Plant and soil properties mediate the response of soil microbial communities to moderate grazing in a semiarid grassland of northern China

Synergistic effect of grassland plants and beneficial rhizosphere bacteria helps plants cope with overgrazing stress

BACKGROUND

Overgrazing (OG) is an important driver of grassland degradation and productivity decline. Highly effective synergy between plants and rhizosphere growth-promoting rhizobacteria (PGPR) may be a major way for grassland plants to effectively cope with OG stress. There have been few reports providing solid evidence on how this synergy occurs.

RESULT

This study combined with multi-omics analysis and the interaction effect of specific root exudate with PGPR B68, aiming to reveal the synergistic effect and regulatory mechanism of L. chinensis and PGPR under overgrazing stress. The results showed that Leymus chinensis plants with OG history can recruit the beneficial Phyllobacterium sp. B68 by regulating specific root exudate compounds(such as amino acid L-leucyl-L-alanine and alkaloid cordycepin). These compounds enhanced B68 rhizosphere colonization by promoting B68 chemotaxis and biofilm formation. The pot study experiments indicated that the bacterial isolates used as bio inoculants increased L. chinensis growth (mainly including plant height and biomass) by significantly increasing the chlorophyll content, RuBisCO activity, soluble sugar, plant hormones and nutrient content. Metagenomics results show that B68 inoculation significantly altered rhizosphere soil bacterial community composition and function. Additionally, B68 systemically upregulated the expression level of genes involved in plant hormone signaling, nutrient and sugar transporters, nitrogen metabolism, cell division, cell wall modification and photosynthesis to promote plant growth. The above results indicate that the PGPR B68 recruited by the root exudates of L. chinensis under OG helps the plant adapt to stress by promoting nutrient uptake and transport, maintaining hormone homeostasis, and enhancing the expression of genes related to plant growth and nutrient metabolism.

CONCLUSION

This study provides new insights into the positive interactions between grassland plants and rhizosphere bacteria under OG stress, offering valuable knowledge for developing new fertilizers and better management practices for degraded rangeland restoration and sustainable agriculture development.

CLINICAL TRIAL NUMBER

Not applicable.

The role of soil chemical properties and microbial communities on Dendrocalamus brandisii bamboo shoot quality, Yunnan Province, China

Objective

To explore the effects of soil nutrients and microbial communities on the quality of Dendrocalamus brandisii shoots in different regions, providing a scientific basis for their development and utilization.

Methods

Using seven different geographic sources of D. brandisii from Yunnan Province as research subjects, this study employs chemical analysis and high-throughput sequencing to reveal the relationship between soil nutrients, microbial functional groups, and the nutritional quality of bamboo shoots.

Results

The results indicate that there are significant differences in soil nutrient content among the regions (p < 0.05), with bamboo shoots from Baoshan Changning (CN) exhibiting the best overall nutritional quality. The key factors influencing bacterial community changes include pH, available phosphorus (AP), and available potassium (AK). In contrast, the main factors affecting fungal community changes are pH, soil organic matter (SOM), available potassium (AK), and total nitrogen (TN). This version maintains clarity and logical flow, making it easier for readers to understand the different factors influencing bacterial and fungal community changes. The diversity indices of soil microbial communities among different sources of Dendrocalamus brandisii show significant differences (p < 0.05). The dominant groups in the seven regions include Proteobacteria, Acidobacteriota, Actinobacteriota, Chloroflexi, Ascomycota, and Basidiomycota. The soil microbial community in Baoshan Changning (CN) shows significant structural differences compared to the other six regions, with the highest relative abundances of Chloroflexi and Acidobacteriota. In contrast, the highest relative abundance of Proteobacteria is found in Honghe Shiping (SP), while Actinobacteriota has the highest relative abundance in Yuxi Xinping (XP). RDA analysis indicates that soil nutrients (SOM, pH, AP, TN) affect the water content, soluble sugar, and crude fat of bamboo shoots. Additionally, the bacterial communities including Actinobacteriota, Chloroflexi, Patescibacteria, GAL15, and Cyanobacteria influence the water content, soluble sugar, ash content, protein, and lignin of bamboo shoots.

Discussion

In the fungal community, Basidiomycota, Kickxellomycota, Mucoromycota, unclassified-k-Fungi, and Glomeromycota affect the water content and tannin levels in bamboo shoots. In summary, soil nutrients and soil microorganisms are interconnected and work together to influence the quality of bamboo shoots.

Responses of fungal communities at different soil depths to grazing intensity in a desert steppe

Grazing can alter the physicochemical properties of soil and quickly influence the composition of microbial communities. However, the effects of grazing intensity on fungal community composition in different soil depth remain unclear. On the Inner Mongolia Plateau, we studied the effects of grazing intensity treatments including no grazing (NG), light grazing (LG), moderate grazing (MG), heavy grazing (HG), and over grazing (OG) on the physicochemical properties and fungal community composition of surface (0-20 cm) and subsurface (20-40 cm) soil layers. The α-diversity of fungi in subsurface soil decreased under the influence of grazing. The relative abundance of Ascomycota in the subsoil was higher than that in the topsoil, while the situation of Basidiomycota was the opposite. This was caused by the differences in the soil carbon (C) environment for the growth of oligotrophic and copiotrophic fungi. In the subsoil, grazing affected nutrient contents such as soil organic matter (SOM) and total nitrogen (TN), resulting in significantly lower relative abundance of Ortierellomycota under LG, HG, and OG than in the NG. HG showed much higher relative abundance of Glomeromycota. Results of a multiple regression tree (MRT) analysis revealed that TN and nitrate nitrogen affected the fungal α-diversity in top- and subsoils, respectively; the main driving factor regulating fungal community changes was soil water content (SWC) in the topsoil, while it was ammonium nitrogen and nitrate nitrogen in the subsoil. The results of our study indicate that grazing changes the soil environment by changing TN, SWC, nitrate nitrogen, ammonium nitrogen, and affects the diversity and community structure of soil fungi. This provides empirical support for coping with the impact of grazing on soil microbiomes in desert steppes.

Soil carbon stocks in temperate grasslands reach equilibrium with grazing duration

Lost soil organic carbon (SOC) in degraded grasslands can be restored via the 'grazing exclusion' practice, but it was unknown how long (# of years) the restoration process can take. A synthesis of four decades of studies revealed that grazing exclusion increased SOC stocks in the topsoil (0-0.30 m) by 14.8 % (±0.8 Std Err), on average, compared to moderate-to-heavy grazing (MtH); During which SOC stock increased steadily, peaked in Year 18.5, and then declined. At peak, SOC stock was 42.5 % greater under grazing exclusion than under MtH due to 100.4 ± 4.2 % increase in aboveground biomass and 80.3 ± 33.5 % increase in root biomass. Grazing exclusion also increased soil C:N ratio by 7.6 % while decreasing bulk density by 9.4 %. Grazing exclusion could be ceased 18.5 years after initiation of grazing exclusion as plant biomass input balances carbon decomposition and SOC equilibrium occurs then additional benefits start diminishing.

Soil properties and organochlorine compounds co-shape the microbial community structure: A case study of an obsolete site

Organochlorine compounds (OCs) such as chlorobenzenes (CB) are persistent organic pollutants that are ubiquitous in soils at organochlorine pesticides (OCP) production sites. Long-term contamination with OCs might alter the soil microbial structure and further affect soil functions. However, the effects of OCs regarding the shaping of microbial community structures in the soils of OCs-contaminated sites remain obscure, especially in the vertical soil profile where pollutants are highly concealed. Hence this paper explored the status and causes of OCs pollution (CB, hexachlorocyclohexane (HCH), and dichlorodiphenyltrichloroethane (DDT)) in an obsolete site, and its combined effects with soil properties (pH, available phosphorus (AP), dissolved organic carbon (DOC), etc) on microbial community structure. The mean total concentration of OCs in the subsoils was up to 996 times higher than that in the topsoils, with CB constituting over 90% of OCs in the subsoil. Historical causes, anthropogenic effects, soil texture, and the nature of OCs contributed to the differences in the spatial distribution of OCs. Redundancy analysis revealed that both the soil properties and OCs were important factors in shaping microbial composition and diversity. Variation partitioning analysis further indicated that soil properties had a greater impact on microbial community structure than OCs. Significant differences in microbial composition between topsoils and subsoils were observed through linear discriminant analysis effect size (LEfSe) analysis, primarily driven by different pollutant conditions. Additionally, co-occurrence network analysis indicated that heavily contaminated subsoils exhibited closer and more intricate bacterial community interactions compared to lightly contaminated topsoils. This work reveals the impact of environmental factors in co-shaping the structure of soil microbial communities. These findings advance our understanding of the intricate interplay among organochlorine pollutants, soil properties, and microbial communities, and provides valuable insights into devising effective management strategies in OCs-contaminated soils.

Grazing practices affect phyllosphere and rhizosphere bacterial communities of Kobresia humilis by altering their network stability

The primary utilization strategy for meadow grasslands on the Qinghai-Tibet Plateau (QTP) is livestock grazing. This practice is considered as one of the major drivers of plant-associated bacterial community construction and changes in soil properties. The species of Kobresia humilis is considered as the most dominant one in grasslands. However, how different grazing practices affect the phyllosphere and rhizosphere bacterial communities of K. humilis is unknown. To address this issue, the effects of the grazing enclosure (GE), single-species grazing (YG and SG, representing yak only and sheep only, respectively), and different ratios of grazing (ratio of yak to sheep is 1:2, 1:4, and 1:6, represented by MG1:2, MG1:4, and MG1:6, respectively) on the dominant plant of K. humilis, it's phyllosphere and rhizosphere bacteria, and soil properties were investigated using artificially controlled grazing and grazing enclosure. Our data showed that grazing enclosure enhanced vegetation coverage, and rhizosphere bacterial richness and diversity, while reduced plant number and bacterial network stability of K. humilis. The NO3--N, K+, and Cl- concentrations were lower under grazing compared to GE. SG reduced the concentration of NH4+-N, TN, K+, and Na+ compared to YG. Moderate grazing intensity had a lower relative abundance of the r-strategists (Bacteroidota and Gammaproteobacteria) with higher bacterial network stability. Yak and sheep grazing showed reversed impacts on the bacterial network stability between the phyllosphere and rhizosphere of K. humilis. Proteobacteria and Actinobacteriota were identified in the molecular ecological network analysis as keystone taxa in the phyllosphere and rhizosphere networks, respectively, under all treatments. This study explained why sheep grazing has more adverse effects on grazing-tolerant grass species, K. humilis, than yak grazing, and will contribute to a better understanding of the impacts of different grazing practices and grazing enclosure on alpine grassland ecosystems on the QTP.

How does the pattern of root metabolites regulating beneficial microorganisms change with different grazing pressures?

Grazing disturbance can change the structure of plant rhizosphere microbial communities and thereby alter the feedback to promote plant growth or induce plant defenses. However, little is known about how such changes occur and vary under different grazing pressures or the roles of root metabolites in altering the composition of rhizosphere microbial communities. In this study, the effects of different grazing pressures on the composition of microbial communities were investigated, and the mechanisms by which different grazing pressures changed rhizosphere microbiomes were explored with metabolomics. Grazing changed composition, functions, and co-expression networks of microbial communities. Under light grazing (LG), some saprophytic fungi, such as Lentinus sp., Ramichloridium sp., Ascobolus sp. and Hyphoderma sp., were significantly enriched, whereas under heavy grazing (HG), potentially beneficial rhizobacteria, such as Stenotrophomonas sp., Microbacterium sp., and Lysobacter sp., were significantly enriched. The beneficial mycorrhizal fungus Schizothecium sp. was significantly enriched in both LG and HG. Moreover, all enriched beneficial microorganisms were positively correlated with root metabolites, including amino acids (AAs), short-chain organic acids (SCOAs), and alkaloids. This suggests that these significantly enriched rhizosphere microbial changes may be caused by these differential root metabolites. Under LG, it is inferred that root metabolites, especially AAs such as L-Histidine, may regulate specific saprophytic fungi to participate in material transformations and the energy cycle and promote plant growth. Furthermore, to help alleviate the stress of HG and improve plant defenses, it is inferred that the root system actively regulates the synthesis of these root metabolites such as AAs, SCOAs, and alkaloids under grazing interference, and then secretes them to promote the growth of some specific plant growth-promoting rhizobacteria and fungi. To summarize, grasses can regulate beneficial microorganisms by changing root metabolites composition, and the response strategies vary under different grazing pressure in typical grassland ecosystems.

Grazing lowers soil multifunctionality but boosts soil microbial network complexity and stability in a subtropical grassland of China

Introduction

Long-term grazing profoundly affects grassland ecosystems, whereas how the soil microbiome and multiple soil ecosystem functions alter in response to two-decades of grazing, especially how soil microbiome (diversity, composition, network complexity, and stability) forms soil multifunctionality is rarely addressed.

Methods

We used a long-term buffalo grazing grassland to measure the responses of soil physicochemical attributes, stoichiometry, enzyme activities, soil microbial niche width, structure, functions, and networks to grazing in a subtropical grassland of Guizhou Plateau, China.

Results

The evidence from this work suggested that grazing elevated the soil hardness, available calcium content, and available magnesium content by 6.5, 1.9, and 1.9 times (p = 0.00015-0.0160) and acid phosphatase activity, bulk density, pH by 59, 8, and 0.5 unit (p = 0.0014-0.0370), but decreased the soil water content, available phosphorus content, and multifunctionality by 47, 73, and 9-21% (p = 0.0250-0.0460), respectively. Grazing intensified the soil microbial carbon limitation (+78%, p = 0.0260) as indicated by the increased investment in the soil β-glucosidase activity (+90%, p = 0.0120). Grazing enhanced the complexity and stability of the bacterial and fungal networks but reduced the bacterial Simpson diversity (p < 0.05). The bacterial diversity, network complexity, and stability had positive effects, while bacterial and fungal compositions had negative effects on multifunctionality.

Discussions

This work is an original attempt to show that grazing lowered multifunctionality via the reduced bacterial diversity and shifted soil bacterial and fungal compositions rather than the enhanced bacterial and fungal network complexities and stability by grazing. Protecting the bacterial diversity from decreasing, optimizing the composition of bacteria and fungi, and enhancing the complexity and stability of bacterial network may be conducive to improving the soil multifunction of grazing grassland, on a subtropical grassland.

Changes in the bacterial communities in chromium-contaminated soils

INTRODUCTION

Hexavalent chromium or Cr(VI) is essential to various industries, such as leather manufacturing and stainless steel production. Given that inevitable leakage from industries pollutes the soil and thereby affects the soil environment. Microbial communities could improve the quality of the soil. Abundant bacterial communities would significantly enhance the soil richness and resist external pressure, benefiting agriculture. But the pollution of heavy metal broke the balance and decrease the abundance of bacterial communities, which weak the self-adjust ability of soil. This study aimed to explore changes in the diversity of soil bacterial communities and to identify the influences of soil bacterial communities on enzymes in soil polluted by Cr(VI).

METHODS

The target soils were sampled quickly and aseptically. Their chromium content was detected through inductively coupled plasma-mass spectrometry, and bacterial microbiome communities were explored through MiSeq high-throughput sequencing. Then, the content of nitrite reductase and catalases were investigated through enzyme-linked immunosorbent assay (ELISA).

RESULTS

Chromium content in polluted soils was higher than that in the control soils at all depths. Sobs, Chao1, Ace, and Shannon diversity estimators in the control were higher, whereas Simpson's diversity estimators in the control soils were lower than those of contaminated samples at all depths. Contaminants affected the composition of the bacterial community. The soil microbial species were relatively single and inhomogeneous in the polluted soils. The bacterial phyla in polluted and controlled soils include Proteobacteria, Actinobacteria, Chloroflexi, and Acidobacteria, which differ markedly in abundance.

DISCUSSION

The results of these observations provide insights into the ecotoxicological effects of Cr(VI) exposure to soil microorganisms. To sum up these results are critical for evaluating the stabilized state of microbial community structures, contributing to the assessment of the potential risk of metal accumulation in soils.

Soil properties rather than plant diversity mediate the response of soil bacterial community to N and P additions in an alpine meadow

The alpine meadow on the Qinghai-Tibetan Plateau, which is susceptible to global climate change and human activities, is subject to nutrient addition such as nitrogen (N) and phosphorus (P) to enhance soil available nutrients and ecosystem productivity. Soil bacterial community partly drivers the effects of nutrient additions on ecosystem processes, whereas the factors influencing N and P additions on bacterial community in alpine meadows are not well documented. We conducted a N and P addition experiment in an alpine meadow ecosystem on the Qinghai-Tibetan Plateau with four treatments: untreated control (CK), N addition (N), P addition (P), and NP addition (NP). We employed a high-throughput Illumina Miseq sequencing technology to investigate the response of soil bacterial community to short-term N and P additions. N and P additions decreased soil bacterial richness (OTU numbers and Chao 1 index), and P addition decreased soil bacterial diversity (Shannon and Simpson indices). N addition directly induced the change of soil NH4+−N, and decreased plant diversity. The N and P additions reduced soil bacterial community diversity, whose response was independent with plant diversity. Additionally, nutrient additions altered soil bacterial community composition, which were highly correlated with soil properties (i.e. pH, NH4+−N, and TP) as shown by RDA. Consistently, structural equation modeling results revealed that N addition indirectly acted on soil bacterial community through altering soil available nutrients and pH, while P addition indirectly affected bacterial community by increasing soil P availability. These findings imply that more attention should be paid to soil properties in regulating belowground biodiversity process in alpine meadows under future environmental change scenario.

Effects of Land Use on the Soil Microbial Community in the Songnen Grassland of Northeast China

Land use change obviously changes the plant community composition and soil properties of grasslands and thus affects multiple functions and services of grassland ecosystems. However, the response mechanisms of soil microorganisms, key drivers of the nutrient cycle and other soil functions during changes in grassland use type and associated vegetation are not well understood. In this study, Illumina high-throughput sequencing was used to analyze the changes in the soil microbial community structure of four grassland use types: exclosure (EL), mowed land (ML), grazed land (GL), and farmland (FL) in the Songnen Plain of Northeast China. The results showed that the FL and EL had significantly higher soil total nitrogen (TN) and lower soil electrical conductivity (EC) and pH than GL and ML. In contrast, the GL and ML had higher soil bulk density (BD) and organic matter, respectively, than the other land use types. In addition, the values of the Shannon diversity and Pielou’s evenness indexes were highest in the EL of all the land use types. Based on the high-throughput sequencing results, we observed high levels of α diversity in the FL for both bacteria and fungi. A structural equation model (SEM) revealed that pH and EC had a direct and positive effect on the bacterial community structure and composition. In addition, plant taxonomic diversity (according to the Shannon diversity and Pielou’s evenness indexes) indirectly affected the bacterial community composition via soil pH and EC. Notably, fungal composition was directly and positively correlated with soil nutrients and the value of Pielou’s evenness index changed with land use type. In conclusion, soil properties and/or plant diversity might drive the changes in the soil microbial community structure and composition in different grassland use types.

Distinct Elevational Patterns and Their Linkages of Soil Bacteria and Plant Community in An Alpine Meadow of the Qinghai-Tibetan Plateau

Soil microbes play important roles in determining plant community composition and terrestrial ecosystem functions, as well as the direction and extent of terrestrial ecosystem feedback to environmental changes. Understanding the distribution patterns of plant and soil microbiota along elevation gradients is necessary to shed light on important ecosystem functions. In this study, soil bacteria along an elevation gradient in an alpine meadow ecosystem of the Qinghai−Tibetan Plateau were investigated using Illumina sequencing and GeoChip technologies. The community structure of the soil bacteria and plants presented a continuous trend along the elevation gradient, and their alpha diversity displayed different distribution patterns; however, there were no linkages between them. Beta diversity of the soil bacteria and plants was significantly influenced by elevational distance changes (p < 0.05). Functional gene categories involved in nitrogen and phosphorus cycling had faster changes than those involved in carbon degradation, and functional genes involved in labile carbon degradation also had faster variations than those involved in recalcitrant carbon degradation with elevational changes. According to Pearson’s correlation, partial Mantel test analysis, and canonical correspondence analysis, soil pH and mean annual precipitation were important environmental variables in influencing soil bacterial diversity. Soil bacterial diversity and plant diversity had different distribution patterns along the elevation gradient.