Cigar tobacco leaves (CTLs) contain abundant bacteria and fungi that are vital to leaf quality during fermentation. In this study, artificial fermentation was used for the fermentation of CTLs since it was more controllable and efficient than natural aging. The bacterial and fungal community structure and composition in unfermented and fermented CTLs were determined to understand the effects of microbes on the characteristics of CTLs during artificial fermentation. The relationship between the chemical contents and alterations in the microbial composition was evaluated, and the functions of bacteria and fungi in fermented CTLs were predicted to determine the possible metabolic pathways. After artificial fermentation, the bacterial and fungal community structure significantly changed in CTLs. The total nitrate and nicotine contents were most readily affected by the bacterial and fungal communities, respectively. FAPROTAX software predictions of the bacterial community revealed increases in functions related to compound transformation after fermentation. FUNGuild predictions of the fungal community revealed an increase in the content of saprotrophic fungi after fermentation. These data provide information regarding the artificial fermentation mechanism of CTLs and will inform safety and quality improvements.

https://onlinelibrary.wiley.com/doi/pdf/10.1002/mbo3.1171

Microbial community and metabolic function analysis of cigar tobacco leaves during fermentation

Responses of rhizosphere bacterial communities, their functions and their network interactions to Cd stress under phytostabilization by Miscanthus spp.

Responses of microbial communities and metabolic profiles to the rhizosphere of Tamarix ramosissima in soils contaminated by multiple heavy metals

Biochar amendment reduces cadmium uptake by stimulating cadmium-resistant PGPR in tomato rhizosphere.

The influence of bio-compost on the diversity, composition and structure of soil microbial communities is less understood. Here, Illumina MiSeq sequencing and a network analysis were used to comprehensively characterize the effects of 25 years of bio-compost application on the microbial diversity of soil and community composition. High dosages of bio-compost significantly increased the bacterial and fungal richness. The compositions of bacterial and fungal communities were significantly altered by bio-compost addition. Bio-compost addition enriched the relative abundance of beneficial microorganisms (such as Sphingomonas, Acidibacter, Nocardioides, etc.) and reduced the relative abundance of harmful microorganisms (such as Stachybotrys and Aspergillus). Electrical conductivity, soil organic matter and total phosphorus were the key factors in shaping soil microbial community composition. The bacterial network was more complex than fungal network, and bacteria were more sensitive to changes in environmental factors than fungi. Positive interactions dominated both the bacterial and fungal networks, with stronger positive interactions found in the bacterial network. Functional prediction suggested that bio-composts altered the soil bacterial-community metabolic function with respect to carbon, nitrogen and phosphorus cycles and fungal community trophic modes. In conclusion, suitable bio-compost addition is beneficial to the improvement of soil health and crop quality and therefore the sustainability of agriculture.

/pdf/long-term-application-of-bio-compost-increased-soil-356ikf9d.pdf

Long-Term Application of Bio-Compost Increased Soil Microbial Community Diversity and Altered Its Composition and Network

Soil microbes play important roles in plant growth and in the biogeochemical cycling of earth’s elements. However, the structure and functions of the microbial community associated with the growth of second-generation energy crops, such as Miscanthus, remain unclear. Thus, in this study, the composition and function of the bacterial and fungal communities associated with Miscanthus cultivation were analyzed by MiSeq sequencing combined with PICRUSt and FUNGUIld analyses. The results of community composition and diversity index analyses showed that Miscanthus cultivation significantly altered the bacterial and fungal community composition and reduced bacterial and fungal diversity. In addition, Miscanthus cultivation increased the soil organic matter (SOM) and total nitrogen (TN) contents. The correlation analysis between microbial community composition and environmental factors indicated that SOM and TN were the most important factors affecting bacterial and fungal communities. Miscanthus cultivation could enrich the abundances of Pseudomonas, Rhizobium, Luteibacter, Bradyrhizobium, Phenylobacterium and other common plant-promoting bacteria, while also increasing Cladophialophora, Hymenula, Magnaporthe, Mariannaea, etc., which predicted corresponded to the saprotrophic, plant pathogenic, and pathotrophic trophic modes. The PICRUSt predictive analysis indicated that Miscanthus cultivation altered the metabolic capabilities of bacterial communities, including the metabolism of carbon, nitrogen, and phosphorus cycle. In addition, FUNGUIld analysis indicated that Miscanthus cultivation altered the fungal trophic mode. The effects of Miscanthus on the communities and function of bacteria and fungi varied among Miscanthus species. Miscanthus specie Xiangdi NO 1 had the greatest impact on soil bacterial and fungal communities, whereas Miscanthus specie Wujiemang NO 1 had the greatest impact on soil bacteria and fungi functions. The results of this study provide a reference for the composition and function of microbial communities during the growth of Miscanthus.

Miscanthus cultivation shapes rhizosphere microbial community structure and function as assessed by Illumina MiSeq sequencing combined with PICRUSt and FUNGUIld analyses

Planktonic fungi are important components of aquatic ecosystems, and analyses of their community composition and function have far-reaching significance for the ecological management and maintenance of the Danjiangkou reservoir. The composition and function of the planktonic fungal community in the surface water layer of the Danjiangkou Reservoir in October 2019 was investigated using Illumina MiSeq sequencing combined with FUNGuild analyses. According to the results, the reservoir community is primarily composed of 6 phyla 213 genera, with Ascomycota and Basidiomycota being the dominant phyla. The water quality monitoring results for the Danjiangkou Reservoir met the Grade Ⅰ or Ⅱ water quality standards for the Environmental Quality Standards for Surface Water (GB 38382-2002). A redundancy analysis (RDA) of the planktonic fungal community and environmental factors showed that TN, TP, T, ORP, and TLI are important factors influencing the distribution of planktonic fungi. The Spearman correlation analysis showed that Alternaria, Cladosporium, Penicillium, Lodderomyces, and Acremonium were significantly correlated with physical and chemical water quality parameters. FUNGuild was used to predict the nutritional and functional groups of planktonic fungi, and the results showed that pathotrophs, saprotrophs, and pathotroph-saprotrophs were the major components. The pathotroph composition analysis showed that the proportions of plant pathogens and animal pathogens in the Heijizui samples were significantly higher than those observed in the other monitoring sites. The community composition, function, and influencing factors of the planktonic fungi community in the Danjiangkou Reservoir were investigated and indicated that it is potentially at ecological risk and more attention needs to be paid to planktonic fungi in the biological monitoring of water quality.

[Community Structure, Function, and Influencing Factors of Planktonic Fungi in the Danjiangkou Reservoir].

The water-level fluctuation zone (WLFZ) is a transitional zone between terrestrial and aquatic ecosystems. Plant communities that are constructed artificially in the WLFZ can absorb and retain nutrients such as nitrogen (N) and phosphorus (P). However, the microbial community composition and function associated with this process have not been elucidated. In this study, four artificially constructed plant communities, including those of herbs (Cynodon dactylon and Chrysopogon zizanioides), trees (Metasequoia glyptostroboides), and shrubs (Salix matsudana) from the newly formed WLFZ of the Danjiangkou Reservoir were evaluated. The bacterial community compositions were analyzed by 16S rRNA gene sequencing using a MiSeq platform, and the functions of these communities were assessed via Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt) analysis. The results showed that the bacterial communities primarily comprised 362 genera from 24 phyla, such as Proteobacteria, Acidobacteria, Actinobacteria, and Gemmatimonadetes, showing the richness of the community composition. Planting altered the bacterial community composition, with varying effects observed among the different plant types. The bacterial community functional analysis revealed that these bacteria were primarily associated with six biological metabolic pathway categories (e.g., metabolism, genetic information processing, and environmental information processing) with 34 subfunctions, showing the richness of community functions. The planting of M. glyptostroboides, S. matsudana, and C. dactylon improved the metabolic capabilities of bacterial communities. N- and P-cycling gene analysis showed that planting altered the N- and P-cycling metabolic capacities of soil bacteria. The overall N- and P-metabolic capacity was highly similar between C. dactylon and C. zizanioides samples and between S. matsudana and M. glyptostroboides samples. The results of this study provide a preliminary analysis of soil bacterial community structure and function in the WLFZ of the Danjiangkou Reservoir and provides a reference for vegetation construction in this zone.

https://www.mdpi.com/1660-4601/17/4/1266/pdf

Rhizosphere Bacterial Community Structure and Predicted Functional Analysis in the Water-Level Fluctuation Zone of the Danjiangkou Reservoir in China During the Dry Period

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Miscanthus cultivation shapes rhizosphere microbial community structure and function as assessed by Illumina MiSeq sequencing combined with PICRUSt and FUNGUIld analyses

Responses of rhizosphere bacterial communities, their functions and their network interactions to Cd stress under phytostabilization by Miscanthus spp.

[Community Structure, Function, and Influencing Factors of Planktonic Fungi in the Danjiangkou Reservoir].

Rhizosphere Bacterial Community Structure and Predicted Functional Analysis in the Water-Level Fluctuation Zone of the Danjiangkou Reservoir in China During the Dry Period