scholarly journals Spatial Distribution and Influencing Factors of Soil Fungi in a Degraded Alpine Meadow Invaded by Stellera chamaejasme

Agriculture ◽  
2021 ◽  
Vol 11 (12) ◽  
pp. 1280
Author(s):  
Yongmei Liu ◽  
Fan Zhao ◽  
Lei Wang ◽  
Wei He ◽  
Jianhong Liu ◽  
...  

Alpine meadow degradation causes a notable decrease in palatable grasses and an increase in forbs and toxic plants in recent decades. Stellera chamaejasme is one of the most serious toxic weeds, which exerts an increasing threat on alpine meadow in Qinghai–Tibetan Plateau. Combined DNA sequencing with geostatistics was applied to analyze a typical degraded meadow invaded by S. chamaejasme in Qinghai Province, China. The study aimed to determine the spatial variation of soil fungi and its interrelationship with the plant–soil environment. Alpha diversity and relative abundance of fungal phyla and classes showed moderate or strong spatial dependency and were structured in patches of 19–318 m, and taxonomic composition exhibited much higher spatial variability than alpha diversity. Compared to plant cover, the matching of patch size showed a closer spatial link between soil properties and fungal community. Community coverage, SOM, TN, TP, and TK positively correlated to fungal diversity and taxonomic composition; no direct correlation was found between S. chamaejasme coverage and fungal community. The result suggested significant but weak association between plant–soil properties and soil fungal community at local scale. Patchy pattern of S. chamaejasme may disturb spatial variations of soil properties and fungal community, since S. chamaejasme in higher coverage corresponded to lower TK content, which contributed to a decrease in fungal diversity indirectly.

2020 ◽  
Author(s):  
Wei Zheng ◽  
Zhiyuan Zhao ◽  
Fenglian Lv ◽  
Yanan Yin ◽  
Zhaohui Wang ◽  
...  

Abstract Background In soil ecosystems, bacteria and fungi always co-exist in the same niche and interact with each other, especially in different sized soil aggregates. The bacterial and fungal community assembly process and bacteria-fungi interactions in soil aggregates, which is important for bacterial and fungal community diversity and composition, is still unclear.Methods We examined bacterial and fungal community assembly in soil macroaggregate (> 0.25 mm), microaggregate (0.053–0.25 mm) and smaller microaggregate (silt + clay, < 0.053 mm) in an apple orchard. The microbial community assembly processes were analyzed by normalized stochasticity ratio index (NST).Results Bacterial community diversity, composition and assembly were more affected by agricultural practice and aggregate than fungal community. Bacterial community assembly was more stochastic in silt + clay than in macroaggregate, and was more stochastic (NST > 50%) than fungal community in soil aggregates. Meanwhile, bacterial NST was negatively correlated with fungal diversity, and fungal NST was positively correlated with fungal diversity. Co-occurrence network suggested that the bacteria and fungi were less strongly interacting in the network of silt + clay, compared to macroaggregate. The results indicated that fungi impact on the bacterial community assembly in soil aggregate, and the stochasticity of bacterial community assembly was increased with the decrease of interaction between bacteria and fungi in soil aggregates.Conclusions This study enhances our understanding of the mechanism of bacterial and fungal community assembly and co-exists pattern of bacteria and fungi in soil aggregates.


2021 ◽  
Vol 12 ◽  
Author(s):  
Piotr Koczorski ◽  
Bliss Ursula Furtado ◽  
Marcin Gołębiewski ◽  
Piotr Hulisz ◽  
Christel Baum ◽  
...  

Phosphorus (P) is an essential plant nutrient. Low availability of P in soil is mainly caused by high content of Fe2O3 in the clay fraction that binds to P making it unavailable. Beneficial microbes, such as P solubilizing microorganisms can increase the available P in soil and improve plant growth and productivity. In this study, we evaluated the effects of environmental conditions (climate, soil parameters), plant genotype, and level of plant association (rhizosphere or endophytic root organism) on the abundance and diversity of phosphorus solubilizing microorganisms in a Salix production system. We hypothesized that a lower number of endophytic fungi may possess the ability to solubilize P compared to the number of rhizosphere fungi with the same ability. We also expect that the plant genotype and the experimental site with its environmental conditions will influence fungal diversity. Two Salix genotypes grown in pure and mixed cultures were investigated for their fungal microbiome community and diversity in the rhizosphere and endosphere during two growing seasons. We found that the rhizosphere fungal community was more diverse. A general dominance of Ascomycota (Dothideomycetes) and Basidiomycota (Tremellomycetes) was observed. The classes Agaricomycetes and Pezizomycetes were more frequent in the endosphere, while Tremellomycetes and Mortierellomycetes were more abundant in the rhizosphere. Plot-specific soil properties (pH, total organic carbon, and nitrogen) significantly influenced the fungal community structure. Among the culturable fungal diversities, 10 strains of phosphate solubilizing fungi (PSFs) from roots and 12 strains from rhizosphere soil were identified using selective media supplemented with di-calcium and tri-calcium phosphates. The fungal density and the number of PSF were much higher in the rhizosphere than in the endosphere. Penicillium was the dominant genus of PSF isolated from both sites; other less frequent genera of PSFs were Alternaria, Cladosporium, and Clonostachys. Overall the main factors controlling the fungal communities (endophytic vs. rhizosphere fungi) were the soil properties and level of plant association, while no significant influence of growing season was observed. Differences between Salix genotypes were observed for culturable fungal diversity, while in metagenomic data analysis, only the class Dothideomycetes showed a significant effect from the plant genotype.


Water ◽  
2020 ◽  
Vol 12 (7) ◽  
pp. 1917
Author(s):  
Tianma Yuan ◽  
Haihan Zhang ◽  
Qiaoli Feng ◽  
Xiangyu Wu ◽  
Yixin Zhang ◽  
...  

Fungi are an important, yet often, neglected component of the aquatic microflora, and is responsible for primary decomposition and further processing of organic matter. By comparison, the ecological roles of terrestrial fungi have been well-studied, but the diversity and function of fungi that populate aquatic environments remain poorly understood. Here, the impact of urbanization on fungal diversity and community composition in the canal system of Suzhou was assessed by sequencing the internal transcribed spacer 1 (ITS1) region of the rRNA operon. It was amplified from environmental DNA that has been extracted from water samples and pre-deployed decomposing leaves collected from nine sampling locations (high, medium and low urbanization) over two seasons. The fungal diversity and community composition were determined by bioinformatic analysis of the large DNA sequence datasets generated to identify operational taxonomic units (OTUs) for phylogenetic assignment; over 1 million amplicons were sequenced from 36 samples. The alpha-diversity estimates showed high differences in fungal diversity between water and leaf samples, and winter versus summer. Higher numbers of fungal OTUs were identified in both water and leaf samples collected in the summer, and fungal diversity was also generally higher in water than on colonized leaves in both seasons. The fungal community on leaves was usually dominated by Ascomycetes, especially in winter, while water samples contained more diversity at phylum level with Chytridiomycetes often prominent, particularly in summer. At a genus level, a very high relative abundance of Alternaria on leaves was observed in winter at all locations, in contrast to very low abundance of this genus across all water samples. Fungal community composition also varied between sampling locations (i.e., urbanization); in cluster analysis, samples from high urbanization locations formed a distinct cluster, with medium and low urbanization samples clustering together or in some instances, separately. Redundancy analysis shed further light on the relationships between variation in fungal community composition and water physico-chemical properties. Fungal community diversity variation and correlation with different parameters is discussed in detail, but overall, the influence of season outweighed that of urbanization. This study is significant in cataloguing the impact of urbanization on fungal diversity to inform future restoration of urban canal systems on the importance of protecting the natural aquatic fungal flora.


2014 ◽  
Vol 25 (3-4) ◽  
pp. 53-68
Author(s):  
I. V. Goncharenko ◽  
H. M. Holyk

Cenotic diversity and leading ecological factors of its floristic differentiation were studied on an example of two areas – Kyiv parks "Nivki" and "Teremki". It is shown that in megalopolis the Galeobdoloni-Carpinetum impatientosum parviflorae subassociation is formed under anthropogenic pressure on the typical ecotope of near-Dnieper hornbeam oak forests on fresh gray-forest soils. The degree of anthropogenic transformation of cenofloras can be estimated by the number of species of Robinietea and Galio-Urticetea classes, as well as neophytes and cultivars. Phytoindication for hemeroby index may be also used in calculation. We propose the modified index of biotic dispersion (normalized by alpha-diversity) for the estimation of ecophytocenotic range (beta-diversity) of releves series. We found that alpha-diversity initially increases (due to the invasion of antropophytes) at low level of antropogenic pressure, then it decreases (due to the loss of aboriginal species) secondarily with increasing of human impact. Also we found that beta-diversity (differential diversity) decreases, increasing homogeneity of plant cover, under the influence of anthropogenic factor. Vegetation classification was completed by a new original method of cluster analysis, designated as DRSA («distance-ranked sorting assembling»). The classification quality is suggested to be validated on the "seriation" diagram, which is а distance matrix between objects with gradient filling. Dark diagonal blocks confirm clusters’ density (intracluster compactness), uncolored off-diagonal blocks are evidence in favor of clusters’ isolation (intercluster distinctness). In addition, distinction of clusters (syntaxa) in ordination area suggests their independence. For phytoindication we propose to include only species with more than 10% constancy. Furthermore, for the description of syntaxonomic amplitude we suggest to use 25%-75% interquartile scope instead of mean and standard deviation. It is shown that comparative analysis of syntaxa for each ecofactor is convenient to carry out by using violin (bulb) plots. A new approach to the phytoindication of syntaxa, designated as R-phytoindication, was proposed for our study. In this case, the ecofactor values, calculated for individual releves, are not taken into account, however, the composition of cenoflora with species constancies is used that helps us to minimize for phytoindication the influence of non-typical species. We suggested a syntaxon’s amplitude to be described by more robust statistics: for the optimum of amplitude (central tendency) – by a median (instead of arithmetic mean), and for the range of tolerance – by an interquartile scope (instead of standard deviation). We assesses amplitudes of syntaxa by phytoindication method for moisture (Hd), acidity (Rc), soil nitrogen content (Nt), wetting variability (vHd), light regime (Lc), salt regime (Sl). We revealed no significant differences on these ecofactors among ecotopes of our syntaxa, that proved the variant syntaxonomic rank for all syntaxa. We found that the core of species composition of our phytocenoses consists of plants with moderate requirements for moisture, soil nitrogen, light and salt regime. We prove that the leading factor of syntaxonomic differentiation is hidden anthropogenic, which is not subject to direct measurement. But we detect that hidden factor of "human pressure" was correlated with phytoindication parameters (variables) that can be measured "directly" by species composition of plant communities. The most correlated factors were ecofactors of soil nitrogen, wetting variability, light regime and hemeroby. The last one is the most indicative empirically for the assessment of "human impact". We establish that there is a concept of «hemeroby of phytocenosis» (tolerance to human impact), which can be calculated approximately as the mean or the median of hemeroby scores of individual species which are present in it.


2021 ◽  
Vol 52 (2) ◽  
pp. 239-250
Author(s):  
X.J. He ◽  
W.W. Zhu ◽  
F.Z. Wu

We studied the effects of 7-crop rotations and continuous - monocropping systems on soil microorganism and its feedback. The results showed that absolute abundance of soil bacteria (Pseudomonas and Bacillus) in tomato - celery - cucumber - cabbage and cucumber - tomato - cucumber - cabbage rotation were significantly higher than control (CK). Absolute abundance of soil fungi in tomato - celery - cucumber - cabbage, kidney bean - celery - cucumber - cabbage, cucumber - kidney bean - cucumber - cabbage and cucumber - tomato - cucumber - cabbage rotation were significantly higher than CK. Dry weight of cucumber seedlings was significantly positively correlated with bacterial (Pseudomonas and Bacillus) abundance, and negatively correlated with fungal count. The results of inoculation with Fusarium oxysporum f.sp. cucumerinum showed that plant dry weight of cucumber seedlings in tomato - celery - cucumber - cabbage, cucumber - kidney bean - cucumber - cabbage, cucumber - tomato - cucumber - cabbage rotation soil was significantly higher than other treatments, and their disease index was significantly lower than other treatments. There was no significant difference in dry weight of cucumber seedlings in rotation and CK in the soil sterilization test. The results of plant - soil feedback experiment showed that soil microbial changes caused by different rotation patterns had a positive feedback effect on growth of cucumber seedlings.


2020 ◽  
Author(s):  
Shashank Gupta ◽  
Mathis H. Hjelmsø ◽  
Jenni Lehtimäki ◽  
Xuanji Li ◽  
Martin Steen Mortensen ◽  
...  

Abstract Background From early life children are exposed to a multitude of environmental exposures, which may be of crucial importance for a healthy development. Here, the environmental microbiota may be of particular interest as it represents the interface between environmental factors and the child. As infants in modern societies spend a considerable amount of time indoors, we hypothesize that the indoor bed dust microbiota might be an important factor for the child and for the colonization of the early airway microbiome. To explore this hypothesis, we analysed the influence of environmental exposures on 577 dust samples from children’s beds (age 6 months) together with 542 airway samples (age 3 months) from the Copenhagen Prospective Studies on Asthma in Childhood 2010 cohort. Results The bed dust and airway microbiota were both profiled with bacterial amplicon sequencing while also fungal community was profiled from bed dust. Bacterial and fungal diversity in the dust was positively correlated. We observed that bacterial bed dust microbiota was influenced by multiple environmental factors, such as type of home (house or apartment), rural or urban living environment and pets (cat and/or dog), whereas fungal bed dust microbiota was majorly influenced by the sampling season. We further observed minor associations between bed dust and airway microbiota compositions among infants, but no evidence of transfer of individual taxa between the two departments. Conclusions Our finding demonstrate that bed dust microbiota is influenced by environmental exposures and could represent an interface between environment and child.


2021 ◽  
Author(s):  
E. D. Baranova ◽  
V. G. Druzhinin ◽  
L. V. Matskova ◽  
P. S. Demenkov ◽  
V. P . Volobaev ◽  
...  

Abstract Recent findings indicate that the microbiome can have a significant impact on the development of lung cancer by inducing inflammatory responses, causing dysbiosis and generating genome damage. The aim of this study was to search for bacterial markers of squamous cell carcinoma (LUSC). In the study, the taxonomic composition of the sputum microbiome of 40 men with untreated LUSC was compared with 40 healthy controls. Next Generation sequencing of bacterial 16S rRNA genes was used to determine the taxonomic composition of the respiratory microbiome. There was no differences in alpha diversity between the LUSC and control groups. Meanwhile, differences in the structure of bacterial communities (β diversity) among patients and controls differed significantly in sputum samples (pseudo-F = 1.65; p = 0.026). Only Streptococcus, Bacillus, Gemella and Haemophilus were found to be significantly increased in patients with LUSC compared to the control subjects, while 19 bacterial genera were significantly reduced, indicating a decrease in beta diversity in the microbiome of patients with LUSC. From our study, Streptococcus (Streptococcus agalactiae) emerges as the most likely LUSC biomarker, but more research is needed to confirm this assumption.


Author(s):  
Adrian Valdez ◽  
Sergio Covarrubias

The Andes range in Ecuador presents high biodiversity and characteristic altitudinal gradients, which are frequently threatened by deforestation and farming. In particular, forest have developed in the high inter-Andean alley on volcanic soils forming a unique ecoregion. Little is known on the fungal biodiversity of soil in such high Andean gallery forest submitted to strong degradation pressures. Therefore, in this study we evaluated wether the soil mycobiome was associated with altitudinal gradients during the dry season. Three representative locations were selected based on altitude: A (3,309 meters above the sea level, masl), B (3,809 masl) and C (4,409 masl). High performance sequencing (NGS) of the ITS region of ribosomal DNA genes with Illumina technology was used to explore the fungal taxonomic composition in the soil samples. Our results showed changes in the structure of fungal communities in the different locations, related to the relative abundance of Amplicon Sequence Variants (ASV). Higher fungal diversity was related with the altitudinal gradient with average taxa ranging from 675, 626 and 556 ASVs, respectively from location A to C. The results highlight the complexity and diversity of fungal communities in high Andean forest and the need to protect these unique mycobiomes. The findings in this ecosystem of Ecuador will improve our understanding of distribution, diversity, ecology, and biological perspectives for the restoration of terrestrial microbiomes.


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