Nitrogen-fixing bacterial communities differ between perennial agroecosystem crops.

Biocrusts, common in natural ecosystems, are specific assemblages of microorganisms at or on the soil surface with associated microorganisms extending into the top centimeter of soil. Agroecosystem biocrusts have similar rates of nitrogen (N) fixation as those in natural ecosystems, but it is unclear how agricultural management influences their composition and function. This study examined the total bacterial and diazotrophic communities of biocrusts in a citrus orchard and a vineyard that shared similar climate and soil type but differed in management. To contrast climate and soil type, these biocrusts were also compared to those from an apple orchard. Unlike natural ecosystem biocrusts, these agroecosystem biocrusts were dominated by proteobacteria and had a lower abundance of cyanobacteria. All examined agroecosystem biocrust diazotroph communities were dominated by N-fixing cyanobacteria from the Nostocales order, similar to natural ecosystem cyanobacterial biocrusts. Lower irrigation and fertilizer in the vineyard compared to the citrus orchard could have contributed to biocrust microbial composition, whereas soil type and climate could have differentiated the apple orchard biocrust. Season did not influence bacterial and diazotrophic community composition of any these agroecosystem biocrusts. Overall, agricultural management and climatic and edaphic factors potentially influenced community composition and function of these biocrusts.

The double life of trichomes: understanding their dual role in herbivory and herbicide resistance.

Understanding the evolutionary forces that maintain phenotypic variation in ecologically relevant traits has long been one of the central goals of evolutionary ecology. While the maintenance of variation in plant defense is most often hypothesized to be due to trait trade-offs or spatio-temporal variation in herbivore abundance, the role that heterogeneous selective agents may play on the maintenance of variation in plant defense is less examined. Trichomes are hair-like appendages on plant surfaces that can defend against multiple damaging agents such as pathogens, herbivores, and UV radiation. It is currently unknown however if conflicting selection from such heterogeneous agents of damage may act to maintain the variation observed in trichome traits. Here, we assess whether trichomes serve as an herbicide resistance trait and how it coincides with the conventionally studied defensive strategy of herbivory resistance. In a series of experiments, we exposed the annual invasive velvetleaf (Abutilon theophrasti) to glyphosate (active ingredient in "Roundup") to investigate whether trichome traits (type and density) are linked to herbicide resistance and to test whether herbicide influences selection on plant trichomes. We found that an increased proportion of branched trichomes positively impacted herbicide resistance and chewing herbivory resistance. We also found evidence that glyphosate imposes positive selection on branched trichomes in velvetleaf. Overall, our results indicate that branched trichomes can contribute to both herbicide and herbivory resistance, serving a concordant rather than conflicting role to reduce plant injury. Our findings further suggest that novel anthropogenic agents of selection can alter the composition of plant defense traits, potentially impacting trait-mediated interactions among external stressors.

Biotic interactions in soil and dung shape parasite transmission in temperate ruminant systems: An integrative framework.

Gastrointestinal helminth parasites undergo part of their life cycle outside their host, such that developmental stages interact with the soil and dung fauna. These interactions are capable of affecting parasite transmission on pastures yet are generally ignored in current models, empirical studies and practical management. Dominant methods of parasite control, which rely on anthelmintic medications for livestock, are becoming increasingly ineffective due to the emergence of drug-resistant parasite populations. Furthermore, consumer and regulatory pressure on decreased chemical use in agriculture and the consequential disruption of biological processes in the dung through nontarget effects exacerbates issues with anthelmintic reliance. This presents a need for the application and enhancement of nature-based solutions and biocontrol methods. However, successfully harnessing these options relies on advanced understanding of the ecological system and interacting effects among biotic factors and with immature parasite stages. Here, we develop a framework linking three key groups of dung and soil fauna-fungi, earthworms, and dung beetles-with each other and developmental stages of helminths parasitic in farmed cattle, sheep, and goats in temperate grazing systems. We populate this framework from existing published studies and highlight the interplay between faunal groups and documented ecological outcomes. Of 1756 papers addressing abiotic drivers of populations of these organisms and helminth parasites, only 112 considered interactions between taxa and 36 presented data on interactions between more than two taxonomic groups. Results suggest that fungi reduce parasite abundance and earthworms may enhance fungal communities, while competition between dung taxa may reduce their individual effect on parasite transmission. Dung beetles were found to impact fungal populations and parasite transmission variably, possibly tied to the prevailing climate within a specific ecological context. By exploring combinations of biotic factors, we consider how interactions between species may be fundamental to the ecological consequences of biocontrol strategies and nontarget impacts of anthelmintics on dung and soil fauna and how pasture management alterations to promote invertebrates might help limit parasite transmission. With further development and parameterization the framework could be applied quantitatively to guide, prioritize, and interpret hypothesis-driven experiments and integrate biotic factors into established models of parasite transmission dynamics.

Responses of Crop Yield, Soil Fertility, and Heavy Metals to Spent Mushroom Residues Application.

Waste mushroom residues are often returned to fields as organic amendments. Here, we estimated the effects of the continuous applications of different spent mushroom substrates for 2 years on crop yields, soil nutrients, and heavy metals in paddy fields. The study comprised seven treatments: no fertilization (CK) and mineral NPK fertilizer (CF), as well as NPK fertilizer combined with Enoki mushroom residue (EMR50), Oyster mushroom residue (OMR50), Auricularia polytricha mushroom residue (APR50), Shiitake mushroom residue (SMR50), and Agaricus bisporus residue (ABR50). The grain yield was highest under the APR50 treatment. The short-term application of waste mushroom residue significantly increased SOC, TN, TP, and TK content relative to the CK treatment. The SOC, TP, and TK were highest under ABR50. Both total Cr and Cd contents were highest under CF treatment. The highest cumulative ecological risk was observed under OMR50 treatment. In addition, crop yield was positively correlated with SOC, TN, TP, and TP. Our results highlight that further research and innovation are needed to optimize the benefits and overcome the challenges of mushroom residue application.

Population declines of a widespread amphibian in agricultural landscapes.

Modern agricultural practices are suspected to play a major role in the ongoing erosion of biodiversity. In order to assess whether this biodiversity loss is linked to past habitat modifications (e.g. land consolidation) or to current consequences of modern agriculture (e.g. use of agrochemicals), it remains essential to monitor species that have persisted in agricultural landscapes to date. In this study, we assessed the presence, abundance and recent population trends of one such species, the spined toad (Bufo spinosus) along a gradient of habitats from preserved (forests) to highly agricultural sites in rural Western France. Our results showed that both presence and abundance of spined toads were markedly lower in reproductive ponds surrounded by intensive agriculture. The most salient result of our study is the ongoing decline of this species in farmland habitats. Indeed, this result suggests that unknown factors are currently affecting a widespread terrestrial amphibian previously thought to persist in agricultural landscapes. These factors have recently induced strong population declines over the course of a few years. Future investigations are required to identify these factors at a time when anthropogenic activities are currently leading to unprecedented rates of biodiversity loss.

Assessing a potential conflict associated with the production of Moringa oleifera in the Limpopo Province of South Africa: A systems thinking approach.

The increased movement of humans throughout the world allowed the transportation of several species, such as Moringa oleifera Lam. (moringa), into biomes far away from their native habitation. Native to India, moringa is a versatile, drought-tolerant, and fast-growing tree that is easily adaptable to wide-ranging tropical and sub-tropical conditions around the world. It is used in cosmetics, as food and medicine for humans, livestock feed, crop biostimulant, and green manure. Even though moringa is an alien species to South Africa, its production is increasing, and its numerous uses are recognised by communities. Moringa forms part of a highly complex (social, ecological, and economic) system. This is because it is on the Species Under Surveillance for Possible Eradication or Containment Targets (SUSPECT) list under the National Environmental Management Biodiversity Act (NEM:BA) of South Africa. Listing species that are regarded as beneficial to communities on national regulations can cause conflicts and uncertainties among various stakeholders (i.e., environmental policymakers, farmers, rural communities, and government bodies). In this paper, a systems thinking approach was applied to address complex and conflicting issues linked to the production and overall status (economic, ecological, legal, and social) of moringa in South Africa. The Causal Loop Diagram (CLD) was developed to present a broad insight into the complexity of moringa in South Africa and assist in underscoring the feedback mechanisms within the system. Moreover, the CLD indicated that the position of moringa within the country comprised a variety of interdependent variables of government policies, environment, and society, which are interconnected into a multifaceted system. The potential conflict dimensions and types associated with allocating moringa an impact category within the South African context were identified, and this may serve as a useful tool for facilitating engagements and decision-making processes among stakeholders in resolving the status of moringa in South Africa.

Interactive effects of agricultural landscape heterogeneity and weather conditions on breeding density and reproductive success of a diurnal raptor.

Agricultural intensification and climate change are serious threats toward animal populations worldwide. Agricultural intensification reduces the heterogeneity of agricultural habitats by diminishing crop variation and destroying microhabitats, such as small woody features, whereas the effects of climate change range from the growing frequency of weather extremes to disrupted prey-predator dynamics. We collected long-term ringing data from a population of Eurasian kestrels (Falco tinnunculus) located amidst agricultural areas in western Finland during 1985-2021, which we combined with density indices of their main prey species (voles), spatial data consisting of land cover classification of kestrel territories, and weather data, to study the effects of different environmental drivers on breeding density and success. We found that the density of inhabited nests rose with vole abundance and springtime snow depth, with the overall trend of population growth being stronger in areas with more heterogeneous landscapes. Clutch size was influenced negatively by the age of male parent and landscape heterogeneity, and positively by vole abundance, with rainfall having a negative influence conditional to other variables. Likewise, the number of produced fledglings was affected by male age, but it was additionally positively associated with landscape heterogeneity and its interaction with rainfall, with greater fledgling output in heterogeneous landscapes during high precipitation. The discrepancy between factors predicting large clutches and high numbers of fledglings suggests that while kestrels do not prefer heterogeneous landscapes when prospecting for territories, heterogeneous habitats provide better circumstances for foraging during the nestling period, which ensures nestling survival, particularly during adverse environmental conditions. Therefore, breeding in areas under intense agricultural use is more suboptimal to kestrels than their territory preferences would indicate. As changing climate may reduce prey availability and heighten the probability of weather extremities, agricultural intensification may lead to weaker reproductive success in densely populated farmland habitats.

Austrian farmers perception of new weeds.

The composition of weed floras in Central European fields has shifted creating a novel management issue: new weeds, that is, species that are currently spreading and increasing in impact. In their role as primary decision makers on the ground, farmers' perception of these new weeds plays a pivotal role in collecting information on their occurrence and control. We conducted an online survey to determine if Austrian farmers recognized 15 selected new weed taxa (12 species and 3 genera) from their farm. The 181 surveyed farmers also estimated the required management effort for these species and elicited their current management practices. Additional questions were posed to understand farmers' general perception of changes in the weed flora. We used a generalized linear mixed model to estimate differences in management effort and identify new weeds that merit monitoring and management programs. Two weed genera (Fallopia spp. and Panicum spp.) showed significantly higher than average management effort. The most commonly used management measures were manual removal, herbicide use and crop rotation. A majority of farmers reported changes in the weed flora; over two thirds reported new species and over one third reported new weeds that were difficult to control. In summary, our results suggest that respondents were aware of the challenges posed by new weeds but required more information on management and prevention strategies.

Effects of mowing on body size patterns in spider assemblages of mesic meadows.

Habitat disturbance affects not only the abundance, species richness and species composition of the local fauna, but also the body size of specific individuals and body size patterns in animal assemblages. Particularly large disturbances occur in agroecosystems, where many agricultural treatments are carried out. One of them, which is most commonly applied to grasslands and which significantly damages the habitat structure, is mowing. We examined the effect of mowing on mean, skewness and kurtosis of the body size in epigeic spider assemblages. The research was conducted on mesic meadows in eastern Poland, in an agricultural landscape typical for this region, consisting of a mosaic of meadows, fields and forests. Spiders were collected using pitfall traps in two sampling periods: the first before mowing and the second when part of the meadows had been mown. Mowing had no significant effect on mean body size, skewness and kurtosis of the body size in epigeic spider assemblages. However, after the cut, mown plots showed, on average, significantly smaller spider species than unmown plots. Both the value of skewness and kurtosis significantly increased after mowing but to the same extent on both the control and mown plots. The decrease in mean body size and increase in skewness in spider assemblages were mainly due to an increase in the number of small species from the Linyphiidae family. It is likely that these species began to migrate (via ballooning) during the second sampling session, following the start of haying, and were thus caught in traps more frequently. Our study showed no clear, significant changes in the body size structure of epigeic spiders in mown meadows compared to unmown ones, which may suggest that the mowing, where extensive farming is practised, does not have a long-term significant negative impact on this group of invertebrates.

Oligotrophic microbes are recruited to resist multiple global change factors in agricultural subsoils.

An increasing number of anthropogenic pressures can have negative effects on biodiversity and ecosystem functioning. However, our understanding of how soil microbial communities and functions in response to multiple global change factors (GCFs) is still incomplete, particularly in less frequently disturbed subsoils. In this study, we examined the impact of different levels of GCFs (0-9) on soil functions and bacterial communities in both topsoils (0-20 cm) and subsoils (20-40 cm) of an agricultural ecosystem, and characterized the intrinsic factors influencing community resistance based on microbial life history strategy. Our experimental results showed a decline in soil multifunctionality, bacterial diversity, and community resistance as the number of GCFs increased, with a more drastic reduction in community resistance of subsoils. Specifically, we observed a significantly positive relationship between the oligotroph/copiotroph ratio and community resistance in subsoils, which was also verified by the negative correlation between 16S rRNA operon (rrn) copy number and community resistance. Structural equation modeling further revealed the direct effects of community resistance in promoting the ecosystem functioning, regardless of top- and subsoils. Therefore, these results suggested that subsoils may recruit more oligotrophic microbes to enhance their originally weaker community resistance under multiple GCFs, which was essential for maintaining sustainable agroecological functions and services. Overall, our study represents a significant advance in linking microbial life history strategy to the resistance of belowground microbial community and functionality.

Optimizing potassium and nitrogen fertilizer strategies to mitigate greenhouse gas emissions in global agroecosystems.

The efficient management of fertilizer application in agriculture is vital for both food security and mitigating greenhouse gas (GHG) emissions. However, as potassium fertilizer (KF) is an essential soil nutrient, its impact on soil GHG emissions has received little attention. To address this knowledge gap and identify key determinants of GHG emissions, we conducted a comprehensive meta-analysis of 205 independent experiments conducted worldwide. Our results revealed that, in comparison to sole nitrogen fertilizer (NF) application, the concurrent use of KF elevated nitrous oxide (N2O) and methane (CH4) emissions by 39.5 % and 21.1 %, respectively, while concurrently reducing carbon dioxide (CO2) emissions by 8.1 %. The ratio of nitrogen and potassium fertilizer input (NF/KF) is identified as the primary factor explaining the variation in N2O emissions, whereas the type of KF plays a crucial role in determining CH4 and CO2 emissions. We observed a significant negative correlation between the NF/KF ratio and response ratios of N2O and CH4 emissions and a positive correlation with CO2 emissions response ratios. Furthermore, our findings indicate that when the NF/KF ratio surpasses 1.97, 4.61, and 3.78, respectively, the impact of KF on reducing N2O, CH4, and CO2 emissions stabilizes. Overall, our results underscore that the global integration of KF into agricultural practices significantly influences N2O and CH4 emissions, while simultaneously reducing CO2 emissions at a large scale. These findings provide a foundational framework and practical guidance for optimizing fertilizer application in the development of GHG emission reduction models.

Environmental drivers of long-term variations in the abundance of the red hocicudo mouse (Oxymycterus rufus) in Pampas agroecosystems.

During the 20th century, there has been an ongoing agricultural expansion and global warming, two of the main determinants influencing biodiversity changes in Argentina. The red hocicudo mouse (Oxymycterus rufus) inhabits subtropical grasslands and riparian habitats and has increased its abundance in recent years in central Argentina agroecosystems. This paper describes the long-term temporal changes in O. rufus abundance in Exaltación de la Cruz department, Buenos Aires province, Argentina, in relation to weather fluctuations and landscape features, as well as analyzes the spatio-temporal structure of captures of animals. We used generalized liner models, semivariograms, the Mantel test, and autocorrelation functions for the analysis of rodent data obtained from trappings conducted between 1984 and 2014. O. rufus showed an increase in abundance across the years of study, with its distribution depending on landscape features, such as habitat types and the distance to floodplains. Capture rates showed a spatio-temporal aggregation, suggesting expansion from previously occupied sites. O. rufus was more abundant at lower minimum temperatures in summer, higher precipitation in spring and summer, and lower precipitations in winter. Weather conditions affected O. rufus abundance, but there was local variation that differed from global patterns of climate change.

Allelopathy and allelobiosis: efficient and economical alternatives in agroecosystems.

Chemical interactions in plants often involve plant allelopathy and allelobiosis. Allelopathy is an ecological phenomenon leading to interference among organisms, while allelobiosis is the transmission of information among organisms. Crop failures and low yields caused by inappropriate management can be related to both allelopathy and allelobiosis. Therefore, research on these two phenomena and the role of chemical substances in both processes will help us to understand and upgrade agroecosystems. In this review, substances involved in allelopathy and allelobiosis in plants are summarized. The influence of environmental factors on the generation and spread of these substances is discussed, and relationships between allelopathy and allelobiosis in interspecific, intraspecific, plant-micro-organism, plant-insect, and mechanisms, are summarized. Furthermore, recent results on allelopathy and allelobiosis in agroecosystem are summarized and will provide a reference for the future application of allelopathy and allelobiosis in agroecosystem.

Mycorrhizal effects on crop yield and soil ecosystem functions in a long-term tillage and fertilization experiment.

It is well understood that agricultural management influences arbuscular mycorrhizal (AM) fungi, but there is controversy about whether farmers should manage for AM symbiosis. We assessed AM fungal communities colonizing wheat roots for three consecutive years in a long-term (> 14 yr) tillage and fertilization experiment. Relationships among mycorrhizas, crop performance, and soil ecosystem functions were quantified. Tillage, fertilizers and continuous monoculture all reduced AM fungal richness and shifted community composition toward dominance of a few ruderal taxa. Rhizophagus and Dominikia were depressed by tillage and/or fertilization, and their abundances as well as AM fungal richness correlated positively with soil aggregate stability and nutrient cycling functions across all or no-tilled samples. In the field, wheat yield was unrelated to AM fungal abundance and correlated negatively with AM fungal richness. In a complementary glasshouse study, wheat biomass was enhanced by soil inoculum from unfertilized, no-till plots while neutral to depressed growth was observed in wheat inoculated with soils from fertilized and conventionally tilled plots. This study demonstrates contrasting impacts of low-input and conventional agricultural practices on AM symbiosis and highlights the importance of considering both crop yield and soil ecosystem functions when managing mycorrhizas for more sustainable agroecosystems.

Virome analysis of irrigation water sources provides extensive insights into the diversity and distribution of plant viruses in agroecosystems.

Plant viruses pose a significant threat to agriculture. Several are stable outside their hosts, can enter water bodies and remain infective for prolonged periods of time. Even though the quality of irrigation water is of increasing importance in the context of plant health, the presence of plant viruses in irrigation waters is understudied. In this study, we conducted a large-scale high-throughput sequencing (HTS)-based virome analysis of irrigation and surface water sources to obtain complete information about the abundance and diversity of plant viruses in such waters. We detected nucleic acids of plant viruses from 20 families, discovered several novel plant viruses from economically important taxa, like Tobamovirus and observed the influence of the water source on the present virome. By comparing viromes of water and surrounding plants, we observed presence of plant viruses in both compartments, especially in cases of large-scale outbreaks, such as that of tomato mosaic virus. Moreover, we demonstrated that water virome data can extensively inform us about the distribution and diversity of plant viruses for which only limited information is available from plants. Overall, the results of the study provided extensive insights into the virome of irrigation waters from the perspective of plant health. It also suggested that an HTS-based water virome surveillance system could be used to detect potential plant disease outbreaks and to survey the distribution and diversity of plant viruses in the ecosystem.

Use of the term "landscape" in sustainable agriculture research: A literature review.

Finding consensus in definitions of commonly-used terms and concepts is a key requirement to enable cooperations between interdisciplinary scientists and practitioners in inter- or transdisciplinary projects. In research on sustainable agriculture, the term 'landscape' is emphasised in particular, being used in studies that range from biogeochemical to socio-economic topics. However, it is normally used in a rather unspecific manner. Moreover, different disciplines assign deviating meanings to this term, which impedes interdisciplinary understanding and synthesis. To close this gap, a systematic literature review from relevant disciplines was conducted to identify a common understanding of the term "landscape". Three general categories of landscape conceptualizations were identified. In a small subset of studies, "landscape" is defined by area size or by natural or anthropogenic borders. The majority of reviewed papers, though, define landscapes as sets of relationships between various elements. Selection of respective elements differed widely depending on research objects. Based on these findings, a new definition of landscape is proposed, which can be operationalized by interdisciplinary researchers to define a common study object and which allows for sufficient flexibility depending on specific research questions. It also avoids over-emphasis on specific spatio-temporal relations at the "landscape scale", which may be context-dependent. Agricultural landscape research demands for study-specific definitions which should be meticulously provided in the future.

Interactions between Cyanobacteria and Methane Processing Microbes Mitigate Methane Emissions from Rice Soils.

Cyanobacteria play a relevant role in rice soils due to their contribution to soil fertility through nitrogen (N2) fixation and as a promising strategy to mitigate methane (CH4) emissions from these systems. However, information is still limited regarding the mechanisms of cyanobacterial modulation of CH4 cycling in rice soils. Here, we focused on the response of methane cycling microbial communities to inoculation with cyanobacteria in rice soils. We performed a microcosm study comprising rice soil inoculated with either of two cyanobacterial isolates (Calothrix sp. and Nostoc sp.) obtained from a rice paddy. Our results demonstrate that cyanobacterial inoculation reduced CH4 emissions by 20 times. Yet, the effect on CH4 cycling microbes differed for the cyanobacterial strains. Type Ia methanotrophs were stimulated by Calothrix sp. in the surface layer, while Nostoc sp. had the opposite effect. The overall pmoA transcripts of Type Ib methanotrophs were stimulated by Nostoc. Methanogens were not affected in the surface layer, while their abundance was reduced in the sub surface layer by the presence of Nostoc sp. Our results indicate that mitigation of methane emission from rice soils based on cyanobacterial inoculants depends on the proper pairing of cyanobacteria-methanotrophs and their respective traits.

Genome-sequenced bacterial collection from sorghum aerial root mucilage.

A collection of 47 bacteria isolated from the mucilage of aerial roots of energy sorghum is available at the Great Lakes Bioenergy Research Center, Michigan State University, Michigan, USA. We enriched bacteria with putative plant-beneficial phenotypes and included information on phenotypic diversity, taxonomy, and whole genome sequences.

Genome-sequenced bacterial collection from sorghum epicuticular wax.

A collection of 44 isolates isolated from the epicuticular wax of stems of energy sorghum is available at the Great Lakes Bioenergy Researcher Center, Michigan State University, MI, USA. We enriched bacteria with putative plant-beneficial phenotypes and include information on their phenotypic diversity, taxonomy, and whole-genome sequences.