scholarly journals Flavonoids Modulate Bacterial Endophyte Communities of Ginkgo Biloba Leaves

2021 ◽  
Author(s):  
Fangying Lei ◽  
Haonan Huang ◽  
Qin Yang ◽  
Shaodong Fu ◽  
Xue Guo ◽  
...  
Keyword(s):  
Stochastic Processes ◽  
Community Assembly ◽  
Bacterial Communities ◽  
Bacterial Community Structure ◽  
Progressive Increase ◽  
Ecological Functions ◽  
Flavonoid Synthesis ◽  
Mantel Tests ◽  
Endophytic Bacterial Community ◽  
Microbial Community Assembly

Abstract Plant-specialized secondary metabolites have ecological functions in mediating interactions between plants and their entophytes. Here, we aimed to reveal the interaction between flavonoid synthesis and endophytic bacterial communities in wild Ginkgo trees spanning 100-800 years. We found that flavonoids including quercetin, kaempferol and isorhamnetin decreased while the microbial diversity in leaves increased with the age of sampled trees. Older trees had more unique genera and shifted their endophytic bacterial community structure. Also, Mantel tests and correlation analysis indicated a generally significant (p < 0.05) negative correlation between endophytic bacterial communities and flavonoids. Additionally, both deterministic and stochastic processes could play roles in the assembly of endophytic bacterial communities in Ginkgo trees with a progressive increase in stochastic processes as flavonoid concentrations decreased. This study provides a mechanistic understanding of how flavonoids modulate the endophytic microbial community assembly.

scholarly journals Deterministic Selection Dominates Microbial Community Assembly in Termite Mounds Across a Large Spatial Area

2020 ◽  
Author(s):  
Qing-Lin Chen ◽  
Hang-Wei Hu ◽  
Zhen-Zhen Yan ◽  
Chao-Yu Li ◽  
Bao-Anh Thi Nguyen ◽  
...  
Keyword(s):  
Microbial Community ◽  
Stochastic Processes ◽  
Microbial Communities ◽  
Fungal Community ◽  
Community Assembly ◽  
Distance Decay ◽  
Termite Mounds ◽  
Deterministic Processes ◽  
Microbial Community Assembly

Abstract Background: Termites are ubiquitous insects in tropical and subtropical habitats, where they construct massive mounds from soil, their saliva and excreta. Termite mounds harbor an enormous amount of microbial inhabitants, which regulate multiple ecosystem functions such as mitigating methane emissions and increasing ecosystem resistance to climate change. However, we lack a mechanistic understanding about the role of termite mounds in modulating the microbial community assembly processes, which are essential to unravel the biological interactions of soil fauna and microorganisms, the major components of soil food webs. We conducted a large-scale survey across a >1500 km transect in northern Australia to investigate biogeographical patterns of bacterial and fungal community in 134 termite mounds and the relative importance of deterministic versus stochastic processes in microbial community assembly. Results: Microbial alpha (number of phylotypes) and beta (changes in bacterial and fungal community composition) significantly differed between termite mounds and surrounding soils. Microbial communities in termite mounds exhibited a significant distance-decay pattern, and fungal communities had a stronger distance-decay relationship (slope = -1.91) than bacteria (slope = -0.21). Based on the neutral community model (fitness < 0.7) and normalized stochasticity ratio index (NST) with a value below the 50% boundary point, deterministic selection, rather than stochastic forces, predominated the microbial community assembly in termite mounds. Deterministic processes exhibited significantly weaker impacts on bacteria (NST = 45.23%) than on fungi (NST = 33.72%), probably due to the wider habitat niche breadth and higher potential migration rate of bacteria. The abundance of antibiotic resistance genes (ARGs) was negatively correlated with bacterial/fungal biomass ratios, indicating that ARG content might be an important biotic factor that drove the biogeographic pattern of microbial communities in termite mounds. Conclusions: Deterministic processes play a more important role than stochastic processes in shaping the microbial community assembly in termite mounds, an unique habitat ubiquitously distributed in tropical and subtropical ecosystems. An improved understanding of the biogeographic patterns of microorganisms in termite mounds is crucial to decipher the role of soil faunal activities in shaping microbial community assembly, with implications for their mediated ecosystems functions and services.

scholarly journals Multiple ecological processes jointly drive the soil microbial community assembly in subalpine coniferous forests

2018 ◽  
Author(s):  
Pengyu Zhao ◽  
Jiabing Bao ◽  
Xue Wang ◽  
Yi Liu ◽  
Cui Li ◽  
...  
Keyword(s):  
Microbial Community ◽  
Stochastic Processes ◽  
Community Assembly ◽  
Soil Microbial Community ◽  
Analytical Methods ◽  
Community Dynamics ◽  
Coniferous Forests ◽  
Ecological Processes ◽  
Soil Microbial ◽  
Microbial Community Assembly

The mechanisms underlying community dynamics, which govern the complicated biogeographical patterns of microbes, have long been a research hotspot in community ecology. However, the mixing of multiple ecological processes and the one-sidedness of analytical methods make it difficult to draw inferences about the community assembly mechanisms. In this study, we investigated the driving forces of the soil microbial community in subalpine coniferous forests of the Loess Plateau in Shanxi, China, by integrating multiple analytical methods. The results of the null model demonstrated that deterministic processes (especially interspecific relationships) were the main driving force of the soil microbial community assembly in this study area, relative to stochastic processes. Based on the results of the net relatedness index (NRI) and nearest taxon index (NTI), we inferred that historical and evolutionary factors, such as climate change and local diversification, may have similar effects on microbial community structure based on the climatic niche conservatism. Based on the results of a functional traits analysis, we found that the effects of ongoing ecological processes on the microbial community assembly varied among sites. Therefore, the functional structures seemed to be more related to ongoing ecological processes, whereas the phylogenetic structures seemed to be more related to historical and evolutionary factors, as well as the tradeoff between deterministic and stochastic processes. The functional and phylogenetic structures were mainly shaped by different ecological processes. By integrating multiple ecological processes, our results provide more details of the mechanisms driving the community assembly

scholarly journals Are recently deglaciated areas at both poles colonised by the same bacteria?

2021 ◽  
Vol 368 (3) ◽  
Author(s):  
Álvaro del Moral ◽  
Isaac Garrido-Benavent ◽  
Jorge Durán ◽  
Jan R Lehmann ◽  
Alexandra Rodríguez ◽  
...  
Keyword(s):  
Community Assembly ◽  
Bacterial Communities ◽  
Bacterial Community Structure ◽  
Sequence Variant ◽  
Habitat Specialist ◽  
Dispersal Capacity ◽  
Glacier Forefield ◽  
Soil Bacterial Communities ◽  
Composition And Structure ◽  
The Impact

ABSTRACT Polar glacier forefields offer an unprecedented framework for studying community assembly processes in regions that are geographically and climatically isolated. Through amplicon sequence variant (ASV) inference, we compared the composition and structure of soil bacterial communities from glacier forefields in Iceland and Antarctica to assess overlap between communities and the impact of established cryptogamic covers on the uniqueness of their taxa. These pioneer microbial communities were found to share only 8% of ASVs and each taxonomic group's contribution to the shared ASV data subset was heterogeneous and independent of their relative abundance. Although the presence of ASVs specific to one glacier forefield and/or different cryptogam cover values confirms the existence of habitat specialist bacteria, our data show that the influence of cryptogams on the edaphic bacterial community structure also varied also depending on the taxonomic group. Hence, the establishment of distinct cryptogamic covers is probably not the only factor driving the uniqueness of bacterial communities at both poles. The structure of bacterial communities colonising deglaciated areas seems also conditioned by lineage-specific limitations in their dispersal capacity and/or their establishment and persistence in these isolated and hostile regions.

scholarly journals Linked networks reveal dual roles of insect dispersal and species sorting for bacterial communities in flowers

2019 ◽  
Author(s):  
Ash T. Zemenick ◽  
Rachel L. Vannette ◽  
Jay A. Rosenheim
Keyword(s):  
Plant Species ◽  
Community Assembly ◽  
Bacterial Communities ◽  
Structural Features ◽  
Relative Importance ◽  
Dispersal Rate ◽  
Dual Roles ◽  
Species Sorting ◽  
Insect Dispersal ◽  
Microbial Community Assembly

AbstractDue to the difficulty of tracking microbial dispersal, it rarely possible to disentangle the relative importance of dispersal and species sorting for microbial community assembly. Here, we leverage a detailed multilevel network to examine drivers of bacterial community assembly within flowers. We show that plant species with similar visitor communities tend to have similar bacterial communities, and visitor identity to be more important than dispersal rate in structuring floral bacterial communities. However, plants occupied divergent positions in plant-insect and plant-microbe networks, suggesting an important role for species sorting. Taken together, our analyses suggest dispersal is important in determining similarity in microbial communities across plant species, but not as important in determining structural features of the floral bacterial network. A multilevel network approach thus allows us to address features of community assembly that cannot be considered when viewing networks as separate entities.

scholarly journals Multiple ecological processes jointly drive the soil microbial community assembly in subalpine coniferous forests

2018 ◽  
Author(s):  
Pengyu Zhao ◽  
Jiabing Bao ◽  
Xue Wang ◽  
Yi Liu ◽  
Cui Li ◽  
...  
Keyword(s):  
Microbial Community ◽  
Stochastic Processes ◽  
Community Assembly ◽  
Soil Microbial Community ◽  
Analytical Methods ◽  
Community Dynamics ◽  
Coniferous Forests ◽  
Ecological Processes ◽  
Soil Microbial ◽  
Microbial Community Assembly

The mechanisms underlying community dynamics, which govern the complicated biogeographical patterns of microbes, have long been a research hotspot in community ecology. However, the mixing of multiple ecological processes and the one-sidedness of analytical methods make it difficult to draw inferences about the community assembly mechanisms. In this study, we investigated the driving forces of the soil microbial community in subalpine coniferous forests of the Loess Plateau in Shanxi, China, by integrating multiple analytical methods. The results of the null model demonstrated that deterministic processes (especially interspecific relationships) were the main driving force of the soil microbial community assembly in this study area, relative to stochastic processes. Based on the results of the net relatedness index (NRI) and nearest taxon index (NTI), we inferred that historical and evolutionary factors, such as climate change and local diversification, may have similar effects on microbial community structure based on the climatic niche conservatism. Based on the results of a functional traits analysis, we found that the effects of ongoing ecological processes on the microbial community assembly varied among sites. Therefore, the functional structures seemed to be more related to ongoing ecological processes, whereas the phylogenetic structures seemed to be more related to historical and evolutionary factors, as well as the tradeoff between deterministic and stochastic processes. The functional and phylogenetic structures were mainly shaped by different ecological processes. By integrating multiple ecological processes, our results provide more details of the mechanisms driving the community assembly

scholarly journals Assembly of a Benthic Microbial Community in a Eutrophic Bay with a Long History of Oyster Culturing

2021 ◽  
Vol 9 (10) ◽  
pp. 2019
Author(s):  
Xiao Song ◽  
Junting Song ◽  
Qi Yan ◽  
Jin Zhou ◽  
Zhonghua Cai
Keyword(s):  
Microbial Community ◽  
Stochastic Processes ◽  
Water Content ◽  
Community Assembly ◽  
Keystone Species ◽  
Environmental Parameters ◽  
Culture Area ◽  
Benthic Microbial Community ◽  
History Of ◽  
Microbial Community Assembly

The introduction of oysters to a waterbody is an efficient method for decreasing levels of eutrophication. Oysters affect sedimental environments and benthic microbes via their roles in nutrient cycling. However, little is known about how long-term oyster culturing affects benthic microbial community assembly. In the present study, top and bottom sediments from an oyster-culture area and non-culture area, in a eutrophic bay with a long history of oyster culturing, were obtained for environmental parameter measurement and microbe identification. Deterministic and stochastic processes in microbial community assembly were assessed. In particular, keystone species identification through network analysis was combined with measured environmental parameters to determine the factors related to community assembly processes. Our results suggest that oyster culturing relates to greater variation in both biological and non-biological sediment profiles. In benthic communities, Proteobacteria and Chloroflexi were the most abundant phyla, and community compositions were significantly different between sample groups. We also found that community assembly was more affected by deterministic factors than stochastic ones, when oysters were present. Moisture, or water content, and pH were identified as affecting deterministic and stochastic processes, respectively, but only water content was a driver associated with oyster culturing. Additionally, although keystone species presented a similar pattern of composition to peripheral species, they responded to their environments differently. Furthermore, model selection, fitting keystone species to community assembly processes, indicates their role in shaping microbial communities.

scholarly journals Archaeal and bacterial communities assembly and co-occurrence networks in subtropical mangrove sediments under Spartina alterniflora invasion

2021 ◽  
Vol 16 (1) ◽  
Author(s):  
Weidong Chen ◽  
Donghui Wen
Keyword(s):  
Stochastic Processes ◽  
Spartina Alterniflora ◽  
Community Assembly ◽  
Bacterial Communities ◽  
Mangrove Ecosystem ◽  
Mangrove Sediment ◽  
Dispersal Ability ◽  
Relative Role ◽  
Network Analyses ◽  
Occurrence Patterns

Abstract Background Mangrove ecosystems are vulnerable due to the exotic Spartina alterniflora (S. alterniflora) invasion in China. However, little is known about mangrove sediment microbial community assembly processes and interactions under S. alterniflora invasion. Here, we investigated the assembly processes and co-occurrence networks of the archaeal and bacterial communities under S. alterniflora invasion along the coastlines of Fujian province, southeast China. Results Assembly of overall archaeal and bacterial communities was driven predominantly by stochastic processes, and the relative role of stochasticity was stronger for bacteria than archaea. Co-occurrence network analyses showed that the network structure of bacteria was more complex than that of the archaea. The keystone taxa often had low relative abundances (conditionally rare taxa), suggesting low abundance taxa may significantly contribute to network stability. Moreover, S. alterniflora invasion increased bacterial and archaeal drift process (part of stochastic processes), and improved archaeal network complexity and stability, but decreased the network complexity and stability of bacteria. This could be attributed to S. alterniflora invasion influenced microbial communities diversity and dispersal ability, as well as soil environmental conditions. Conclusions This study fills a gap in the community assembly and co-occurrence patterns of both archaea and bacteria in mangrove ecosystem under S. alterniflora invasion. Thereby provides new insights of the plant invasion on mangrove microbial biogeographic distribution and co-occurrence network patterns.

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