. Among livestock types (bulk feeder, concentrate selectors, intermediate feeder or mixed), only intermediate feeder grazing significantly decreased belowground biomass (−16.5%) and total biomass (−25.3%). Heavy grazing significantly decreased belowground biomass (−19.2%), total biomass (−24.3%) and plant evenness (−21.2%), but not light and moderate grazing. ConclusionsAboveground biomass was more sensitive to grazing than belowground biomass, and only over grazing decreased grassland biodiversity. Under the same grazing intensities, mixed livestock or bulk feeder grazing in the non-growing season probably is one of the ways to maintain plant diversity and sustainable development of grassland agriculture. ImplicationsOur results highlight the key role of grazing patterns and climate types in mediating plant biomass and biodiversity in response to grazing disturbance, and should be considered in devising the sustainable grazing management of grasslands.

Organic Matter Content and Standard Material Decomposition Rate in Soils of the High Mountain Plant Communities of the Teberda National Park

Soils of the high mountain areas are very diverse by their organic matter content (SOM), by the factors underlying such diversity are still not fully known. In 16 subalpine, alpine and subnival plant communities of the Teberda national park (the north-western Caucasus) we studied physico-chemical and microbiological soil properties, and estimated parameters of standard material decomposition based on the Tea bag index (TBI): stabilization factor (STBI) and decomposition constant (kTBI). We tested the following hypitheses: (1) the SOM is one of predictors of STBI and kTBI in high mountain zone along with other physico-chemical soil properties; (2) the most of SOM content belongs to high STBI and low kTBI values; (3) the SOM content correlates with below-ground plant productivity. The main gradients of the studied soils are water content (automorphic vs. hydromorphic soils) and the concurrent SOM accumulation, as well as the altitudinal gradient with the decrease of soil basal respiration with elevation. The extent of nitrogen enrichment (e.g. SOM quality) of the labile fraction was the best predictor of the decomposition constant. STBI decreased with the increase of total carbon content and the losses on ignition, while the positive link between kTBI and SOM was observed only in automorphic soils. Thus, the soils rich in organic matter typically have low stabilization factor and relatively high decomposition constant. In the plant communities with herbaceous dominants, the SOM content was positively correlated with fine root production, this stresses the important role of productivity in the accumulation of organic matter.

Coordination of rooting, xylem, and stomatal strategies explains the response of conifer forest stands to multi-year drought in the southern Sierra Nevada of California

Abstract. Extreme droughts are a major determinant of ecosystem disturbance that impacts plant communities and feeds back into climate change through changes in plant functioning. However, the complex relationships between aboveground and belowground plant hydraulic traits and their role in governing plant responses to drought are not fully understood. In this study, we use a model, the Functionally Assembled Terrestrial Ecosystem Simulator in a configuration that includes plant hydraulics (FATES-Hydro), to investigate ecosystem responses to the 2012–2015 California drought in comparison with observations at a site in the southern Sierra Nevada that experienced widespread tree mortality during this drought. We conduct a sensitivity analysis to explore how different plant water sourcing and hydraulic strategies lead to differential responses during normal and drought conditions. The analysis shows the following. Deep roots that sustain productivity through the dry season are needed for the model to capture observed seasonal cycles of evapotranspiration (ET) and gross primary productivity (GPP) in normal years, and deep-rooted strategies are nonetheless subject to large reductions in ET and GPP when the deep soil reservoir is depleted during extreme droughts, in agreement with observations. Risky stomatal strategies lead to greater productivity during normal years as compared to safer stomatal control, but they also lead to a high risk of xylem embolism during the 2012–2015 drought. For a given stand density, stomatal and xylem traits have a stronger impact on plant water status than on ecosystem-level fluxes. Our study highlights the significance of resolving plant water sourcing strategies to represent drought impacts on plants and consequent feedbacks in models.

Invasive earthworms modulate native plant trait expression and competition

Biological invasions have major impacts on a variety of ecosystems and threaten native biodiversity. Earthworms have been absent from northern parts of North America since the last ice age, but non‐native earthworms were recently introduced there and are now being spread by human activities. While past work has shown that plant communities in earthworm‐invaded areas change towards a lower diversity mainly dominated by grasses, the underlying mechanisms related to changes in the biotic interactions of the plants are not well understood. Here, we used a trait‐based approach to study the effect of earthworms on interspecific plant competition and aboveground herbivory. We conducted a microcosm experiment in a growth chamber with a full‐factorial design using three plant species native to northern North American deciduous forests, Poa palustris (grass), Symphyotrichum laeve (herb) and Vicia americana (legume), either growing in monoculture or in a mixture of three. These plant community treatments were crossed with earthworm (presence or absence) and herbivore (presence or absence) treatments. Eight out of the fourteen above‐ and belowground plant functional traits studied were significantly affected by earthworms, either by a general effect or in interaction with plant species identity, plant diversity level and/or herbivore presence. Earthworms increased the aboveground productivity and the number of inflorescences of the grass P. palustris. Further, earthworms and herbivores together affected root tissue density of P. palustris and the specific leaf area of V. americana. In this study, earthworm presence gave a competitive advantage to the grass species P. palustris by inducing changes in plant functional traits. Our results suggest that invasive earthworms can alter competitive and multitrophic interactions of plants, shedding light on some of the mechanisms behind invasive earthworm‐induced plant community changes in northern North America forests.

Getting to the Root of Tree Soil Microbiome Sampling

Microbiomes play critical roles in host functioning and, therefore, there is increasing interest in the microbiome assembly of plants. However, sampling strategies for long-lived perennial trees need to be standardized to produce robust data that accurately represent the microbiome over time. This issue is currently unresolved because there is little evidence indicating which portion of perennial tree species (e.g., root region or surrounding soil) is the best to sample to produce the most accurate measure of microbiome communities. Our aim was to sample different compartments of a plant's belowground microbiome to identify the optimal sampling strategy to account for the microbial community present. We found that the structure of the microbial community depends most strongly on the environment (site) and compartment of sample collected (bulk soil, rhizosphere, or rhizoplane), rather than the depth or cardinal direction of the sample. We also found that the microbial community increased in diversity with increased distance from the tree within the rhizoplane and rhizosphere. The data presented here provide systematic evidence for a pragmatic and robust sampling regime that was tested and validated across different environments and soil types while controlling for host genotype. This sampling regime will enable effective partitioning of root compartments when studying the microbiome associated with perennial tree species, allowing targeted questions about the microbiome to be explored with greater accuracy.

Microbiome-Mediated Protection against Pathogens in Woody Plants.

Pathogens, especially invasive species, have caused significant global ecological, economic, and social losses in forests. Plant disease research has traditionally focused on direct interactions between plants and pathogens in an appropriate environment. However, recent research indicates that the microbiome can interact with the plant host and pathogens to modulate plant resistance or pathogen pathogenicity, thereby altering the outcome of plant-pathogen interactions. Thus, this presents new opportunities for studying the microbial management of forest diseases. Compared to parallel studies on human and crop microbiomes, research into the forest tree microbiome and its critical role in forest disease progression has lagged. The rapid development of microbiome sequencing and analysis technologies has resulted in the rapid accumulation of a large body of evidence regarding the association between forest microbiomes and diseases. These data will aid the development of innovative, effective, and environmentally sustainable methods for the microbial management of forest diseases. Herein, we summarize the most recent findings on the dynamic structure and composition of forest tree microbiomes in belowground and aboveground plant tissues (i.e., rhizosphere, endosphere, and phyllosphere), as well as their pleiotropic impact on plant immunity and pathogen pathogenicity, highlighting representative examples of biological control agents used to modulate relevant tree microbiomes. Lastly, we discuss the potential application of forest tree microbiomes in disease control as well as their future prospects and challenges.

Impacts of aboveground litter and belowground roots on soil greenhouse gas emissions: Evidence from a DIRT experiment in a pine plantation

Plant detritus alteration may influence soil greenhouse gas emissions, but the direction, extent and mechanisms remain uncertain. Here we conducted a DIRT (Detritus Input and Removal Treatment) experiment in a Pinus sylvestris var. mongolica plantation in Saihanba (Hebei Province, China), manipulating aboveground litter (L-: litter removal, L: normal litter, L+: litter doubling) and belowground roots (R-: root removal, R: with root) resulting in six treatments. We measured CO2, N2O, and CH4 fluxes during 2019 and 2020 growing seasons, along with soil physicochemical, enzymatic and microbial variables. Our findings revealed that soil CO2 and N2O emissions increased with litter input, while CH4 uptake decreased. The absence of roots decreased soil CO2 emission and CH4 uptake but increased N2O emission. Aboveground litter enhanced the carbon cycling variables, such as extractable organic carbon (EOC), the ratio of soil extractable organic carbon to extractable total nitrogen (EOC:ETN), soil carbon mineralization rate (Cmin), and peroxidase activity (PER), resulting in increased CO2 emission. In contrast, the absence of roots increased the nitrogen cycling variables, such as soil extractable total nitrogen (ETN), nitrate nitrogen content (NO3−-N), the ratio of soil extractable organic carbon to extractable total nitrogen (EOC:ETN), soil net nitrogen mineralization rate (Nmin), and the abundance of ammonia-oxidizing bacteria (AOB), leading to increased N2O emission. Moreover, soil CH4 uptake was mainly influenced by soil microclimate: aboveground litter input reduced CH4 uptake by lowering soil temperature, while belowground roots benefited CH4 uptake via reducing soil moisture by water uptake. Taken together, our study suggests that soil CO2, N2O, and CH4 emissions (or uptake) are influenced by both aboveground and belowground plant inputs through various pathways. While aboveground litter input promotes the emissions of greenhouse gasses, the mitigating effect of belowground roots on N2O and CH4 partially offsets the increment of CO2 emission in this plantation.

Warming nondormant tree roots advances aboveground spring phenology in temperate trees.

Climate warming advances the onset of tree growth in spring, but above- and belowground phenology are not always synchronized. These differences in growth responses may result from differences in root and bud dormancy dynamics, but root dormancy is largely unexplored. We measured dormancy in roots and leaf buds of Fagus sylvatica and Populus nigra by quantifying the warming sum required to initiate above- and belowground growth in October, January and February. We furthermore carried out seven experiments, manipulating only the soil and not air temperature before or during tree leaf-out to evaluate the potential of warmer roots to influence budburst timing using seedlings and adult trees of F. sylvatica and seedlings of Betula pendula. Root dormancy was virtually absent in comparison with the much deeper winter bud dormancy. Roots were able to start growing immediately as soils were warmed during the winter. Interestingly, higher soil temperature advanced budburst across all experiments, with soil temperature possibly accounting for c. 44% of the effect of air temperature in advancing aboveground spring phenology per growing degree hour. Therefore, differences in root and bud dormancy dynamics, together with their interaction, likely explain the nonsynchronized above- and belowground plant growth responses to climate warming.

Biological denitrification inhibition (BDI) on nine contrasting soils: An unexpected link with the initial soil denitrifying community

Denitrification is considered the major pathway leading to soil gaseous (N) losses, affecting N availability for plants and consequently plant productivity. Biological denitrification inhibition (BDI) in Fallopia spp., a plant species complex with a high level of growth and competitiveness for mineral N, acts through procyanidin production. However, the soil factors governing BDI development are still unknown. Through a mesocosm experiment using two treatments – soil planted with Fallopia japonica and unplanted–, nine biologically and physically contrasting soils were studied with the aim to ascertain how each can affect BDI development. Microbial enzyme activities (respiration - SIR, denitrification - DEA), denitrifying functional gene abundance (nirK, nirS), total bacterial community abundance (rRNA 16S) and soil physicochemical parameters (N mineral forms, soil texture, moisture, pH) were measured before and after plant growth, and the DEA:SIR ratio was used as a BDI proxy. The DEA:SIR ratio decreased for six soils. BDI development is related to a small number of soil factors, mainly initial soil moisture and ammonium concentration, and unexpectedly, with the initial abundance of nirK(in), nirS(in) and rRNA 16S(in). The intensity of this decrease is positively correlated to the level of DEA in unplanted soil: the higher the DEA in unplanted soil, the more intense the BDI under F. japonica. The procyanidin concentration of the F. japonica belowground system was positively correlated to BDI intensity. These results suggest that a procyanidin assay from the plant belowground system could be a new proxy for measuring BDI intensity. Interestingly, this research shows that BDI is not systematic, and that few (a)biotic soil parameters influence its development. More importantly, this research is the first to highlight that biotic factors are relevant in explaining BDI. This paper also presents new perspectives on plant-microorganism interactions in terms of plant awareness of the soil microbial community.

Unraveling the secrets of plant roots: Simplified method for large scale root exudate sampling and analysis in Arabidopsis thaliana

Background Plants exude a plethora of compounds to communicate with their environment. Although much is known about above-ground plant communication, we are only beginning to fathom the complexities of below-ground chemical communication channels. Studying root-exuded compounds and their role in plant communication has been difficult due to the lack of standardized methodologies. Here, we develop an interdisciplinary workflow to explore the natural variation in root exudate chemical composition of the model plant Arabidopsis thaliana. We highlight key challenges associated with sampling strategies and develop a framework for analyzing both narrow- and broad-scale patterns of root exudate composition in a large set of natural A. thaliana accessions. Methods Our method involves cultivating individual seedlings in vitro inside a plastic mesh, followed by a short hydroponic sampling period in small quantities of ultrapure water. The mesh makes it easy to handle plants of different sizes and allows for large-scale characterization of individual plant root exudates under axenic conditions. This setup can also be easily extended for prolonged temporal exudate collection experiments. Furthermore, the short sampling time minimizes the duration of the experiment while still providing sufficient signal even with small volume of the sampling solution. We used ultra-high performance liquid chromatography coupled with quadrupole time-of-flight mass spectrometry (UHPLC-QTOF-MS) for untargeted metabolic profiling, followed by tentative compound identification using MZmine3 and SIRIUS 5 software, to capture a broad overview of root exudate composition in A. thaliana accessions. Results Based on 28 replicates of the Columbia genotype (Col-0) compared with 10 random controls, MZmine3 annotated 354 metabolites to be present only in Col-0 by negative ionization. Of these, 254 compounds could be annotated by SIRIUS 5 software. Conclusions The methodology developed in this study can be used to broadly investigate the role of root exudates as chemical signals in plant belowground interactions.

Changes in the functional and phylogenetic diversity of above- and below-ground plant communities invaded by two alien herbs

Introduced plants can have long-lasting and irreversible effects on the communities and ecosystems they invade. A critical step towards understanding the legacy of plant introductions is the characterisation of changes in the invaded plant communities and how these changes are related to biogeochemical modifications. Here, we addressed this issue by comparing the impacts of two large invasive herbs, Gunnera tinctoria and Impatiens glandulifera, on the compositional, functional, and phylogenetic structure of the standing vegetation (above-ground communities) and the soil seed bank (below-ground communities). The introduction of both invasive species was associated with a significant decrease in above-ground species richness, with subsequent changes in the functional diversity and phylogenetic dispersion of the vegetation. Yet, these invaders differed in their long-term impacts and the reversibility of any modifications they caused. While G. tinctoria invasions resulted in phylogenetically clustered communities (both above- and below-ground) that were clearly distinct from uninvaded ones, seed bank communities invaded by I. glandulifera were indistinguishable from uninvaded ones, despite major compositional changes above-ground. Further, we found alterations in nutrient cycling associated with G. tinctoria invasions that could facilitate its local persistence and exacerbate any negative effects on native diversity. Our findings suggest a high susceptibility of pre-invasion above-ground communities to colonisation by distantly related herbs. However, the seed banks showed a degree of resilience against both invaders, with no major differences in species richness. Ultimately, differences in the impacts of these large invasive herbs suggest that dominance in the vegetation and a large stature are poor predictors of long-term plant community changes, including regeneration potential from seed, which are associated with plant introductions.

Ralstonia solanacearum pandemic lineage strain UW551 overcomes inhibitory xylem chemistry to break tomato bacterial wilt resistance.

Plant-pathogenic Ralstonia strains cause bacterial wilt disease by colonizing xylem vessels of many crops, including tomato. Host resistance is the best control for bacterial wilt, but resistance mechanisms of the widely used Hawaii 7996 tomato breeding line (H7996) are unknown. Using growth in exvivo xylem sap as a proxy for host xylem, we found that Ralstonia strain GMI1000 grows in sap from both healthy plants and Ralstonia-infected susceptible plants. However, sap from Ralstonia-infected H7996 plants inhibited Ralstonia growth, suggesting that in response to Ralstonia infection, resistant plants increase inhibitors in their xylem sap. Consistent with this, reciprocal grafting and defence gene expression experiments indicated that H7996 wilt resistance acts in both above- and belowground plant parts. Concerningly, H7996 resistance is broken by Ralstonia strain UW551 of the pandemic lineage that threatens highland tropical agriculture. Unlike other Ralstonia, UW551 grew well in sap from Ralstonia-infected H7996 plants. Moreover, other Ralstonia strains could grow in sap from H7996 plants previously infected by UW551. Thus, UW551 overcomes H7996 resistance in part by detoxifying inhibitors in xylem sap. Testing a panel of xylem sap compounds identified by metabolomics revealed that no single chemical differentially inhibits Ralstonia strains that cannot infect H7996. However, sap from Ralstonia-infected H7996 contained more phenolic compounds, which are known to be involved in plant antimicrobial defence. Culturing UW551 in this sap reduced total phenolic levels, indicating that the resistance-breaking Ralstonia strain degrades these chemical defences. Together, these results suggest that H7996 tomato wilt resistance depends in part on inducible phenolic compounds in xylem sap.