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Soil Microbial Community

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lightbulbAbout this topic
Soil microbial community refers to the diverse assemblage of microorganisms, including bacteria, fungi, archaea, and protozoa, residing in the soil ecosystem. These communities play crucial roles in nutrient cycling, organic matter decomposition, and soil health, influencing plant growth and ecosystem functioning.
lightbulbAbout this topic
Soil microbial community refers to the diverse assemblage of microorganisms, including bacteria, fungi, archaea, and protozoa, residing in the soil ecosystem. These communities play crucial roles in nutrient cycling, organic matter decomposition, and soil health, influencing plant growth and ecosystem functioning.

Key research themes

1. How does spatial heterogeneity at micro to landscape scales influence soil microbial community diversity and assembly?

This research area investigates how the spatial complexity and heterogeneity of soils, from microscale aggregates to landscape-level environmental gradients, shape the diversity, community structure, and assembly mechanisms of soil microbes. Understanding these spatial determinants is critical because traditional bulk soil sampling often masks microbial heterogeneity, limiting insights into ecological niches, dispersal, and biotic interactions in soil ecosystems.

Key finding: This review emphasizes that the physical microscale heterogeneity of the soil matrix—soil aggregates and microhabitats—critically dictates bacterial spatial distributions and ecological interactions driving diversity. It... Read more
Key finding: Using a systematic grid across a 13 km² agricultural landscape, this study maps microbial biomass and bacterial diversity, revealing spatially heterogeneous but spatially structured distributions with patch sizes on the order... Read more
Key finding: This study demonstrates that in arid and semi-arid soils, microbial community compositions (bacteria, archaea, fungi) vary largely in response to environmental factors like soil texture, organic matter, precipitation, rather... Read more
Key finding: High-throughput sequencing across large spatial and temporal scales reveals that spatial distance is strongly correlated with microbial community dissimilarity across bacteria, protists, fungi, and metazoans, but the strength... Read more
Key finding: The study establishes soil microbial biomass (SMB) as a crucial integrative indicator of soil ecosystem health and productivity. It identifies key ecological drivers influencing SMB across global ecosystems, including soil... Read more

2. How do agricultural management practices alter soil microbial community composition and function, and what are the implications for soil health and sustainability?

This theme focuses on the impacts of modern and traditional agricultural practices — including tillage, crop rotation, agrochemical inputs, and organic amendments — on soil microbial community structure, diversity, and functional potential. Given that soil microbes mediate nutrient cycling and soil fertility, understanding these anthropogenic effects is essential for optimizing agricultural productivity without degrading soil health.

Key finding: This review outlines how modern agriculture practices like intensive tillage, monocropping, agrochemical overuse, and lack of organic inputs negatively shift soil microbial community structure, reduce microbial diversity, and... Read more
Key finding: Through a meta-analysis of over 160 long-term experiments worldwide, the study reports that crop diversification generally increases microbial diversity and soil health, whereas continuous monoculture and excessive mineral... Read more
Key finding: This field study reveals that antecedent cover crops (hairy vetch, cereal rye) influence rhizosphere microbial community structure more markedly than direct soil microclimate changes, with seasonal effects also significant.... Read more
Key finding: By sequencing bacterial communities across diverse soil types and land uses, this study identifies strong correlations between specific bacterial taxa and soil chemical attributes (e.g., pH, C:N ratio, phosphorus levels),... Read more
Key finding: The paper synthesizes evidence that microbial abundance and diversity decline with soil depth and are influenced by soil properties such as organic matter content, porosity, and aeration, all of which can be altered by... Read more

3. What roles do biotic interactions, plant attributes, and synthetic microbial consortia play in shaping soil microbial community assembly, stability, and ecosystem functioning?

This area explores how interactions among microbial taxa, plant community composition, and synthetic assembly of model microbial communities influence community structure, temporal stability, and soil ecosystem processes. Investigating biotic interactions and host plant effects is critical for developing mechanistic understanding of soil microbiomes and for engineering microbial consortia to improve sustainable agriculture and ecosystem resilience.

Key finding: Comparative analyses across Australia and England demonstrate that plant community attributes—including species diversity, cover, and functional traits—explain unique variation in soil bacterial and fungal diversity and... Read more
Key finding: Experimental enrichment of soil microbial consortia on chitin and N-acetylglucosamine in soil matrix versus liquid revealed that initial species richness and physical environment influence successional dynamics and... Read more
Key finding: The development of a 17-member synthetic soil microbial community from switchgrass rhizosphere isolates enabled precise manipulation and reproducible study of community dynamics. By tuning initial inoculum ratios and... Read more
Key finding: Across 5 years and 30 long-term soil monitoring sites, the study identified temporally stable bacterial and fungal core communities that represent over 90% of relative abundance at each site. Core taxa showed strong habitat... Read more

All papers in Soil Microbial Community

1,3-Dichloropropene (1,3-D) is a likely alternative soil fumigant for methyl bromide. The objective was to determine root-knot nematode, Meloidogyne incognita, survival in microplots after exposure to 1,3-D for various periods of time in... more
Anaerobic soil disinfestation (ASD) has been demonstrated as an effective alternative to pre-plant chemical soil fumigation (CSF) commonly used to control soilborne pathogens. However, the ASD effects on spatial and temporal changes in... more
Your article is protected by copyright and all rights are held exclusively by Springer Science +Business Media Dordrecht. This e-offprint is for personal use only and shall not be selfarchived in electronic repositories. If you wish to... more
Background and Aims Condensed tannins, a dominant class of plant secondary metabolites, play potentially important roles in plant-soil feedbacks by influencing the soil microbial community. Effects of condensed tannins on the soil... more
High value crop producers in California rely heavily on soil fumigation to control a wide array of soil borne pests including nematodes, pathogens and weeds. Fumigants with broad biocidal activity can affect soil microbial communities... more
High value crop producers in California rely heavily on soil fumigation to control a wide array of soil borne pests including nematodes, pathogens and weeds. Fumigants with broad biocidal activity can affect soil microbial communities... more
Soil organic carbon (SOC) mineralization was carried out on soil samples collected from two depths: 0-20 cm and 20-40 cm for all land use (LU) types (grasslands, croplands, natural forest/fallow lands, cocoa/palm plantations, and... more
Despite several reports point out a rhizosphere effect shaping soil microbial communities and others an effect of altitude on plant phenotypic features, currently little is known about the impact of elevational patterns on the diversity... more
Biochar is a charcoal like substance produced from organic biomass after pyrolysis. Biochar act as a good soil conditioner by increasing microbial activities, soil nutrition and soil structure. Soil microorganisms are involved in litter... more
Changes in activity and structure of the soil microbial community after application of azoxystrobin or pirimicarb and an organic amendment to an agricultural soil
Agroecosystems in the Senegalese groundnut basin experience long periods of high temperatures and drought, which disrupt the stability of soil microbial communities. This study evaluated how that stability is affected by homefields and... more
Disentangling the kinetics of the soil microbial community succession, which is simultaneously driven by newly added plant materials and extant soil organic matter (SOM), can enrich our knowledge on microbial carbon (C) utilization... more
Anaerobic soil disinfestation (ASD) has been demonstrated as an effective alternative to pre-plant chemical soil fumigation (CSF) commonly used to control soilborne pathogens. However, the ASD effects on spatial and temporal changes in... more
The objectives of this study were to determine whether the invasive plant Amaranthus viridis influenced soil microbial and chemical properties and to assess the consequences of these modifications on native plant growth. The experiment... more
Deep soil stores a large amount of organic carbon (C) and nitrogen (N). However, little is known regarding the interactions between soil C and net N mineralization in deep soil, which complicates the prediction of ecosystem C and N... more
The objectives of this study were to determine whether the invasive plant Amaranthus viridis influenced soil microbial and chemical properties and to assess the consequences of these modifications on native plant growth. The experiment... more
A B S T R A C T Phospholipid fatty acid analysis (PLFA) is used as culture-independent tool in microbial ecology studies. Classification of PLFAs into chemically distinct subgroups will assess insights into microbial community structure... more
Atmospheric CO 2 concentration is increasing, largely due to anthropogenic activities. Previous studies of individual free-air CO 2 enrichment (FACE) experimental sites have shown significant impacts of elevated CO 2 (eCO 2) on soil... more
Forest canopy structure controls the timing, amount, and chemical character of precipitation supply to soils through interception and drainage along crown surfaces (primarily as throughfall). Yet, few studies have examined forest canopy... more
A field study was established to assess the effects of a sewage sludge (SS), a mixed municipal solid waste compost (MMSWC) and a compost produced from agricultural wastes (AWC), in a Vertisol, using Lolium multiflorum L. The amendments... more
Previous surveys of vineyards had indicated that Mesocriconema xenoplax was present in 85% of vineyards in western Oregon, but yields were not depressed in established vines. Microplot studies were initiated in 1997 in a Willamette Valley... more
Piliostigma reticulatum is a native woody shrub found in cropped fields in the Sahel and has been shown to increase crop productivity and soil quality. Frequently occurring drying and rewetting cycles (DRW) may alter the soil quality... more
and-conditions-of-access.pdf This article may be used for research, teaching and private study purposes. Any substantial or systematic reproduction, redistribution , reselling , loan or sub-licensing, systematic supply or distribution in... more
Chloropicrin (CP) and metam sodium are commonly used as fumigants in agricultural soils in order to provide effective control of nematodes, soil-borne pathogens, and weeds in preparation for planting of highvalue cash crops. Repeated... more
Piliostigma reticulatum is a native woody shrub found in cropped fields in the Sahel and has been shown to increase crop productivity and soil quality. Frequently occurring drying and rewetting cycles (DRW) may alter the soil quality... more
All rights reserved. No part of this periodical may be reproduced or transmitted in any form or by any means, electronic or mechanical, including photocopying, recording, or any information storage and retrieval system, without permission... more
Producers of several high-value crops in California rely heavily on soil fumigants to control key diseases, nematodes, and weeds. Fumigants with broad biocidal activity can affect both target and nontarget soil microorganisms. The ability... more
Producers of several high-value crops in California rely heavily on soil fumigants to control key diseases, nematodes, and weeds. Fumigants with broad biocidal activity can affect both target and nontarget soil microorganisms. The ability... more
Pre-plant fumigation of agricultural soils with a combination of methyl bromide (MeBr) and chloropicrin (CP) to control nematodes, soil-borne pathogens and weeds has been a common practice in strawberry (Fragaria X ananassa Duchesne)... more
The effectiveness of di-nitrogen tetroxide (DNTO) as a substitute for methyl bromide in controlling soil-borne nematodes, fungi and bacteria was evaluated. Application of DNTO to soil packed into columns resulted in a reduction of the... more
A sandy loam soil was fumigated in microcosms for 24 h with methyl bromide and chloropicrin (MeBr+CP), propargyl bromide (PrBr), combinations of 1,3-dichloropropene and CP (InLine), iodomethane and CP (Midas), an emulsifiable concentrate... more
fungal pathogens, but is not as effective against nematodes as MeBr (Wilhelm and Pavlou, 1980). Therefore, Methyl bromide (MeBr; CH 3 Br) use for soil fumigation will be a mixture of MeBr and CP is usually applied to control banned in... more
Piliostigma reticulatum is a native woody shrub found in cropped fields in the Sahel and has been shown to increase crop productivity and soil quality. Frequently occurring drying and rewetting cycles (DRW) may alter the soil quality... more
The effectiveness of di-nitrogen tetroxide (DNTO) as a substitute for methyl bromide in controlling soil-borne nematodes, fungi and bacteria was evaluated. Application of DNTO to soil packed into columns resulted in a reduction of the... more
Methyl bromide (MeBr) was identified as a stratospheric ozone depletory; therefore, the use of MeBr was phased out in the United States in 2005. Chloropicrin (CP) and allyl isothiocyanate (AITC) are MeBr replacements. A mixture of CP and... more
Recent controversy over the potential role of methyl bromide (MeBr) in damaging the ozone layer has spurred interest in increasing our understanding of the transformation and movement of this fumigant after it is applied to soil. Our... more
Piliostigma reticulatum is a native woody shrub found in cropped fields in the Sahel and has been shown to increase crop productivity and soil quality. Frequently occurring drying and rewetting cycles (DRW) may alter the soil quality... more
Soil analysis showed the increasing of TOC, TN, and amount of total DNA in correspondence with the stages of successions. In comparison to other samples, mature soil had higher amounts of C and N. The q-PCR assays showed similar trends in... more
This study was conducted to examine the effects of three application methods of metam sodium (broadcast, single irrigation drip tape delivery, and double irrigation drip tape delivery) and two plastic covers (polyethylene film and... more
Species of Prunus such as almond and peach can grow poorly when they are planted on sites with a recent history of closely related crops. Known causes of replant problems include nutrient deficiencies and toxicities, improper soil pH,... more
Producers of several high-value crops in California rely heavily on soil fumigants to control key diseases, nematodes, and weeds. Fumigants with broad biocidal activity can affect both target and nontarget soil microorganisms. The ability... more
A sandy loam soil was fumigated in microcosms for 24 h with methyl bromide and chloropicrin (MeBrCCP), propargyl bromide (PrBr), combinations of 1,3-dichloropropene and CP (InLine), iodomethane and CP (Midas), an emulsifiable concentrate... more
Pre-plant fumigation of agricultural soils with a combination of methyl bromide (MeBr) and chloropicrin (CP) to control nematodes, soil-borne pathogens and weeds has been a common practice in strawberry (Fragaria X ananassa Duchesne)... more
by Yitzhak Spiegel and 
1 more
The effectiveness of di-nitrogen tetroxide (DNTO) as a substitute for methyl bromide in controlling soil-borne nematodes, fungi and bacteria was evaluated. Application of DNTO to soil packed into columns resulted in a reduction of the... more
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