Stochastic processes shape the biogeographic variations in core bacterial communities between aerial and belowground compartments of common bean

Liu, Yang; Li, Da; Qi, Jiejun; Peng, Ziyi; Chen, Weimin; Wei, Gehong; Jiao, Shuo

doi:10.1111/1462-2920.15227

Cited by 31 publications

(10 citation statements)

References 77 publications

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“…In the present study, we found robust evidence for DDRs of bacterial communities in both bulk and rhizosphere sediment samples across the plain region (Figure 3), which is consistent with previous observations of different terrestrial ecosystems (Fan et al, 2017; Jiao et al, 2020; Liu et al, 2020; Wang et al, 2017; Zhang et al, 2018b). Furthermore, based on null model theory, we found that deterministic processes, especially variable selection, had dominant roles in driving the bacterial community assembly of lakeshore bulk sediment (Figure 4a).…”

Section: Discussionsupporting

confidence: 92%

Decreased spatial variation and deterministic processes of bacterial community assembly in the rhizosphere of Phragmites australis across the Middle–Lower Yangtze plain

Zeng

Zhao

et al. 2021

Molecular Ecology

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Comparison of the spatial distribution and assembly processes between bulk and rhizosphere bacterial communities at multiple spatial scales is vital for understanding the generation and maintenance of microbial diversity under the influence of plants. However, biogeographical patterns and the underlying mechanisms of microbial communities in bulk and rhizosphere sediments of aquatic ecosystems remain unclear. Here, we collected 140 bulk and rhizosphere sediment samples of Phragmites australis from 14 lakeshore zones across a 510‐km transect in the Middle–Lower Yangtze plain. We performed high‐throughput sequencing to investigate the bacterial diversity, composition, spatial distribution and assembly processes of these samples. Bacterial communities in the rhizosphere sediment exhibited higher alpha diversity but lower beta diversity than those in the bulk sediment. Both bulk and rhizosphere sediment bacterial communities had significant distance–decay relationships, but spatial turnover of the rhizosphere sediment bacterial community was strikingly lower than that of bulk sediment. Despite variable selection dominating the assembly processes of bacterial communities in bulk sediment, the rhizosphere of P. australis enhanced the role of dispersal limitation in governing bacterial communities. The relative importance of different ecological processes in determining bacterial assembly presented distinct patterns of increasing or decreasing linearly with an increase of scale. This investigation highlights the convergent selection of the aquatic plant rhizosphere for surrounding bacterial communities and emphasizes the importance of different ecological processes on bacterial community assembly in sediment environments over different scales. Furthermore, we provide a preliminary framework for exploring the scale dependence of microbial community assembly in aquatic ecosystems.

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Section: Discussionsupporting

confidence: 92%

Decreased spatial variation and deterministic processes of bacterial community assembly in the rhizosphere of Phragmites australis across the Middle–Lower Yangtze plain

Zeng

Zhao

et al. 2021

Molecular Ecology

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“…The DDRs of the microbiotas in the present study were confirmed by the results of (partial) Mantel tests, and displayed similar patterns to those of other studies (Jiao and Lu, 2020;Liu et al, 2021). Moreover, the environmental factors were significantly correlated with the microbial communities in the BS and RS, which has also been found in previous studies (Xiong et al, 2012;Zhang et al, 2018).…”

Section: Effects Of Multiple Factors On the Distributions Of Root-associated Microbiotassupporting

confidence: 91%

“…The geography had the greatest direct effects on the bacterial communities in RS, which is in accordance with the results of the above Mantel tests (Table 4), and has been illustrated in other studies that have discussed the geographic distance has a greater impact on rhizosphere microbiotas due to the combined influences of plant root exudates (Xiong et al, 2012;Liu et al, 2021). It has become apparent that the biogeographic distance decay patterns of microbiotas in the root endosphere are usually not obvious (Zhang et al, 2018).…”

Section: Integrated Modulations Of Licorice Root Secondary Metabolitessupporting

confidence: 88%

Regulation of root secondary metabolites by partial root‐associated microbiotas under the shaping of licorice ecotypic differentiation in northwest China

Liu

Wang

Peng

et al. 2021

JIPB

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Interactions between plant hosts and their microbiotas are becoming increasingly evident, while the effects of plant communities on microbial communities in different geographic environments are poorly understood. Here, the differentiation of licorice plant ecotypes and the distribution of rootassociated microbiotas were investigated across five sampling sites in northwest China. The interactions between the environment, plant and microbial communities, and their effects on licorice root secondary metabolites, were elucidated. The plant community was clearly differentiated into distinct ecotypes based on genotyping-by-sequencing and was primarily driven by geographic distance and available soil nitrogen. The bulk soil and rootassociated microbiotas (rhizosphere soil and root endosphere) partially correlated with plant community, but all were significantly discriminated by plant clade. Moreover, these microbiotas were explained to different extents by distinct combinations of environment, geography, and plant community. Similarly, three structural equation models showed that licorice root secondary metabolites were complicatedly modulated by multiple abiotic and biotic factors, and were mostly explained by these factors in the rhizosphere model. Collectively, the results provide novel insights into the role of environmentplant-microbiota interactions in regulating root secondary metabolites. That should be accounted for when selecting appropriate licorice planting sites and management measures.

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“…Soil compartments separated the rhizosphere bacterial community (α- and β- diversity) from the bulk soil under either planting pattern. Previous studies concerning other plant microbiomes also confirmed this partition ( Santhanam et al, 2015 ; Dombrowski et al, 2017 ; Fan et al, 2017 ; Liu et al, 2020 ). The rhizosphere is a highly dynamic environment that is the primary site of plant nutrient and other metabolite output, providing a rich source of C and energy for nearby microorganisms ( Dakora and Phillips, 2002 ; Bulgarelli et al, 2013 ).…”

Section: Discussionsupporting

confidence: 75%

Intercropping Systems Modify Desert Plant-Associated Microbial Communities and Weaken Host Effects in a Hyper-Arid Desert

et al. 2021

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Intercropping is an important practice in promoting plant diversity and productivity. Compared to the accumulated understanding of the legume/non-legume crop intercrops, very little is known about the effect of this practice when applied to native species on soil microbial communities in the desert ecosystem. Therefore, in the present study, bulk soil and rhizosphere microbial communities in the 2-year Alhagi sparsifolia (legume)/Karelinia caspica (non-legume) monoculture vs. intercropping systems were characterized under field conditions. Our result revealed that plant species identities caused a significant effect on microbial community composition in monocultures but not in intercropping systems. Monoculture weakened the rhizosphere effect on fungal richness. The composition of bacterial and fungal communities (β-diversity) was significantly modified by intercropping, while bacterial richness (Chao1) was comparable between the two planting patterns. Network analysis revealed that Actinobacteria, α- and γ-proteobacteria dominated bulk soil and rhizosphere microbial co-occurrence networks in each planting pattern. Intercropping systems induced a more complex rhizosphere microbial community and a more modular and stable bulk soil microbial network. Keystone taxa prevailed in intercropping systems and were Actinobacteria-dominated. Overall, planting patterns and soil compartments, not plant identities, differentiated root-associated microbiomes. Intercropping can modify the co-occurrence patterns of bulk soil and rhizosphere microorganisms in desert ecosystems. These findings provided a potential strategy for us to manipulate desert soil microbial communities and optimize desert species allocation in vegetation sustainability.

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Stochastic processes shape the biogeographic variations in core bacterial communities between aerial and belowground compartments of common bean

Cited by 31 publications

References 77 publications

Decreased spatial variation and deterministic processes of bacterial community assembly in the rhizosphere of Phragmites australis across the Middle–Lower Yangtze plain

Decreased spatial variation and deterministic processes of bacterial community assembly in the rhizosphere of Phragmites australis across the Middle–Lower Yangtze plain

Regulation of root secondary metabolites by partial root‐associated microbiotas under the shaping of licorice ecotypic differentiation in northwest China

Intercropping Systems Modify Desert Plant-Associated Microbial Communities and Weaken Host Effects in a Hyper-Arid Desert

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