Effects of Chemical and Solar Soil-Disinfection Methods on Soil Bacterial Communities

The actctivated carbon + solar radiation membrane is an eco-friendly soil disinfestations method for managing soil-borne plant pathogens. However, little was known the impact of Activated carbon + solar radiation membrane on bacterial community structure in strawberry production systems under field conditions. A comprehensive evaluation of the impacts of different soil disinfection methods on the bacterial community structure is fundamental to understand the role of disinfection in maintaining soil health. The changes in the soil bacterial diversity and community composition were detected using realtime fluorescence quantitative PCR (RTFQ PCR) and next-generation sequencing techniques to better understand the effect of soil disinfection. The bacterial community composition was monitored after disinfection using dazomet (DZ), chloropicrin (CP), 100 kg/ha activated carbon + solar radiation membrane (AC1), 200 kg/ha activated carbon + solar radiation membrane (AC2), and 300 kg/ha activated carbon + solar radiation membrane (AC3) and compared with the control (CT). The results indicated that the different dosages of activated carbon (AC1, AC2, and AC3) did not affect the bacterial community structure. On the other hand, DZ and CP considerably reduced the soil biomass and abundance of bacterial species. Chemical fumigants influenced the bacterial community structure, with DZ treatment leading to the dominance of the phylum Firmicutes, accounting for approximately 54%. After fumigation with CP, Proteobacteria and Acidobacteria were the dominant phyla. Beta diversity analysis and principal coordinate analysis revealed that the bacterial communities in the soil treated with DZ and CP formed clusters. Redundancy analysis indicated that soil pH, available potassium, and available phosphorus were the key factors influencing microbial metabolic functional diversity. Thus, it was verified that the damage caused by activated carbon + solar radiation membrane—a potential alternative for chemical fumigant—to the soil bacterial community was less than that caused by chemicals DZ and CP.

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Significant Differences in the Gut Bacterial Communities of Hooded Crane (Grus monacha) in Different Seasons at a Stopover Site on the Flyway

Animals ◽

10.3390/ani10040701 ◽

2020 ◽

Vol 10 (4) ◽

pp. 701 ◽

Cited By ~ 1

Author(s):

Fengling Zhang ◽

Xingjia Xiang ◽

Yuanqiu Dong ◽

Shaofei Yan ◽

Yunwei Song ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Community Composition ◽

Bacterial Communities ◽

Bacterial Community Structure ◽

Bacterial Community Composition ◽

Stopover Site ◽

Intestinal Bacterial Community ◽

Hooded Crane ◽

Grus Monacha

Intestinal bacterial communities form an integral component of the organism. Many factors influence gut bacterial community composition and diversity, including diet, environment and seasonality. During seasonal migration, birds use many habitats and food resources, which may influence their intestinal bacterial community structure. Hooded crane (Grus monacha) is a migrant waterbird that traverses long distances and occupies varied habitats. In this study, we investigated the diversity and differences in intestinal bacterial communities of hooded cranes over the migratory seasons. Fecal samples from hooded cranes were collected at a stopover site in two seasons (spring and fall) in Lindian, China, and at a wintering ground in Shengjin Lake, China. We analyzed bacterial communities from the fecal samples using high throughput sequencing (Illumina Mi-seq). Firmicutes, Proteobacteria, Tenericutes, Cyanobacteria, and Actinobacteria were the dominant phyla across all samples. The intestinal bacterial alpha-diversity of hooded cranes in winter was significantly higher than in fall and spring. The bacterial community composition significantly differed across the three seasons (ANOSIM, P = 0.001), suggesting that seasonal fluctuations may regulate the gut bacterial community composition of migratory birds. This study provides baseline information on the seasonal dynamics of intestinal bacterial community structure in migratory hooded cranes.

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Composition and stability of bacterial communities associated with granular activated carbon and anthracite filters in a pilot scale municipal drinking water treatment facility

Journal of Water and Health ◽

10.2166/wh.2012.092 ◽

2012 ◽

Vol 10 (2) ◽

pp. 244-255 ◽

Cited By ~ 6

Author(s):

T. B. Shirey ◽

R. W. Thacker ◽

J. B. Olson

Keyword(s):

Drinking Water ◽

Activated Carbon ◽

Community Structure ◽

Water Treatment ◽

Bacterial Community ◽

16S Rrna ◽

Community Composition ◽

Bacterial Communities ◽

Granular Activated Carbon ◽

Rrna Genes

Granular activated carbon (GAC) is an alternative filter substrate for municipal water treatment as it provides a high surface area suitable for microbial colonization. The resulting microbial growth promotes biodegradation of organic materials and other contaminants from influent waters. Here, the community structure of the bacteria associated with three GAC and two anthracite filters was examined over 12 months to monitor changes in community composition. Nearly complete 16S rRNA genes were polymerase chain reaction amplified for terminal restriction fragment length polymorphism (T-RFLP) analyses. The identity of commonly occurring peaks was determined through the construction of five representative 16S rRNA clone libraries. Based on sequence analysis, the bacterial communities associated with both anthracite and GAC filters appear to be composed of environmentally derived bacteria, with no known human pathogens. Analysis of similarity tests revealed that significant differences in bacterial community structure occurred over time, with filter substrate playing an important role in determining community composition. GAC filters exhibited the greatest degree of bacterial community variability over the sampling period, while anthracite filters showed a lower degree of variability and less change in community composition. Thus, GAC may be a suitable biologically active filter substrate for the treatment of municipal drinking water.

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Difference in Rhizosphere Soil Bacterial Community was among Six Cinnamomum camphora Chemotypes

10.20944/preprints202111.0158.v1 ◽

2021 ◽

Author(s):

Zufei Xiao ◽

Beihong Zhang ◽

Yangbao Wang ◽

Zhinong Jin ◽

Feng Li ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Bacterial Communities ◽

Bacterial Community Structure ◽

Rhizosphere Soil ◽

Soil Nutrient ◽

Soil Bacterial Community ◽

Cinnamomum Camphora ◽

Close Relationship ◽

Soil Bacterial

Abstract: Plant types and soil bacterial communities had a close relationship, understanding the profound association between them contributes to better learn bacterial ecological function for plant growth. In this study, rhizosphere soil of six different chemotype Cinnamomum camphora trees were collected, including C. bodinieri var. citralifera, [C. camphora (Linn.) Presl], camphora-type, cineole-type, linalool-type and isoborneol-type. Soil properties content and bacterial communities were analyzed. Two chemotype C. camphora, including [C. camphora (Linn.) Presl] and linalool-type, shaped similar bacterial community structure, decreased Firmcutes relative abundance. richness estimators (Chao1 index and Ace index) of [C. camphora (Linn.) Presl] were decreased compared with the others. Furthermore, soil bacterial community structure was also similar among bodinieri var. citralifera, camphora-type, cineole-type and isoborneol-type. Hence, different chemotype C. camphora altered soil nutrient and shaped rhizosphere bacterial communities.

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Effects of Manure and Chemical Fertilizer on Bacterial Community Structure and Soil Enzyme Activities in North China

Agronomy ◽

10.3390/agronomy11051017 ◽

2021 ◽

Vol 11 (5) ◽

pp. 1017

Author(s):

Zhiping Liu ◽

Wenyan Xie ◽

Zhenxing Yang ◽

Xuefang Huang ◽

Huaiping Zhou

Keyword(s):

Alkaline Phosphatase ◽

Community Structure ◽

Bacterial Community ◽

Enzyme Activities ◽

Bacterial Communities ◽

Bacterial Community Structure ◽

Organic Fertilizer ◽

Chemical Fertilizer ◽

Soil Bacterial Communities ◽

Soil Bacterial

The application of organic fertilizer affects soil microbes and enzyme activities. In this study, we explored the effects of various long-term different fertilization treatments (manure, M; chemical fertilizer, NP; manure + chemical fertilizer, MNP; and no fertilizer, CK) on bacterial community structure and soil sucrase, urease, and alkaline phosphatase activities in Shaping, Hequ, China. High-throughput sequencing was used to amplify the third to the fourth hypervariable region of the 16S ribosomal RNA for analysis of the bacterial community structure. Enzyme activities were determined by colorimetry. Soil treated with MNP had the highest bacterial Abundance-based Coverage Estimator index and enzyme activities. The principal coordinates analysis results showed significant differences among the various fertilization treatments (p < 0.001). Proteobacteria, Actinobacteria, Acidobacteria, Gemmatimonadetes, and Chloroflexi were consistently dominant in all soil samples. The redundancy analysis and Monte Carlo permutation tests showed that the soil bacterial communities were significantly correlated with alkali-hydrolyzable nitrogen, organic matter, urease, and alkaline phosphatase. Our results reveal the fundamentally different effects that organic and inorganic fertilizers have on soil bacterial communities and their functions.

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Local Environmental Factors Drive Divergent Grassland Soil Bacterial Communities in the Western Swiss Alps

Applied and Environmental Microbiology ◽

10.1128/aem.01170-16 ◽

2016 ◽

Vol 82 (21) ◽

pp. 6303-6316 ◽

Cited By ~ 26

Author(s):

Erika Yashiro ◽

Eric Pinto-Figueroa ◽

Aline Buri ◽

Jorge E. Spangenberg ◽

Thierry Adatte ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Water Content ◽

Bacterial Diversity ◽

Bacterial Communities ◽

Bacterial Community Structure ◽

Swiss Alps ◽

Content Type ◽

Soil Bacterial ◽

Western Swiss Alps

ABSTRACTMountain ecosystems are characterized by a diverse range of climatic and topographic conditions over short distances and are known to shelter a high biodiversity. Despite important progress, still little is known on bacterial diversity in mountain areas. Here, we investigated soil bacterial biogeography at more than 100 sampling sites randomly stratified across a 700-km2area with 2,200-m elevation gradient in the western Swiss Alps. Bacterial grassland communities were highly diverse, with 12,741 total operational taxonomic units (OTUs) across 100 sites and an average of 2,918 OTUs per site. Bacterial community structure was correlated with local climatic, topographic, and soil physicochemical parameters with high statistical significance. We found pH (correlated with % CaO and % mineral carbon), hydrogen index (correlated with bulk gravimetric water content), and annual average number of frost days during the growing season to be among the groups of the most important environmental drivers of bacterial community structure. In contrast, bacterial community structure was only weakly stratified as a function of elevation. Contrasting patterns were discovered for individual bacterial taxa.Acidobacteriaresponded both positively and negatively to pH extremes. Various families within theBacteroidetesresponded to available phosphorus levels. Different verrucomicrobial groups responded to electrical conductivity, total organic carbon, water content, and mineral carbon contents. Alpine grassland bacterial communities are thus highly diverse, which is likely due to the large variety of different environmental conditions. These results shed new light on the biodiversity of mountain ecosystems, which were already identified as potentially fragile to anthropogenic influences and climate change.IMPORTANCEThis article addresses the question of how microbial communities in alpine regions are dependent on local climatic and soil physicochemical variables. We benefit from a unique 700-km2study region in the western Swiss Alps region, which has been exhaustively studied for macro-organismal and fungal ecology, and for topoclimatic modeling of future ecological trends, but without taking into account soil bacterial diversity. Here, we present an in-depth biogeographical characterization of the bacterial community diversity in this alpine region across 100 randomly stratified sites, using 56 environmental variables. Our exhaustive sampling ensured the detection of ecological trends with high statistical robustness. Our data both confirm previously observed general trends and show many new detailed trends for a wide range of bacterial taxonomic groups and environmental parameters.

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The impacts of a biochar application on selected soil properties and bacterial communities in an Albic Clayic Luvisol

Soil and Water Research ◽

10.17221/19/2019-swr ◽

2020 ◽

Vol 15 (No. 2) ◽

pp. 85-92

Author(s):

Chengsen Zhao ◽

Qingqing Xu ◽

Lin Chen ◽

Xiaoqing Li ◽

Yutian Meng ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Soil Properties ◽

Bulk Density ◽

Relative Abundance ◽

Bacterial Communities ◽

Bacterial Community Structure ◽

Soil Layer ◽

Total Carbon ◽

Soil Bacterial

In this four-year study, we focused on the impacts of a biochar application on physicochemical soil properties (soil total carbon, total nitrogen, total potassium, total phosphorus, available nitrogen, available potassium, available phosphorus, pH, bulk density and moisture) and bacterial communities in an Albic Clayic Luvisol. The biochar was applied to plots only once with rates of 0, 10, 20 and 30 t/ha at the beginning of the experiment. The soil samples were collected from the surface (0–10 cm) and second depth (10–20 cm) soil layers after four years. The results showed that that the soil total carbon (TC) and pH increased, but the soil bulk density (BD) decreased with the biochar application. The soil bacterial sequences determined by the Illumina MiSeq method resulted in a decrease in the relative abundance of Acidobacteria, but an increase in the Actinobacteria with the biochar application. The bacterial diversity was significantly influenced by the biochar application. The nonmetric multidimensional scaling (NMDS) and canonical correspondence analysis (CCA) indicated that the soil bacterial community structure was affected by both the biochar addition and the soil depth. The Mantel test analysis indicated that the bacterial community structure significantly correlated to a soil with a pH (r = 0.525, P = 0.001), bulk density (r = 0.539, P = 0.001) and TC (r = 0.519, P = 0.002) only. In addition, most of the differences in the soil properties, bacterial relative abundance and community composition in the second depth soil layer were greater than those in the surface soil layer.

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Soil bacterial community and functional shifts in response to thermal insulation in moist acidic tundra of Northern Alaska

10.5194/soil-2015-89 ◽

2016 ◽

Cited By ~ 2

Author(s):

M. P. Ricketts ◽

R. S. Poretsky ◽

J. M. Welker ◽

M. A. Gonzalez-Meler

Keyword(s):

Climate Change ◽

Community Structure ◽

Bacterial Community ◽

Bacterial Communities ◽

Bacterial Community Structure ◽

Chemical Properties ◽

Winter Precipitation ◽

Snow Accumulation ◽

Soil Bacterial Communities ◽

Soil Bacterial

Abstract. Soil microbial communities play a central role in the cycling of carbon (C) in Arctic tundra ecosystems, which contain a large portion of the global C pool. Climate change predictions for Arctic regions include increased temperature and precipitation (i.e. more or less snow), resulting in increased winter soil insulation, increased soil temperature and moisture, and shifting plant community composition. We utilized an 18-year snowfence study site designed to examine the effects of increased winter precipitation on Arctic tundra soil bacterial communities within the context of ecosystem response to climate change. Soil was collected from three pre-established treatment zones representing varying degrees of snow accumulation (DEEP, INT, LOW), soil physical properties (temperature, moisture, active layer thaw depth) were measured, and samples were analysed for C content, nitrogen (N) content, and pH. DNA was extracted and the 16S rRNA gene was sequenced to reveal phylogenetic community differences between samples and determine how soil bacterial communities might respond (structurally and functionally) to changes in winter precipitation and soil chemistry. We analysed relative abundance changes of the six most abundant phyla and found four (Acidobacteria, Actinobacteria, Verrucomicrobia, and Chloroflexi) responded to deepened snow. All six phyla correlated with at least one of the soil chemical properties (%C, %N, C:N, pH), however a single predictor was not identified suggesting that each bacterial phylum responds differently to soil characteristics. Overall bacterial community structure (beta diversity) was found to be associated with snow accumulation treatment and all soil chemical properties. Bacterial functional potential was inferred using ancestral state reconstruction to approximate functional gene abundance, revealing a decreased abundance of genes required for soil organic matter (SOM) decomposition in the organic horizon of the deep snow accumulation zones. These results suggest that predicted climate change scenarios may result in altered soil bacterial community structure and function, and indicate either a reduction in decomposition potential that may limit C loss from the system, or alleviated temperature limitations on enzymatic efficiency, or both. The fate of stored C in Arctic soils ultimately depends on the balance between these mechanisms.

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Effects of Plastic Debris on the Biofilm Bacterial Communities in Lake Water

Water ◽

10.3390/w13111465 ◽

2021 ◽

Vol 13 (11) ◽

pp. 1465

Author(s):

Chao Shen ◽

Liuyan Huang ◽

Guangwu Xie ◽

Yulai Wang ◽

Zongkai Ma ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Bacterial Communities ◽

Bacterial Community Structure ◽

Diversity Index ◽

Plastic Substrate ◽

Simpson Index ◽

Plastic Debris ◽

Plastic Substrates ◽

Wiener Diversity Index

Increasing discharge of plastic debris into aquatic ecosystems and the worsening ecological risks have received growing attention. Once released, plastic debris could serve as a new substrate for microbes in waters. The complex relationship between plastics and biofilms has aroused great interest. To confirm the hypothesis that the presence of plastic in water affects the composition of biofilm in natural state, in situ biofilm culture experiments were conducted in a lake for 40 days. The diversity of biofilm attached on natural (cobble stones (CS) and wood) and plastic substrates (Polyethylene terephthalate (PET) and Polymethyl methacrylate (PMMA)) were compared, and the community structure and composition were also analyzed. Results from high-throughput sequencing of 16S rRNA showed that the diversity and species richness of biofilm bacterial communities on natural substrate (observed species of 1353~1945, Simpson index of 0.977~0.989 and Shannon–Wiener diversity index of 7.42~8.60) were much higher than those on plastic substrates (observed species of 900~1146, Simpson index of 0.914~0.975 and Shannon–Wiener diversity index of 5.47~6.99). The NMDS analyses were used to confirm the taxonomic significance between different samples, and Anosim (p = 0.001, R = 0.892) and Adonis (p = 0.001, R = 808, F = 11.19) demonstrated that this classification was statistically rigorous. Different dominant bacterial communities were found on plastic and natural substrates. Alphaproteobacterial, Betaproteobacteria and Synechococcophycideae dominated on the plastic substrate, while Gammaproteobacteria, Phycisphaerae and Planctomycetia played the main role on the natural substrates. The bacterial community structure of the two substrates also showed significant difference which is consistent with previous studies using other polymer types. Our results shed light on the fact that plastic debris can serve as a new habitat for biofilm colonization, unlike natural substrates, pathogens and plastic-degrading microorganisms selectively attached to plastic substrates, which affected the bacterial community structure and composition in aquatic environment. This study provided a new insight into understanding the potential impacts of plastics serving as a new habitat for microbial communities in freshwater environments. Future research should focus on the potential impacts of plastic-attached biofilms in various aquatic environments and the whole life cycle of plastics (i.e., from plastic fragments to microplastics) and also microbial flock characteristics using microbial plastics in the natural environment should also be addressed.

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