Microbial Community Structure Drives Predatory Myxobacteria Distribution Under Different Compost Manures

Dai, Wei; Wang, Ning; Wang, Wenhui; Ye, Xianfeng; Cui, Zhongli; Wang, Jieling; Yao, Dandan; Hui, Wang

doi:10.21203/rs.3.rs-524148/v1

Cited by 6 publications

(3 citation statements)

References 43 publications

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“…Myxococcales are highly abundant in Arctic soils (Malard and Pearce, 2018), and have been observed at this study site before (Scheel et al, 2022). Bacterial predators and particularly Myxococcales may play key roles in microbial food webs, as recently demonstrated (Dai et al, 2021; Petters et al, 2021). Within the active layer, seasonal prokaryotic blooms support higher prey and predator abundance and we hypothesize that the formation of spore-containing fruiting bodies in Myxococcales (Huntley et al, 2011) offers resistance to the winter freeze-off.…”

Section: Discussionmentioning

confidence: 77%

Abrupt permafrost thaw triggers microbial bloom and grazer succession

Scheel

Zervas

Tveit

et al. 2022

Preprint

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Permafrost soils store a substantial part of the global soil carbon, but due to global warming, abrupt erosion and consecutive thaw make these carbon stocks vulnerable to microbial decomposition into greenhouse gases. Although in temperate systems trophic interactions promote soil carbon storage, their role in Arctic permafrost microbiomes, especially during thaw, remains largely unknown. Here, we investigated the microbial response to in situ thawing and rapid permafrost erosion. We sequenced the total RNA of a 1 m deep soil core from an active abrupt erosion site to analyse the microbial community in the active layer soil, recently thawed and intact permafrost, consisting of up to 26 500-year-old material. We found maximum RNA:DNA ratios in recently thawed permafrost, indicating upregulation of protein biosynthesis upon thaw. At the same depths, the relative abundance of several prokaryotic orders, including Sphingobacteriales, Burkholderiales, and Nitrosomonadales increased in relative abundance. Bacterial predators were mainly dominated by Myxococcales. Protozoa were overall less abundant but doubled in relative abundance between the active layer and recently thawed permafrost. Cercozoa, Amoebozoa, and Ciliophora were the most abundant protozoan predators, replacing myxobacteria at deeper thaw depths. Overall, connections between the active layer and especially upper thawed layers were visible and suggest migration, while no layer formed a distinct community. Our findings highlight the importance of predation and population dynamics as well as the rapid development of a microbial bloom in abruptly thawing permafrost.

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Section: Discussionmentioning

confidence: 77%

Abrupt permafrost thaw triggers microbial bloom and grazer succession

Scheel

Zervas

Tveit

et al. 2022

Preprint

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“…Because of their lytic capacity, Myxobacteria are considered as an important micropredators playing a key role in structuring and regulating soil microbial communities (Shimkets et al, 2006;Phillips et al, 2022). The presence of this taxon was strongly influenced by bacterial communities and was previously reported to be significantly positively correlated to alpha diversity indices of Chao1 and Observed OTU (Dai et al, 2021) and of ACE, Shannon and Simpson (Wang et al, 2020). Thus, in our study the higher alpha diversity indices (observed ASV, Chao1 and Shannon) may have promoted the occurrence of the Myxobacteria in farms P and F by given them a broader choice of potential prey microorganisms.…”

Section: Discussionmentioning

confidence: 97%

Suaeda australis and its associated rhizosphere microbiota: a comparison of the nutrient removal potential between different shrimp farm sediments in New Caledonia

Colette,

Guentas,

Della Patrona

et al. 2023

Front. Microbiol.

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Shrimp rearing generate organic waste that is trapped in the pond sediment. In excess, these wastes may impair aquaculture ecosystem and shrimps’ health. To promote the biological oxidation of accumulated organic waste, the pond is drained and dried at the end of each production cycle. However, this practice is not always conducive to maintaining microbial decomposition activities in sediments. Shrimp production in New Caledonia is no exception to this problem of pollution of pond bottoms. One promising way of treating this waste would be bioremediation, using a native halophyte plant and its microbiota. Thus, this study explored the nutrient removal potential of Suaeda australis and its microbiota on sediments from four shrimp farms. Suaeda australis was grown in an experimental greenhouse for 6 months. In order to mimic the drying out of the sediments, pots containing only sediments were left to dry in the open air without halophytes. An analysis of the chemical composition and active microbiota was carried out initially and after 6 months in the sediments of the halophyte cultures and in the dry sediments for each farm, respectively. In the initial state, the chemical parameters and the microbial diversity of the sediment varied considerably from one farm to another. Growing Suaeda australis reduced the nitrogen, phosphorus and sulfur content in all type of sediment. However, this reduction varied significantly from one sediment to another. The rhizosphere of Suaeda australis is mainly composed of micro-organisms belonging to the Alphaproteobacteria class. However, the families recruited from this class vary depending on the farm in question. Depending on the sediment, the variation in microbiota leads to different putative biochemical functions. For two of the farms, a similar reduction in nitrogen concentration was observed in both dry and cultivated sediments. This suggests that certain initial chemical characteristics of the sediments influence the nutrient removal efficiency of Suaeda australis. Our study therefore highlights the need to control the pH of sediments before cultivation or in dry sediments in order to ensure optimal microbial decomposition of organic waste and nutrient cycling.

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“…These same members of Bacteroidetes and Alphaproteobacteria responded positively to the application of calcium silicate (wollastonite) to forest soils in New Hampshire, which had a slight opposite effect on soil pH compared to liming (Sridevi et al, 2012). Liming produced an increase in the same groups of surface‐colonizing bacteria in agricultural soils (Xun et al, 2016) and sewage (Wan et al, 2015), while manure with higher calcium content also heavily favoured Haliangiaceae (Dai et al, 2021). In addition to directly promoting bacterial growth and adherence, soil calcium can promote the sorption of organic matter to mineral surfaces via cation bridging (Römkens et al, 1996; Rowley et al, 2018) which may increase resource availability for surface‐colonizing bacteria.…”

Section: Discussionmentioning

confidence: 99%

Watershed‐scale liming reveals the short‐ and long‐term effects ofpHon the forest soil microbiome and carbon cycling

Sridhar

Lawrence

Debenport

et al. 2022

Environmental Microbiology

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Soil microbial community composition routinely correlates with pH, reflecting both direct pH effects on microbial physiology and long-term biogeochemical feedbacks. We used two watershed-scale liming experiments to identify short-(2 years) and long-term (25 years) changes in the structure and function of bacterial and fungal communities in organic horizons (O e and O a ) of acid forest soils. Liming increased soil pH, extractable calcium, and soil carbon stocks, reduced biomass-specific respiration, and caused major changes in the soil microbiome in the short and long term. More taxa responded to liming in the short term (70%) than in the long term (30%), with most showing consistent directional responses at both sites. The ratio of change in relative abundance between limed and reference sites was twofold higher at the long than the short-term site, indicating that the effects of liming grew over time. Liming impacts were most pronounced in fungi, as steep declines of dominant ectomycorrhizal fungi (Cenococcum and Russula) occurred at both sites. Liming favoured neutrophilic bacteria over acidophilic populations according to estimated environmental pH optima. Collectively, these results demonstrate that a liming-induced change of one pH unit has an immediate and persistent effect on the structure and function of microbial communities in acid forest soils. The corresponding suppression of respiration indicates that anthropogenic alterations of soil pH, as driven by acid deposition or liming, can affect forest floor C stocks due to pH-driven shifts in community structure.

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Microbial Community Structure Drives Predatory Myxobacteria Distribution Under Different Compost Manures

Cited by 6 publications

References 43 publications

Abrupt permafrost thaw triggers microbial bloom and grazer succession

Abrupt permafrost thaw triggers microbial bloom and grazer succession

Suaeda australis and its associated rhizosphere microbiota: a comparison of the nutrient removal potential between different shrimp farm sediments in New Caledonia

Watershed‐scale liming reveals the short‐ and long‐term effects ofpHon the forest soil microbiome and carbon cycling

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