scholarly journals Stronger effect of maize rhizosphere than phosphorus fertilization on soil phosphatase activity and associated bacterial communities in acidic soil: distinct influences on phoC- and phoD-harboring bacteria

2021 ◽  
Author(s):  
Long Guo ◽  
Chao Wang ◽  
Ren Fang Shen
Keyword(s):  
Bacterial Communities ◽  
Acidic Soil ◽  
Rhizosphere Effect ◽  
P Fertilization ◽  
Acidic Soils ◽  
Phosphatase Activities ◽  
Maize Rhizosphere ◽  
Gene Abundance ◽  
Α Diversity ◽  
Soil Phosphatase

Abstract Aims The bacteria phoC and phoD genes encode acid and alkaline phosphatase (ACP and ALP), respectively, which mineralize organic phosphorus (P) to inorganic P. The relative importance of P fertilization and the plant rhizosphere on soil phosphatase activities and associated bacterial communities in acidic soils are poorly understood; whether phoC- and phoD-harboring bacterial communities display different responses remains undetermined. Methods Maize was grown in acidic soil supplemented with 0 (P0), 20 (P20), and 200 (P200) mg P2O5 kg− 1 for 42 days. Maize biomasses, plant nutrients, soil properties, phosphatase activities, and associated bacterial abundance and community composition were determined. Results Relative to bulk soils, rhizosphere showed increased ACP and ALP activities, phoC and phoD gene abundance, but these effects were reduced in strength with P200 treatment, except for phoC gene abundance. The rhizosphere effect increased α-diversity of phoC-harboring bacteria under P fertilization but reduced α-diversity of phoD-harboring bacteria under P0 and P20 treatments. The rhizosphere significantly influenced both phoC- and phoD-harboring bacterial community compositions, with stronger effect on phoD-harboring bacteria; while P fertilization affected phoD-harboring bacteria but not phoC-harboring bacteria. Immigrated and extinct species play important roles in reshaping phoC- and phoD-harboring bacterial communities, respectively, in response to the rhizosphere effect. Conclusions Compared with P fertilization, the maize rhizosphere more strongly influenced soil phosphatase activities and phoC- and phoD-harboring bacterial communities in acidic soils, with phoD-harboring bacteria responding more strongly to the rhizosphere effect and P fertilization. Notably, the strength of the rhizosphere effect heavily relied on P fertilization level.

scholarly journals Spatio-Temporal Variation of the Bacterial Communities along a Salinity Gradient within a Thalassohaline Environment (Saline di Tarquinia Salterns, Italy)

Molecules ◽  
2021 ◽  
Vol 26 (5) ◽  
pp. 1338
Author(s):  
Susanna Gorrasi ◽  
Andrea Franzetti ◽  
Roberto Ambrosini ◽  
Francesca Pittino ◽  
Marcella Pasqualetti ◽  
...  
Keyword(s):  
Bacterial Diversity ◽  
Generalized Linear Models ◽  
Bacterial Communities ◽  
Linear Models ◽  
Salinity Gradient ◽  
Sampling Site ◽  
Α Diversity ◽  
Spatio Temporal ◽  
Abundance Variation ◽  
Microbiological Aspects

The “Saline di Tarquinia” salterns have been scarcely investigated regarding their microbiological aspects. This work studied the structure and composition of their bacterial communities along the salinity gradient (from the nearby sea through different ponds). The communities showed increasing simplification of pond bacterial diversity along the gradient (particularly if compared to those of the sea). Among the 38 assigned phyla, the most represented were Proteobacteria, Actinobacteria and Bacteroidetes. Differently to other marine salterns, where at the highest salinities Bacteroidetes dominated, preponderance of Proteobacteria was observed. At the genus level the most abundant taxa were Pontimonas, Marivita, Spiribacter, Bordetella, GpVII and Lentibacter. The α-diversity analysis showed that the communities were highly uneven, and the Canonical Correspondence Analysis indicated that they were structured by various factors (sampling site, sampling year, salinity, and sampling month). Moreover, the taxa abundance variation in relation to these significant parameters were investigated by Generalized Linear Models. This work represents the first investigation of a marine saltern, carried out by a metabarcoding approach, which permitted a broad vision of the bacterial diversity, covering both a wide temporal span (two years with monthly sampling) and the entire salinity gradient (from the nearby sea up to the crystallisation ponds).

scholarly journals Exploration of Intrinsic Microbial Community Modulators in the Rice Endosphere Indicates a Key Role of Distinct Bacterial Taxa Across Different Cultivars

2021 ◽  
Vol 12 ◽  
Author(s):  
Pei Wang ◽  
Xiao Kong ◽  
Hongsong Chen ◽  
Youlun Xiao ◽  
Huijun Liu ◽  
...  
Keyword(s):  
Bacterial Communities ◽  
Rice Cultivars ◽  
Rice Varieties ◽  
Microbial Network ◽  
Β Diversity ◽  
Group I ◽  
Α Diversity ◽  
Microbe Interactions ◽  
Endophytic Bacterial Community ◽  
Group Ii

Microbial communities associated with the plant phyllosphere and endosphere can have both beneficial as well as detrimental effects on their hosts. There is an ongoing debate to which extend the phyllosphere and endosphere microbiome assembly is controlled by the host plant how pronounced cultivar effects are. We investigated the bacterial and fungal communities from the phyllosphere and endosphere of 10 different rice cultivars grown under identical environmental conditions in the frame of a targeted approach to identify drivers of community assembly. The results indicated that the endophytic bacterial communities were clearly separated into two groups. The α-diversity and microbial network complexity within Group I were significantly lower than in Group II. Moreover, the genera Nocardioides, Microvirga, and Gaiella were significantly more abundant in Group II and only present in the interaction networks of this group. These three genera were significantly correlated with α- and β-diversity of the endophytic bacterial community and thus identified as major drivers of the endosphere community. We have identified keystone taxa that shape endophytic bacterial communities of different rice cultivars. Our overall findings provide new insights into plant-microbe interactions, and may contribute to targeted improvements of rice varieties in the future.

Long-term fertilization changes bacterial diversity and bacterial communities in the maize rhizosphere of Chinese Mollisols

2018 ◽  
Vol 125 ◽  
pp. 88-96 ◽  
Author(s):  
Qingfeng Wang ◽  
Xin Jiang ◽  
Dawei Guan ◽  
Dan Wei ◽  
Baisuo Zhao ◽  
...  
Keyword(s):  
Bacterial Diversity ◽  
Bacterial Communities ◽  
Maize Rhizosphere

scholarly journals Response of the Bacterial Communities Associated With Maize Rhizosphere to Poultry Litter as an Organomineral Fertilizer

2018 ◽  
Vol 6 ◽  
Author(s):  
Renata Estebanez Vollú ◽  
Simone Raposo Cotta ◽  
Diogo Jurelevicius ◽  
Deborah Catharine de Assis Leite ◽  
Cláudio Ernesto Taveira Parente ◽  
...  
Keyword(s):  
Bacterial Communities ◽  
Poultry Litter ◽  
Maize Rhizosphere

Biochar mitigates the N2O emissions from acidic soil by increasing the nosZ and nirK gene abundance and soil pH

2020 ◽  
Vol 255 ◽  
pp. 109891 ◽  
Author(s):  
Muhammad Aamer ◽  
Muhammad Shaaban ◽  
Muhammad Umair Hassan ◽  
Huang Guoqin ◽  
Liu Ying ◽  
...  
Keyword(s):  
Soil Ph ◽  
Acidic Soil ◽  
N2o Emissions ◽  
Gene Abundance ◽  
Nirk Gene

scholarly journals Bacterial Community Shift and Coexisting/Coexcluding Patterns Revealed by Network Analysis in a Uranium-Contaminated Site after Bioreduction Followed by Reoxidation

2018 ◽  
Vol 84 (9) ◽  
Author(s):  
Bing Li ◽  
Wei-Min Wu ◽  
David B. Watson ◽  
Erick Cardenas ◽  
Yuanqing Chao ◽  
...  
Keyword(s):  
Network Analysis ◽  
High Throughput ◽  
Bacterial Communities ◽  
High Throughput Sequencing ◽  
Ecological Niches ◽  
Content Type ◽  
Oak Ridge ◽  
Α Diversity ◽  
Before And After

ABSTRACTA site in Oak Ridge, TN, USA, has sediments that contain >3% iron oxides and is contaminated with uranium (U). The U(VI) was bioreduced to U(IV) and immobilizedin situthrough intermittent injections of ethanol. It then was allowed to reoxidize via the invasion of low-pH (3.6 to 4.0), high-nitrate (up to 200 mM) groundwater back into the reduced zone for 1,383 days. To examine the biogeochemical response, high-throughput sequencing and network analysis were applied to characterize bacterial population shifts, as well as cooccurrence and coexclusion patterns among microbial communities. A pairedttest indicated no significant changes of α-diversity for the bioactive wells. However, both nonmetric multidimensional scaling and analysis of similarity confirmed a significant distinction in the overall composition of the bacterial communities between the bioreduced and the reoxidized sediments. The top 20 major genera accounted for >70% of the cumulative contribution to the dissimilarity in the bacterial communities before and after the groundwater invasion.Castellaniellahad the largest dissimilarity contribution (17.7%). For the bioactive wells, the abundance of the U(VI)-reducing generaGeothrix,Desulfovibrio,Ferribacterium, andGeobacterdecreased significantly, whereas the denitrifyingAcidovoraxabundance increased significantly after groundwater invasion. Additionally, seven genera, i.e.,Castellaniella,Ignavibacterium,Simplicispira,Rhizomicrobium,AcidobacteriaGp1,AcidobacteriaGp14, andAcidobacteriaGp23, were significant indicators of bioactive wells in the reoxidation stage. Canonical correspondence analysis indicated that nitrate, manganese, and pH affected mostly the U(VI)-reducing genera and indicator genera. Cooccurrence patterns among microbial taxa suggested the presence of taxa sharing similar ecological niches or mutualism/commensalism/synergism interactions.IMPORTANCEHigh-throughput sequencing technology in combination with a network analysis approach were used to investigate the stabilization of uranium and the corresponding dynamics of bacterial communities under field conditions with regard to the heterogeneity and complexity of the subsurface over the long term. The study also examined diversity and microbial community composition shift, the common genera, and indicator genera before and after long-term contaminated-groundwater invasion and the relationship between the target functional community structure and environmental factors. Additionally, deciphering cooccurrence and coexclusion patterns among microbial taxa and environmental parameters could help predict potential biotic interactions (cooperation/competition), shared physiologies, or habitat affinities, thus, improving our understanding of ecological niches occupied by certain specific species. These findings offer new insights into compositions of and associations among bacterial communities and serve as a foundation for future bioreduction implementation and monitoring efforts applied to uranium-contaminated sites.

scholarly journals Contrasting patterns of bacterial communities in the rearing water and gut of Penaeus vannamei in response to exogenous glucose addition

2022 ◽  
Author(s):  
Lei Huang ◽  
Haipeng Guo ◽  
Zidan Liu ◽  
Chen Chen ◽  
Kai Wang ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Bacterial Communities ◽  
Carbon Sources ◽  
Operational Taxonomic Unit ◽  
Diversity Indices ◽  
Response Patterns ◽  
Interspecies Interactions ◽  
Glucose Addition ◽  
Growth And Survival ◽  
Α Diversity

AbstractSupplementing exogenous carbon sources is a practical approach to improving shrimp health by manipulating the microbial communities of aquaculture systems. However, little is known about the microbiological processes and mechanisms of these systems. Here, the effects of glucose addition on shrimp growth performance and bacterial communities of the rearing water and the shrimp gut were investigated to address this knowledge gap. The results showed that glucose addition significantly improved the growth and survival of shrimp. Although the α-diversity indices of both bacterioplankton communities and gut microbiota were significantly decreased by adding glucose, both bacterial communities exhibited divergent response patterns to glucose addition. Glucose addition induced a dispersive bacterioplankton community but a more stable gut bacterial community. Bacterial taxa belonging to Ruegeria were significantly enriched by glucose in the guts, especially the operational taxonomic unit 2575 (OTU2575), which showed the highest relative importance to the survival rate and individual weight of shrimp, with the values of 43.8 and 40.6%, respectively. In addition, glucose addition increased the complexity of interspecies interactions within gut bacterial communities and the network nodes from Rhodobacteraceae accounted for higher proportions and linked more with the nodes from other taxa in the glucose addition group than that in control. These findings suggest that glucose addition may provide a more stable gut microbiota for shrimp by increasing the abundance of certain bacterial taxa, such as Ruegeria.

scholarly journals Dynamic Changes in Fecal Bacterial Microbiota of Dairy Cattle across the Production Line

2020 ◽  
Author(s):  
Lei Zhao ◽  
Xunde Li ◽  
Edward R. Atwill ◽  
Sharif Aly ◽  
Deniece R. Williams ◽  
...  
Keyword(s):  
Food Safety ◽  
Dairy Cattle ◽  
Microbial Communities ◽  
Bacterial Communities ◽  
Animal Health ◽  
Management Unit ◽  
Production Performance ◽  
The Other ◽  
Management Units ◽  
Α Diversity

ABSTRACTBacteria play important roles in the gastrointestinal tract (GIT) of dairy cattle as the communities are responsible for host health, growth and production performance. However, a systematic characterization and comparison of microbial communities in the GIT of cattle housed in different management units on a modern dairy are still lacking. In this study, we used 16S rRNA sequencing to evaluate the fecal bacterial communities of 90 dairy cattle raised and housed in 12 clearly defined management units on a modern dairy farm. We found that α-diversity differed between several pairs of management units, especially between the hutch calves (management unit 1) and the other units except post weaned heifers (management unit 2). Although β-diversity revealed that most of the samples did not cluster according to their management unit membership except management unit 1, in which the samples grouped and separated from others, we observed three major clusters. Besides the hutch calves (management unit 1), most samples from the other 11 units formed two distinct clusters and the relative abundance of Patescibacteria might be the reason for the separation. Moreover, we identified 212 amplicon sequence variants (ASVs) with relative abundances > 0.1% in more than 10% of the total samples that had significantly different abundances in these units. Furthermore, we found that, as the calves aged, 19 ASVs that were exclusively detected in unit 1, gradually degraded and never reoccurred in other management units. Lastly, we recognized 181 pairs of interactions between 61 ASVs with possibly strong synergistic or antagonistic relationships. These results suggest the enteric microbial communities of dairy cattle housed in different management units are quite dynamic.IMPORTANCEBacterial communities of GIT are crucial for ruminants, such as dairy cattle since they contribute to not only the cattle’s physiology and health but also milk production and food safety that are closely related to human health. Both scientifically and agriculturally, it is necessary to have deep insights into the composition and changes of the bacteria on modern dairy farms. In this study, we provided the profiles of fecal bacterial communities of dairy cattle in each management unit on a modern dairy and described how the enteric microbial communities changed across these management units. The findings have implications for improving animal health, dairy production, farm management, and food safety.

scholarly journals Bacterial community characteristics and enzyme activities in Imperata cylindrica litter as phytoremediation progresses in a copper tailings dam

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e9612
Author(s):  
Tong Jia ◽  
Tingyan Guo ◽  
Baofeng Chai
Keyword(s):  
Bacterial Community ◽  
Bacterial Communities ◽  
Bacterial Community Composition ◽  
Chemical Properties ◽  
Alpha Diversity ◽  
Imperata Cylindrica ◽  
Copper Tailings ◽  
Α Diversity ◽  
Degraded Ecosystems ◽  
And Function

This study analyzed Imperata cylindrica litter to determine variation in bacterial community composition and function along with enzyme activity as phytoremediation progresses. We found significant differences in physical and chemical properties of soil and litter in the different sub-dams investigated. The Actinobacteria, Gammaproteobacteria and Alphaproteobacteria were the dominant bacteria found in the litter of the different sub-dams. The alpha diversity (α-diversity) of litter bacterial community increased over as phytoremediation progressed, while total soil carbon and total litter carbon content were positively correlated to bacterial α-diversity. Total litter carbon and total nitrogen were the key factors that influenced bacterial community structure. Heavy metal can influence the degradation of litters by altering the composition of the microbial community. Furthermore, bacterial communities encoded with alpha-amylase (α-amylase) dominated during the initial phytoremediation stage; however, bacterial communities encoded with hemicellulase and peroxidase gradually dominated as phytoremediation progressed. Findings from this study provide a basis for exploring litter decomposition mechanisms in degraded ecosystems, which is critically important to understand the circulation of substances in copper tailings dams.

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