Long-term manure application increases soil organic matter and aggregation, and alters microbial community structure and keystone taxa

Lin, Yongxin; Ye, Guiping; Kuzyakov, Yakov; Liu, Deyan; Fan, Jianbo; Ding, Weixin

doi:10.1016/j.soilbio.2019.03.030

Cited by 356 publications

(179 citation statements)

References 79 publications

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“…Assembly of rhizosphere microbiome in plant is driven by many aspects, including climate environment, soil source, host developmental stage, cultivation practice, and root architecture [5][6][7][8]11,14,[21][22][23][24]. Biotic factors, such as plant genotypes, pathogens, biocontrol microorganisms, and seed bacteria also alter and influence the microbial communities in rhizosphere environment [5][6][7][8][12][13][14][26][27][28][29][30][46][47][48]. Previous studies have shown that plant and soil are both important factors in shaping the community structure of rhizosphere microbiota [14].…”

Section: Discussionmentioning

confidence: 99%

“…The relative abundance of core OTUs and rhizobacterial communities in different natural soils and under different cultivars may reflect changes of phytochemicals content releasing by roots. Furthermore, changes in the soil and the amended nutrient content in soils will result in changes of bacterial inocula presented in soils, and correspondingly changes happen in the community structure of the rhizosphere in tomato plants [22,23,28]. The artificial nutrient soils HF and CF showed distinct organic matter, P, K, and Mn contents compared with those of the five natural field soils.…”

Section: Discussionmentioning

confidence: 99%

“…The assembly and composition of rhizosphere microbial communities in tomato are affected by soil, plant genotype, and root system architecture [24,25,[27][28][29]. In addition, the effects of pathogens, biocontrol microorganisms, and nutrient amendment on the tomato microbiota have been demonstrated [15,22,23].…”

Section: Introductionmentioning

confidence: 99%

“…In addition, the effects of pathogens, biocontrol microorganisms, and nutrient amendment on the tomato microbiota have been demonstrated [15,22,23]. Changes in the soil, such as land-use changes, will affect the assembly and final composition of rhizosphere microbial communities [27,28]. Allard et al [22] and Cai et al [23] suggested a correlation between the amended nutrient content in soils and changes in bacterial community structure in the rhizosphere of tomato plants.…”

Section: Introductionmentioning

confidence: 99%

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Revealing the Variation and Stability of Bacterial Communities in Tomato Rhizosphere Microbiota

Cheng

Lei

et al. 2020

Microorganisms

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Microorganisms that colonize the plant rhizosphere can contribute to plant health, growth and productivity. Although the importance of the rhizosphere microbiome is known, we know little about the underlying mechanisms that drive microbiome assembly and composition. In this study, the variation, assembly and composition of rhizobacterial communities in 11 tomato cultivars, combined with one cultivar in seven different sources of soil and growing substrate, were systematically investigated. The tomato rhizosphere microbiota was dominated by bacteria from the phyla Proteobacteria, Bacteroidetes, and Acidobacteria, mainly comprising Rhizobiales, Xanthomonadales, Burkholderiales, Nitrosomonadales, Myxococcales, Sphingobacteriales, Cytophagales and Acidobacteria subgroups. The bacterial community in the rhizosphere microbiota of the samples in the cultivar experiment mostly overlapped with that of tomato cultivar MG, which was grown in five natural field soils, DM, JX, HQ, QS and XC. The results supported the hypothesis that tomato harbors largely conserved communities and compositions of rhizosphere microbiota that remains consistent in different cultivars of tomato and even in tomato cultivar grown in five natural field soils. However, significant differences in OTU richness (p < 0.0001) and bacterial diversity (p = 0.0014 < 0.01) were observed among the 7 different sources of soil and growing substrate. Two artificial commercial nutrient soils, HF and CF, resulted in a distinct tomato rhizosphere microbiota in terms of assembly and core community compared with that observed in natural field soils. PERMANOVA of beta diversity based on the combined data from the cultivar and soil experiments demonstrated that soil (growing substrate) and plant genotype (cultivar) had significant impacts on the rhizosphere microbial communities of tomato plants (soil, F = 22.29, R 2 = 0.7399, p < 0.001; cultivar, F = 2.04, R 2 = 0.3223, p = 0.008). Of these two factors, soil explained a larger proportion of the compositional variance in the tomato rhizosphere microbiota. The results demonstrated that the assembly process of rhizosphere bacterial communities was collectively influenced by soil, including the available bacterial sources and biochemical properties of the rhizosphere soils, and plant genotype.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Revealing the Variation and Stability of Bacterial Communities in Tomato Rhizosphere Microbiota

Cheng

Lei

et al. 2020

Microorganisms

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“…Previous studies have shown that plants that rarely have root hairs can promote the uptake of nutrients by establishing mutualism with soil microorganisms [23,24]. We hypothesize that the microbiota in natural ecosystems impacts nutrient uptake in trees and cycling of soil nutrients, but due to the lack of root hairs in walnut, a large number of chemical fertilizers in the cultivated orchard destroy the soil microbial community and soil quality, resulting in the weak nutrient absorption capacity of trees and lower soil fertility [19,25,26]. However, to our knowledge, few studies have reported on the ecological effects of long-term fertilization on microorganisms in the woody perennials, especially economic trees, despite the increased number of studies dealing with soil microbial community structure and function in several annual crop species (soybean [15]; barley [27]; rice [28]; maize [29]; wheat, oat and pea [30]).…”

Section: Introductionmentioning

confidence: 96%

Soil Chemical and Microbiological Properties Are Changed by Long-Term Chemical Fertilizers That Limit Ecosystem Functioning

et al. 2020

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Although the effects of fertilization and microbiota on plant growth have been widely studied, our understanding of the chemical fertilizers to alter soil chemical and microbiological properties in woody plants is still limited. The aim of the present study is to investigate the impact of long-term application of chemical fertilizers on chemical and microbiological properties of root-associated soils of walnut trees. The results show that soil organic matter (OM), pHkcl, total nitrogen (TN), nitrate-nitrogen (NO3−), and total phosphorus (TP) contents were significantly higher in non-fertilized soil than after chemical fertilization. The long-term fertilization led to excessive ammonium-nitrogen (NH4+) and available phosphorus (AP) residues in the cultivated soil, among which NH4+ resulted in soil acidification and changes in bacterial community structure, while AP reduced fungal diversity. The naturally grown walnut trees led to an enrichment in beneficial bacteria such as Burkholderia, Nitrospira, Pseudomonas, and Candidatus_Solibacter, as well as fungi, including Trichoderma, Lophiostoma, Phomopsis, Ilyonectria, Purpureocillium, Cylindrocladiella, Hyalorbilia, Chaetomium, and Trichoglossum. The presence of these bacterial and fungal genera that have been associated with nutrient mobilization and plant growth was likely related to the higher soil OM, TN, NO3−, and TP contents in the non-fertilized plots. These findings highlight that reduced chemical fertilizers and organic cultivation with beneficial microbiota could be used to improve economic efficiency and benefit the environment in sustainable agriculture.

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Nutrient management strategy in rice–chickpea system for improving chemical and biological properties of lateritic soil

Kumar

Swain

2021

Agronomy Journal

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Field experiments were conducted during 2013–2015 under a long‐term organic and inorganic fertilization experiment established in 2009 at Kharagpur in India to assess the impact of rate and application timing of organic and inorganic nutrient sources on changes in fertility of lateritic soils. Vermicompost (VC), crop residue (CR), vermiwash (VW), and Azotobacter (AZ) were used as organic sources and chemical fertilizers (CF) as inorganic sources. The nine treatments were Control, CF at 100% N, P, and K (CF 100), VC at 100% N applied onetime as basal (VC‐b100), VC at 100% N applied in two splits (VC 100), VC 50+CF 50, CR, CF 50+CR, VC 50+CR, and VC 50+VW+AZ. After 2 yr of rice (Oryza sativa L.)–chickpea (Cicer arietinum L.) system, significant increase in soil pH (from 5.43 to 5.72) and soil organic carbon (SOC) content (from 3.3 g kg‐1 to 3.8 g kg‐1) was noted with VC100, compared to CF100 (from 5.21 to 5.08 for pH and 3.1 to 2.9 g kg‐1 for SOC). Further, the total soil N content decreased from their initial values in all the nutrient treatments, except VC100, which registered an accumulation of 22 kg ha‐1 over its initial value (874 kg ha‐1). The VC‐based nutrient treatments had significantly higher soil available micro‐nutrients content (Fe, Zn, and Mn) compared to their initial levels. The VC‐based treatments significantly reduced accumulation of heavy metals (available Pb and Ni) content in soil compared to inorganic nutrient treatments. This nutrient management strategy could reduce environmental risk associated with synthetic chemical fertilizers.

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Long-term manure application increases soil organic matter and aggregation, and alters microbial community structure and keystone taxa

Cited by 356 publications

References 79 publications

Revealing the Variation and Stability of Bacterial Communities in Tomato Rhizosphere Microbiota

Revealing the Variation and Stability of Bacterial Communities in Tomato Rhizosphere Microbiota

Soil Chemical and Microbiological Properties Are Changed by Long-Term Chemical Fertilizers That Limit Ecosystem Functioning

Nutrient management strategy in rice–chickpea system for improving chemical and biological properties of lateritic soil

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