scholarly journals Fast response of fungal and prokaryotic communities to climate change manipulation in two contrasting tundra soils

2019 ◽  
Vol 14 (1) ◽  
Author(s):  
Jana Voříšková ◽  
Bo Elberling ◽  
Anders Priemé
Keyword(s):  
Organic Matter ◽  
Seasonal Variation ◽  
Snow Cover ◽  
Bacterial Communities ◽  
Winter Precipitation ◽  
Fungal Communities ◽  
Tundra Soils ◽  
Short Term ◽  
Fungal Community Composition ◽  
Climate Manipulation

Abstract Background Climate models predict substantial changes in temperature and precipitation patterns across Arctic regions, including increased winter precipitation as snow in the near future. Soil microorganisms are considered key players in organic matter decomposition and regulation of biogeochemical cycles. However, current knowledge regarding their response to future climate changes is limited. Here, we explore the short-term effect of increased snow cover on soil fungal, bacterial and archaeal communities in two tundra sites with contrasting water regimes in Greenland. In order to assess seasonal variation of microbial communities, we collected soil samples four times during the plant-growing season. Results The analysis revealed that soil microbial communities from two tundra sites differed from each other due to contrasting soil chemical properties. Fungal communities showed higher richness at the dry site whereas richness of prokaryotes was higher at the wet tundra site. We demonstrated that fungal and bacterial communities at both sites were significantly affected by short-term increased snow cover manipulation. Our results showed that fungal community composition was more affected by deeper snow cover compared to prokaryotes. The fungal communities showed changes in both taxonomic and ecological groups in response to climate manipulation. However, the changes were not pronounced at all sampling times which points to the need of multiple sampling in ecosystems where environmental factors show seasonal variation. Further, we showed that effects of increased snow cover were manifested after snow had melted. Conclusions We demonstrated rapid response of soil fungal and bacterial communities to short-term climate manipulation simulating increased winter precipitation at two tundra sites. In particular, we provide evidence that fungal community composition was more affected by increased snow cover compared to prokaryotes indicating fast adaptability to changing environmental conditions. Since fungi are considered the main decomposers of complex organic matter in terrestrial ecosystems, the stronger response of fungal communities may have implications for organic matter turnover in tundra soils under future climate.

scholarly journals The gut mycobiome of healthy mice is shaped by the environment and shapes metabolic outcomes in response to diet

2020 ◽  
Author(s):  
Tahliyah S. Mims ◽  
Qusai Al Abdullah ◽  
Justin D. Stewart ◽  
Sydney P. Watts ◽  
Catrina T. White ◽  
...  
Keyword(s):  
Community Composition ◽  
Fungal Community ◽  
Bacterial Communities ◽  
Genetic Background ◽  
Dietary Exposure ◽  
Fungal Communities ◽  
Metabolic Adaptation ◽  
Fungal Community Composition ◽  
Metabolic Outcomes ◽  
Metabolic Biomarkers

ABSTRACTObjectiveAs an active interface between the host and their diet, the gut bacteriome influences host metabolic adaptation. However, the contribution of gut fungi to host metabolic outcomes is not yet understood. Therefore, we aimed to determine if host metabolic response to an ultra-processed diet reflects gut fungal community composition.DesignWe compared jejunal fungi and bacteria from 72 healthy mice with the same genetic background but different starting mycobiomes before and after 8 weeks on an ultra-processed or standardized diet using 16S and internal transcribed spacer region 2 ribosomal RNA sequencing. We measured host body composition using magnetic resonance imaging, examined changes in metabolically active host tissues and quantified serum metabolic biomarkers.ResultsGut fungal communities are highly variable between mice, differing by vendor, age and sex. After exposure to an ultra-processed diet for 8 weeks, persistent differences in fungal community composition strongly associate with differential deposition of body mass in male mice compared to mice on standardized diet. Fat deposition in the liver, genomic adaptation of metabolically active tissues and serum metabolic biomarkers are correlated with alterations in fungal diversity and community composition. Variation in fungi from the genera Thermomyces and Saccharomyces most strongly associate with increased weight gain.ConclusionsIn the gut of healthy mice, host-microbe metabolic interactions strongly reflect variability in fungal communities. Our results confirm the importance of luminal fungal communities to host metabolic adaptation to dietary exposure. Gut fungal communities may represent a therapeutic target for the prevention and treatment of metabolic disease.Graphical AbstractIn BriefWhat is already known about this subject?Gut bacterial communities have evolved to influence the metabolic outcomes of the host in mammals. Evidence from across the lifespan suggests that differences in composition of these communities is associated with energy consumption. However, gut microbial communities, while often equated to bacteria, are diverse, multi-kingdom ecologies and limited information is available for the role of other kingdoms of life, such as fungi.What are the new findings?Gut fungal communities, collectively termed the mycobiome, are less diverse and abundant than bacterial communities in the gastrointestinal tract. This study identifies the considerable influence of the environment and dietary exposure on the composition of jejunal fungal communities in healthy mice with the same genetic background. After exposure to processed diet, differences in fungal community composition in male mice were strongly correlated with persistent differences body composition and markers of metabolic tone.How might it impact on clinical practice in the foreseeable future?These results verify that the baseline metabolic tone of health mice strongly reflects the ecological complexity of the gastrointestinal mycobiome. Variation in the composition of gut fungal communities is likely an underappreciated source of experimental and clinical variability in metabolic studies. Gastrointestinal fungi are likely a target for prevention and treatment of metabolic disease.

scholarly journals Differential Responses of Soil Bacterial and Fungal Community to Short-Term Crop Tree Management in a Larix gmelinii Plantation

Forests ◽  
2021 ◽  
Vol 12 (10) ◽  
pp. 1411
Author(s):  
Li Ji ◽  
Jiangbo Yu ◽  
Xingzhe Zhang ◽  
Yue Liu ◽  
Lixue Yang
Keyword(s):  
Organic Carbon ◽  
Bacterial Communities ◽  
Dissolved Organic Nitrogen ◽  
Organic Nitrogen ◽  
Soil Fungi ◽  
Fungal Communities ◽  
Larix Gmelinii ◽  
Short Term ◽  
Soil Microbial ◽  
Soil Bacterial

Crop tree management (CTM) is a widely applicable silviculture technology that is used to improve the performance of individual trees. However, only little information is available about the effects of the CTM regime on the soil microbial community structure. We conducted a study to explore the effects of short-term (five years) CTM on the soil bacterial and fungal diversity, community composition, and structure in the 0–10 cm soil layer in a Larix gmelinii (Rupr.) Kuzen. plantation. We set out to investigate the differential response of bacterial and fungal communities to variations in soil properties mediated by short-term CTM. Compared with the control plots, the soil microbial biomass carbon and microbial biomass nitrogen in CTM increased significantly by 64.2% and 32.3%, respectively. CTM significantly promoted the content of soil organic carbon, dissolved organic carbon, and nitrate nitrogen, and reduced the content of dissolved organic nitrogen. CTM changed the Shannon and Simpson indices of soil fungi to a remarkable extent but had little effect on the α diversity of bacterial communities. The bacterial β diversity was more sensitive to CTM than fungi. The relative abundance of Verrucomicrobiae (the dominant class of soil bacteria) in CTM was significantly increased by 78.2%, while the relative abundance of Agaricomycetes (dominant class for soil fungi) was reduced by 43.3%. We observed a significantly increased number of unique OTUs for soil fungi in the CTM plots. Redundancy analysis showed that dissolved organic carbon, soil moisture, and total phosphorus content significantly affected the composition of bacterial communities, while soil dissolved organic nitrogen, C/N, and total phosphorus drove the high variation in fungal community composition. Overall, our results emphasize the divergent response of soil bacterial and fungal communities in Larix gmelinii plantations to short-term CTM. We must pay more attention to the functional role of soil microbiota in future forest management.

scholarly journals Unlocking the Microbiome Communities of Banana (Musa spp.) under Disease Stressed (Fusarium wilt) and Non-Stressed Conditions

2020 ◽  
Vol 8 (3) ◽  
pp. 443 ◽  
Author(s):  
Manoj Kaushal ◽  
Rony Swennen ◽  
George Mahuku
Keyword(s):  
Fusarium Oxysporum ◽  
Relative Abundance ◽  
Fungal Community ◽  
Bacterial Communities ◽  
Fungal Communities ◽  
Fungal Community Composition ◽  
Core Microbiome ◽  
Fungal Microbiota ◽  
Diversity Structure ◽  
Plant Components

We assessed the diversity, structure, and assemblage of bacterial and fungal communities associated with banana plants with and without Fusarium oxysporum f. sp. cubense (Foc) symptoms. A total of 117,814 bacterial and 17,317 fungal operational taxonomy units (OTUs) were identified in the rhizosphere, roots, and corm of the host plant. Results revealed that bacterial and fungal microbiota present in roots and corm primarily emanated from the rhizosphere. The composition of bacterial communities in the rhizosphere, roots, and corm were different, with more diversity observed in the rhizosphere and less in the corm. However, distinct sample types i.e., without (asymptomatic) and with (symptomatic) Fusarium symptoms were the major drivers of the fungal community composition. Considering the high relative abundance among samples, we identified core microbiomes with bacterial and fungal OTUs classified into 20 families and colonizing distinct plant components of banana. Our core microbiome assigned 129 bacterial and 37 fungal genera to known taxa.

scholarly journals Variation in Soil Fungal Composition Associated with the Invasion of Stellera chamaejasme L. in Qinghai–Tibet Plateau Grassland

2019 ◽  
Vol 7 (12) ◽  
pp. 587 ◽  
Author(s):  
Wei He ◽  
Andrew Detheridge ◽  
Yongmei Liu ◽  
Lei Wang ◽  
Haochen Wei ◽  
...  
Keyword(s):  
Organic Matter ◽  
Mycorrhizal Fungi ◽  
Alpha Diversity ◽  
Pathogenic Fungi ◽  
Fungal Species ◽  
Fungal Communities ◽  
Tibet Plateau ◽  
Fungal Community Composition ◽  
Functional Variation ◽  
Stellera Chamaejasme

Stellera chamaejasme L. is the most problematic weed in China’s grasslands. Its root exudates affect co-occurring plants and thus may also affect soil fungi. Soils (0–20 cm depth) on two adjacent sites, one invaded the other uninvaded, were compared for a range of physiochemical parameters and by DNA sequencing of fungal communities. At the invaded site, relationships between S. chamaejasme abundance, soil physiochemical factors, and fungal communities were further investigated to determine whether these relationships corroborated conclusions on the basis of site differences that could be translated into functional variation. Results showed that the invaded soils had lower N, P, organic matter, fungal alpha diversity, and relative abundance of arbuscular mycorrhizal fungi (AMF), but greater abundance of pathogenic fungi. Organic matter and P were the edaphic factors most strongly linked to site differences in total fungal communities. Within the invaded site, organic matter rather than S. chamaejasme cover was closely linked to total fungal composition. However, on this site, a number of fungal species that had various ecological functions and that differentiated the two sites were related to S. chamaejasme cover. This study indicates that lower fertility soils may be more susceptible to invasion by S. chamaejasme. Although the influence of S. chamaejasme on total fungal community composition was limited, there was evidence of effects on particular fungal species. Further research is needed to determine whether these effects influence S. chamaejasme invasiveness.

scholarly journals Defining microbiome communities in banana (Musa spp.) with and without symptoms of Fusarium wilt

2019 ◽  
Author(s):  
Manoj Kaushal ◽  
Rony Swennen ◽  
George Mahuku
Keyword(s):  
Plant Growth ◽  
Microbial Communities ◽  
Bacterial Communities ◽  
Fungal Communities ◽  
Fungal Community Composition ◽  
Core Microbiome ◽  
Fungal Microbiota ◽  
Microbiome Assembly ◽  
Key Nodes ◽  
Diversity Structure

Abstract Background: Plant harbours microbial communities in rhizosphere and inside the roots. These plants associated microbial communities play pivotal roles in plant growth and productivity. However, in banana, the microbiome assembly, composition and abundance in different plant organs is not well understood and restricted only to bacterial communities in rhizosphere. Results: We assessed the diversity, structure and assemblage of bacterial and fungal communities associated with banana plants with and without Fusarium oxysporum f. sp. cubense (Foc) symptoms. A total of 117,814 bacterial and 17,317 fungal operational taxonomy units (OTUs) were identified in the rhizosphere, roots and corm of the host plant. Results revealed that bacterial and fungal microbiota present in roots and corm primarily emanated from the rhizosphere. The composition of bacterial communities in the rhizosphere, roots and corm were different, with more diversity observed in the rhizosphere and less in the corm. However, distinct sample types i.e. without (asymptomatic) and with (symptomatic) Fusarium symptoms were the major drivers of the fungal community composition. Considering the high relative abundance among samples, we identified core microbiomes with bacterial and fungal OTUs classified into 20 families and colonizing distinct plant components of banana. Our core microbiome assigned 129 bacterial and 37 fungal genera to known taxa. Conclusions: Banana plants harbor a rich and diverse bacterial and fungal communities in the rhizosphere, roots and corm. By comparing communities in other crops, we state that several of the communities discovered in banana could serve as key nodes for plant growth and health.

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