Variations in microbial community structure and functional gene expression in bio-treatment processes with odorous pollutants

AbstractEngineered microbial ecosystems in biofilters have been widely applied to treat odorous gases from industrial emissions. Variations in microbial community structure and function associated with the removal of odorous gases by biofilters are largely unknown. This study performed a metagenomic analysis to discover shifts in microbial community structures in a commercial scale biofilter after treating odorous gas. Our study identified 175,675 functional genes assigned into 43 functional KEGG pathways. Based on the unigene sequences, there were significant changes in microbial community structures in the biofilter after treating odorous gas. The dominant genera were Thiobacillus and Oceanicaulis before the treatment, and were Acidithiobacillus and Ferroplasma after the treatment. A clustering analysis showed that the number of down-regulated microbes exceeded the number of up-regulated microbes, suggesting that odorous gas treatment reduced in microbial community structures. A differential expression analysis identified 29,975 up- and 452,599 down-regulated genes. An enrichment analysis showed 17 classic types of xenobiotic biodegradation pathways. The results identified 16 and 15 genes involved in ammonia and sulfite metabolism, respectively; an analysis of their relative abundance identified several up-regulated genes, which may be efficient genes involved in removing odorous gases. The data provided in this study demonstrate the changes in microbial communities and help identify the dominant microflora and genes that play key roles in treating odorous gases.

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Biome-Level Biogeography of Streambed Microbiota

Applied and Environmental Microbiology ◽

10.1128/aem.01809-07 ◽

2008 ◽

Vol 74 (10) ◽

pp. 3014-3021 ◽

Cited By ~ 23

Author(s):

Robert H. Findlay ◽

Christine Yeates ◽

Meredith A. J. Hullar ◽

David A. Stahl ◽

Louis A. Kaplan

Keyword(s):

Community Structure ◽

Microbial Community ◽

Microbial Biomass ◽

Bacterial Community ◽

Microbial Community Structure ◽

Bacterial Community Structure ◽

Phospholipid Fatty Acid ◽

Principal Component ◽

Community Structures ◽

Microbial Community Structures

ABSTRACT A field study was conducted to determine the microbial community structures of streambed sediments across diverse geographic and climatic areas. Sediment samples were collected from three adjacent headwater forest streams within three biomes, eastern deciduous (Pennsylvania), southeastern coniferous (New Jersey), and tropical evergreen (Guanacaste, Costa Rica), to assess whether there is biome control of stream microbial community structure. Bacterial abundance, microbial biomass, and bacterial and microbial community structures were determined using classical, biochemical, and molecular methods. Microbial biomass, determined using phospholipid phosphate, was significantly greater in the southeastern coniferous biome, likely due to the smaller grain size, higher organic content, and lower levels of physical disturbance of these sediments. Microbial community structure was determined using phospholipid fatty acid (PLFA) profiles and bacterial community structure from terminal restriction fragment length polymorphism and edited (microeukaryotic PLFAs removed) PLFA profiles. Principal component analysis (PCA) was used to investigate patterns in total microbial community structure. The first principal component separated streams based on the importance of phototrophic microeukaryotes within the community, while the second separated southeastern coniferous streams from all others based on increased abundance of fungal PLFAs. PCA also indicated that within- and among-stream variations were small for tropical evergreen streams and large for southeastern coniferous streams. A similar analysis of bacterial community structure indicated that streams within biomes had similar community structures, while each biome possessed a unique streambed community, indicating strong within-biome control of stream bacterial community structure.

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High-throughput amplicon sequencing reveals the spatiotemporal effects, abiotic and biotic shaping factors for the microbial communities in tropical mangrove sediments in Sanya, China

10.21203/rs.3.rs-34433/v1 ◽

2020 ◽

Author(s):

Wu Qu ◽

Boliang Gao ◽

Jie Wu ◽

Min Jin ◽

Jianxin Wang ◽

...

Keyword(s):

Community Structure ◽

Microbial Community ◽

Microbial Communities ◽

Fungal Community ◽

Amplicon Sequencing ◽

Biotic Factors ◽

Community Structures ◽

Mangrove Sediments ◽

Element Cycling ◽

Microbial Community Structures

Abstract Background Microbial roles in element cycling and nutrient providing are crucial for mangrove ecosystems and serve as important regulators for climate change in Earth ecosystem. However, some key information about the spatiotemporal influences and abiotic and biotic shaping factors for the microbial communities in mangrove sediments remains lacking. Methods In this work, 22 sediment samples were collected from multiple spatiotemporal dimensions, including three locations, two depths, and four seasons, and the bacterial, archaeal, and fungal community structures in these samples were studied using amplicon sequencing. Results The microbial community structures were varied in the samples from different depths and locations based on the results of LDA effect size analysis, principal coordinate analysis, the analysis of similarities, and permutational multivariate ANOVA. However, these microbial community structures were stable among the seasonal samples. Linear fitting models and Mantel test showed that among the 13 environmental factors measured in this study, the sediment particle size (PS) was the key abiotic shaping factor for the bacterial, archaeal, or fungal community structure. Besides PS, salinity and humidity were also significant impact factors according to the canonical correlation analysis (p ≤ 0.05). Co-occurrence networks demonstrated that the bacteria assigned into phyla Ignavibacteriae, Proteobacteria, Bacteroidetes, Chloroflexi, and Acidobacteria were the key biotic factors for shaping the bacterial community in mangrove sediments. Conclusions This work showed the variability on spatial dimensions and the stability on temporal dimension for the bacterial, archaeal, or fungal microbial community structure, indicating that the tropical mangrove sediments are versatile but stable environments. PS served as the key abiotic factor could indirectly participate in material circulation in mangroves by influencing microbial community structures, along with salinity and humidity. The bacteria as key biotic factors were found with the abilities of photosynthesis, polysaccharide degradation, or nitrogen fixation, which were potential indicators for monitoring mangrove health, as well as crucial participants in the storage of mangrove blue carbons and mitigation of climate warming. This study expanded the knowledge of mangroves for the spatiotemporal variation, distribution, and regulation of the microbial community structures, thus further elucidating the microbial roles in mangrove management and climate regulation.

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Formation and succession of microbial community structure in different ecological niches under reclaimed water acclimation

10.5194/egusphere-egu2020-12613 ◽

2020 ◽

Author(s):

Jie Li ◽

Yujiao Sun ◽

Xiaoyu Wang ◽

Meng Yin ◽

Shangwei Xu

Keyword(s):

Community Structure ◽

Microbial Community ◽

Water Resources ◽

Natural Water ◽

Reclaimed Water ◽

Ecological Niches ◽

Community Structures ◽

Significant Difference ◽

Microbial Community Structures ◽

The Difference

<p>Using reclaimed water as a resource for landscape water replenishment may alleviate the major problems of water resource shortages and water environment pollution. However, the safety of the water and the risk of eutrophication remain doubted by the public. Our study aimed to reveal the difference between natural water and reclaimed water and to discuss the rationality of reclaimed water replenishment from the perspective of microorganisms. We analyzed the microbial community structures in natural water, reclaimed water and natural biofilms and the community succession was clarified along the ecological niches, water resources, liquidity and time using 16S rRNA gene amplicon sequencing. Primary biofilms without the original community were added to study the formation of microbial community structures under reclaimed water acclimation. The results showed that the difference caused by ecological niches was more than those caused by the liquidity of water and different water resources. No significant difference was found in the microbial diversity and community structure caused by the addition of reclaimed water. Based on the microbial analysis, reclaimed water replenishment is a feasible solution that can be used for supplying river water. Innovatively, we introduced the study of biofilms and determined that the monitoring of biofilms or sediments closely related to water was also important for the early warning of water bloom, providing a unique perspective for the management of eutrophication.</p>

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Changes in Soil Microbial Community Structure Following Different Tree Species Functional Traits Afforestation

Forests ◽

10.3390/f12081018 ◽

2021 ◽

Vol 12 (8) ◽

pp. 1018

Author(s):

Yang Gao ◽

Xiuwei Wang ◽

Zijun Mao ◽

Liu Yang ◽

Zhiyan Jiang ◽

...

Keyword(s):

Community Structure ◽

Microbial Community ◽

Functional Traits ◽

Microbial Community Structure ◽

Tree Species ◽

Soil Microbial Community ◽

Soil Microbial Community Structure ◽

Carbon And Nitrogen ◽

Soil Microbial ◽

Microbial Community Structures

The soil microbial community structure is critical to the cycling of carbon and nitrogen in forest soils. As afforestation practices increasingly promote different functional traits of tree species, it has become critical to understand how they influence soil microbial community structures, which directly influence soil biogeochemical processes. We used fungi ITS and bacteria 16S rDNA to investigate soil microbial community structures in three monoculture plantations consisting of a non-native evergreen conifer (Pinus sibirica), a native deciduous conifer (Larix gmelinii), and a native deciduous angiosperm (Betula platyphylla) and compared them with two 1:1 mixed-species plantations (P. sibirica and L. gmelinii, P. sibirica and B. platyphylla). The fungal community structure of the conifer–angiosperm mixed plantation was similar to that of the non-native evergreen conifer, and the bacterial community structure was similar to that of the angiosperm monoculture plantation. Fungal communities were strongly related to tree species, but bacterial communities were strongly related to soil nitrogen. The co-occurrence networks were more robust in the mixed plantations, and the microbial structures associated with soil carbon and nitrogen were significantly increased. Our results provide a comparative study of the soil microbial ecology in response to afforestation of species with different functional traits and enhance the understanding of factors controlling the soil microbial community structure.

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Metagenomic Analysis of Microbial Community Structure And Function In A Improved Biofilter With Odorous Gases

10.21203/rs.3.rs-229916/v2 ◽

2021 ◽

Author(s):

Jianguo Ni ◽

Huayun Yang ◽

Liqing Chen ◽

Jiadong Xu ◽

Liangwei Zheng ◽

...

Keyword(s):

Community Structure ◽

Microbial Community ◽

Microbial Community Structure ◽

Metabolic Pathway ◽

Structure And Function ◽

Metagenomic Analysis ◽

Industrial Emissions ◽

Industrial Enterprises ◽

Before And After ◽

And Function

Abstract Biofilters have been broadly applied to degrade the odorous gases from industrial emissions. A industrial scale biofilter was set up to treat the odorous gases. To explore biofilter potentials, the microbial community structure and function must be well defined. Using of improved biofilter, the differences in microbial community structures and functions in biofilters before and after treatment were investigated by metagenomic analysis. Odorous gases have the potential to alter the microbial community structure in the sludge of biofilter. A total of 90,016 genes assigned into various functional metabolic pathways were identified. In the improved biofilter, the dominant phyla were Proteobacteria, Planctomycetes, and Chloroflexi, and the dominant genera were Thioalkalivibrio, Thauera, and Pseudomonas. Several xenobiotic biodegradation-related pathways showed significant changes during the treatment process. Compared with the original biofilter, Thermotogae and Crenarchaeota phyla were significantly enriched in the improved biofilter, suggesting their important role in nitrogen-fixing. Furthermore, several nitrogen metabolic pathway-related genes, such as nirA and nifA, and sulfur metabolic pathway-related genes, such as fccB and phsA, were considered to be efficient genes that were involved in removing odorous gases. Our findings can be used for improving the efficiency of biofilter and helping the industrial enterprises to reduce the emission of waste gases.

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Effect of Clinoptilolite and Halloysite Addition on Biogas Production and Microbial Community Structure during Anaerobic Digestion

Materials ◽

10.3390/ma13184127 ◽

2020 ◽

Vol 13 (18) ◽

pp. 4127

Author(s):

Martyna Ciezkowska ◽

Tomasz Bajda ◽

Przemyslaw Decewicz ◽

Lukasz Dziewit ◽

Lukasz Drewniak

Keyword(s):

Community Structure ◽

Microbial Community ◽

Anaerobic Digestion ◽

Sewage Sludge ◽

Microbial Community Structure ◽

Biogas Production ◽

Oxygen Demand ◽

Maize Silage ◽

Gas Treatment ◽

Significant Difference

The study presents a comparison of the influence of a clinoptilolite-rich rock—zeolite (commonly used for improving anaerobic digestion processes)—and a highly porous clay mineral, halloysite (mainly used for gas purification), on the biogas production process. Batch experiments showed that the addition of each mineral increased the efficiency of mesophilic anaerobic digestion of both sewage sludge and maize silage. However, halloysite generated 15% higher biogas production during maize silage transformation. Halloysite also contributed to a much higher reduction of chemical oxygen demand for both substrates (by ~8% for maize silage and ~14% for sewage sludge) and a higher reduction of volatile solids and total ammonia for maize silage (by ~8% and ~4%, respectively). Metagenomic analysis of the microbial community structure showed that the addition of both mineral sorbents influenced the presence of key members of archaea and bacteria occurring in a well-operated biogas reactor. The significant difference between zeolite and halloysite is that the latter promoted the immobilization of key methanogenic archaea Methanolinea (belong to Methanomicrobia class). Based on this result, we postulate that halloysite could be useful not only as a sorbent for (bio)gas treatment methodologies but also as an agent for improving biogas production.

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Metagenomic analysis of microbial community structure and function in a improved biofilter with odorous gases

10.21203/rs.3.rs-229916/v1 ◽

2021 ◽

Author(s):

Jianguo Ni ◽

Liqing Chen ◽

Jiadong Xu ◽

Liangwei Zheng ◽

Guojian Xie ◽

...

Keyword(s):

Community Structure ◽

Microbial Community ◽

Microbial Community Structure ◽

Metabolic Pathway ◽

Structure And Function ◽

Metagenomic Analysis ◽

Industrial Emissions ◽

Waste Gas ◽

Industrial Enterprises ◽

And Function

Abstract BackgroundBiofilters have been broadly applied to degrade the odorous gases from industrial emissions. To explore biofilter potentials, the microbial community structure and function must be well defined. Using of improved biofilter, changes in microbial community structures and functions were investigated by metagenomic analysis. ResultsOdorous gases have the potential to alter the microbial community structure in the sludge of biofilter. A total of 90,016 unigenes assigned into various functional metabolic pathways were identified. In the improved biofilter, the dominant phyla were Proteobacteria, Planctomycetes, and Chloroflexi, and the dominant were Thioalkalivibrio, Thauera, and Pseudomonas. Several xenobiotic biodegradation-related pathways showed significant changes during the treatment process. Compared with the original biofilter, Thermotogae and Crenarchaeota phyla were significantly up-regulated in the improved biofilter, suggesting its important role in nitrogen-fixing. Furthermore, nitrogen metabolic pathway-related genes, such as nirA and nifA, and sulfur metabolic pathway-related genes, such as fccB and phsA, were considered to be efficient genes involved in removing odorous gases. ConclusionsOur findings can be used for improving the efficiency of biofilter and helping the industrial enterprises to reduce the emission of waste gas.

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