Soil Microbial Network Complexity Varies With pH as a Continuum, Not a Threshold, Across the North China Plain

Yang, Ying; Shi, Yu; Fang, Jie; Chu, Haiyan; Adams, Jonathan M.

doi:10.3389/fmicb.2022.895687

Cited by 16 publications

(13 citation statements)

References 74 publications

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“…First, higher soil pH, organic matter, total phosphorus, and available phosphorus under organic fertilization contributed to the keystone taxa of bacteria and protists in the network. This is consistent with previous studies showing that these factors can reshape microbial interactive relationships and network structures by affecting keystone taxa owing to their high connectivity and closeness centrality (Banerjee et al, 2019;Yang et al, 2022). Second, higher bacterial and protist richness under organic fertilization led to a higher number and average connectivity of nodes in the organic network than in the inorganic network.…”

Section: Control Of Bacterial Fungal and Protist Community Structures...supporting

confidence: 91%

Organic fertilization increases the abundance of bacteria, fungi, and protists and their co-occurrence complexity in acidic soils

Li,

Xing,

Wang

et al. 2023

Preprint

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Background and aims Organic fertilization highly influences microbial populations and diversity in the soil. This study aimed to understand how organic fertilizer application affects bacterial, fungal, and protist communities in acidic soils and thus reshapes their interactions. Methods Soil samples were collected from a long-term field experiment consisting of four fertilization treatments: no fertilization (control), inorganic fertilization (NPK), organic fertilization (OM), and their combination (NPKOM). The abundance and composition of bacterial, fungal, and protist communities were analyzed. Results The total abundance of bacteria, fungi, and protists increased by at least 2.95, 3.47, and 0.66 times after organic fertilizer application. The composition of the bacterial, fungal, and protist communities was significantly different between the inorganic and organic fertilization treatments. Organic fertilization increased the complexity of co-occurrence among bacteria, fungi, and protists by increasing the number of keystone taxa and inter-kingdom associations. The abundance, community structure, and keystone taxa of bacteria, fungi, and protists significantly correlated with soil organic matter, total phosphorus, and available phosphorus content. Conclusions Soil pH, organic matter, and phosphorus levels were important factors in determining bacterial, fungal, and protist community structures and the complexity of microbial co-occurrence in acidic soils. This study provided insights into the relationship between agricultural management practices and soil bacterial, fungal, and protist communities.

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Section: Control Of Bacterial Fungal and Protist Community Structures...supporting

confidence: 91%

Organic fertilization increases the abundance of bacteria, fungi, and protists and their co-occurrence complexity in acidic soils

Li,

Xing,

Wang

et al. 2023

Preprint

View full text Add to dashboard Cite

show abstract

“…Therefore, it’s justified to infer that microbial interactions and environmental factors might have supported the persistence of beneficial bacteria in the rhizosphere, as also observed earlier in a different study ( Debnath et al., 2023 ). Similarly, in another report, Yang et al. (2022) observed an increase in interdependent groups of bacteria with high pH values.…”

Section: Discussionsupporting

confidence: 65%

Non-rhizobial nodule endophytes improve nodulation, change root exudation pattern and promote the growth of lentil, for prospective application in fallow soil

et al. 2023

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Non-rhizobial endophytes (NREs) are active colonizers inhabiting the root nodules. Though their active role in the lentil agroecosystem is not well defined, here we observed that these NREs might promote the growth of lentils, modulate rhizospheric community structure and could be used as promising organisms for optimal use of rice fallow soil. NREs from root nodules of lentils were isolated and examined for plant growth-promoting traits, exopolysaccharide (EPS) and biofilm production, root metabolites, and the presence of nifH and nifK elements. The greenhouse experiment with the chosen NREs, i.e., Serratia plymuthica 33GS and Serratia sp. R6 significantly increased the germination rate, vigour index, development of nodules (in non-sterile soil) and fresh weight of nodules (33GS 94%, R6 61% growth) and length of the shoot (33GS 86%, R6 51.16%) as well as chlorophyll levels when compared to the uninoculated control. Scanning Electron Microscopy (SEM) revealed that both isolates could successfully colonize the roots and elicit root hair growth. The inoculation of the NREs resulted in specific changes in root exudation patterns. The plants with 33GS and R6 treatment significantly stimulated the exudation of triterpenes, fatty acids, and their methyl esters in comparison to the uninoculated plants, altering the rhizospheric microbial community structure. Proteobacteria dominated the rhizospheric microbiota in all the treatments. Treatment with 33GS or R6 also enhanced the relative abundance of other favourable microbes, including Rhizobium, Mesorhizobium, and Bradyrhizobium. The correlation network analysis of relative abundances resulted in numerous bacterial taxa, which were in cooperation with each other, having a possible role in plant growth promotion. The results indicate the significant role of NREs as plant growth promoters, which also includes their role in root exudation patterns, enhancement of soil nutrient status and modulation of rhizospheric microbiota, suggesting their prospects in sustainable, and bio-based agriculture.

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“…The increased stability along with increased complexity is in accordance with the patterns observed in macroecology (Montoya et al 2006), supporting MacArthur's argument that the complexity of ecosystems begets their stability (MacArthur 1955). Decreased pH enhancing the stability and complexity of the microbial community network was also found in a soil environment (Yang et al 2022). A previous study suggested that microbial ecological network complexity and stability appeared to be more tightly associated with the microbial community functional structure and ecosystem functional processes under climate warming (Yuan et al 2021).…”

Section: Discussionmentioning

confidence: 83%

Ocean acidification altered microbial functional potential in the Arctic Ocean

Wang

Zhang

Yang

et al. 2023

Limnology & Oceanography

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Ocean acidification (OA) has considerably changed the metabolism and structure of plankton communities in the ocean. Evaluation of the response of the marine bacterioplankton community to OA is critical for understanding the future direction of bacterioplankton‐mediated biogeochemical processes in the ocean. Understanding the diversity of functional genes is important for linking the microbial community to ecological and biogeochemical processes. However, the influence of OA on the functional diversity of bacterioplankton remains unclear. Using high‐throughput functional gene microarray technology (GeoChip 4), we investigated the functional gene structure and diversity of bacterioplankton under three different pCO2 levels (control: 175 μatm, medium: 675 μatm, and high: 1085 μatm) in a large Arctic Ocean mesocosm experiment. We observed a higher evenness of microbial functional genes under elevated pCO2 compared with under low pCO2. OA induced a more stable community as evaluated by decreased dissimilarity of functional gene structure with increased pCO2. Molecular ecological networks under elevated pCO2 became more complex and stable, supporting the central ecological tenet that complexity begets stability. In particular, increased average abundances were found under elevated pCO2 for many genes involved in key metabolic processes, including carbon degradation, methane oxidization, nitrogen fixation, dissimilatory nitrite/nitrate reduction, and sulfide reduction processes. Altogether, these results indicate a significant influence of OA on the metabolism potential of bacterioplankton in the Arctic Ocean. Consequently, our study suggests that biogeochemical cycling mediated by these microbes may be altered by the OA in the future.

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Soil Microbial Network Complexity Varies With pH as a Continuum, Not a Threshold, Across the North China Plain

Cited by 16 publications

References 74 publications

Organic fertilization increases the abundance of bacteria, fungi, and protists and their co-occurrence complexity in acidic soils

Organic fertilization increases the abundance of bacteria, fungi, and protists and their co-occurrence complexity in acidic soils

Non-rhizobial nodule endophytes improve nodulation, change root exudation pattern and promote the growth of lentil, for prospective application in fallow soil

Ocean acidification altered microbial functional potential in the Arctic Ocean

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