Keystone species determine the “selection mechanism” of multispecies biofilms for bacteria from soil aggregates

Xiong, Xiang; Xing, Yanfang; He, Jinzhi; Wang, Li; Shen, Zhenxing; Chen, Wenli; Huang, Qiaoyun

doi:10.1016/j.scitotenv.2021.145069

Cited by 13 publications

(10 citation statements)

References 46 publications

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“…Keystone nodes in co‐occurrence networks tend to have high degree values and low betweenness centrality values based on scale‐free features and have a significant impact on the composition of the gut microbial community as a whole (Barabási, 2009 ; Berry & Widder, 2014 ). Like in the case of modules, keystone species can also reflect the key function of a microbial system (Xiong et al, 2021 ). For example, in GPXXL, 75% of the keystone species belong to the Clostridiaceae family, which is known for its cellulose degradation potential (Xue et al, 2015 ; Zhang et al, 2018 ; Zhu et al, 2011 ).…”

Section: Discussionmentioning

confidence: 99%

The putative maintaining mechanism of gut bacterial ecosystem in giant pandas and its potential application in conservation

Cui

Zhang

Chen

et al. 2022

Evolutionary Applications

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Animals living in captivity and the wild show differences in the internal structure of their gut microbiomes. Here, we performed a meta‐analysis of the microbial data of about 494 fecal samples obtained from giant pandas (captive and wild giant pandas). Our results show that the modular structures and topological features of the captive giant panda gut microbiome differ from those of the wild populations. The co‐occurrence network of wild giant pandas also contained more nodes and edges, indicating a higher complexity and stability compared to that of captive giant pandas. Keystone species analysis revealed the differences between geographically different wild populations, indicating the potential effect of geography on the internal modular structure. When combining all the giant panda samples for module analysis, we found that the abundant taxa (e.g., belonged to Flavobacterium , Herbaspirillum , and Escherichia‐Shigella ) usually acted as module hubs to stabilize the modular structure, while the rare taxa usually acted as connectors of different modules. We conclude that abundant and rare taxa play different roles in the gut bacterial ecosystem. The conservation of some key bacterial species is essential for promoting the development of the gut microbiome in pandas. The living environment of the giant pandas can influence the internal structure, topological features, and strength of interrelationships in the gut microbiome. This study provides new insights into the conservation and management of giant panda populations.

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Section: Discussionmentioning

confidence: 99%

The putative maintaining mechanism of gut bacterial ecosystem in giant pandas and its potential application in conservation

Cui

Zhang

Chen

et al. 2022

Evolutionary Applications

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“…In addition to the keystone species identified by “extensively cooperative”, we also calculated the contribution of a single species to a multispecies phenotype by GLM based on a matrix of species presence or absence, and possible keystone species were defined accordingly . Strain c showed the highest positive coefficient in the GLM, followed by f (Figure C).…”

Section: Resultsmentioning

confidence: 99%

Core Species Derived from Multispecies Interactions Facilitate the Immobilization of Cadmium

Xing

Song

Tan

et al. 2023

Environ. Sci. Technol.

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Microbial consortia have opened new avenues for heavy-metal remediation. However, the limited understanding of the overall effect of interspecific interactions on remediation efficacy hinders its application. Here, the effects of multispecies growth and biofilm formation on Cd immobilization were explored from direct and multiple interactions through random combinations of two or three rhizosphere bacteria. In monocultures, Cd stress resulted in an average decrease in planktonic biomass of 26%, but through cooperation, the decrease was attenuated in dual (21%) and triple cultures (13%), possibly involving an increase in surface polysaccharides. More than 65% of the co-cultures exhibited induction of biofilm formation under Cd stress, which further enhanced the role of biofilms in Cd immobilization. Notably, excellent biofilm-forming ability or extensive social induction makes Pseudomonas putida and Brevundimonas diminuta stand out in multispecies biofilm formation and Cd immobilization. These two core species significantly increase the colonization of soil microorganisms on rice roots compared to the control, resulting in a 40% decrease in Cd uptake by rice. Our study enhances the understanding of bacterial interactions under Cd stress and provides a novel strategy for adjusting beneficial soil consortia for heavymetal remediation.

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“…Resident communities with high nestedness indicated intense competition among specialists and generalists for resources ( 32 ). However, interspecies nestedness was no different from the intensity of bacterial competition, and it was implied that the mechanism of multispecies biofilms formation was not only correlated with the resource but was also determined by the species composition of the bacterial community ( 33 ). The multispecies distribution in terms of its spatial organization would determine multispecies biofilms formation, and each species occupies a defined microsite to provide a balance among positive and negative interactions that enhance biofilms production ( 34 ).…”

Section: Discussionmentioning

confidence: 99%

“…Bacteria were isolated from soil aggregates using standard serial dilution plate techniques described in our previous study ( 33 ). Briefly, soil incubation solutions were prepared by making an initial 1:9 soil PBS mixture and the soil suspension was shaken at 180 rpm for 2 h to release the microbes.…”

Section: Methodsmentioning

confidence: 99%

Soil Aggregates and Fertilizer Treatments Drive Bacterial Interactions via Interspecies Niche Overlap

et al. 2022

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Keystone species determine the “selection mechanism” of multispecies biofilms for bacteria from soil aggregates

Cited by 13 publications

References 46 publications

The putative maintaining mechanism of gut bacterial ecosystem in giant pandas and its potential application in conservation

The putative maintaining mechanism of gut bacterial ecosystem in giant pandas and its potential application in conservation

Core Species Derived from Multispecies Interactions Facilitate the Immobilization of Cadmium

Soil Aggregates and Fertilizer Treatments Drive Bacterial Interactions via Interspecies Niche Overlap

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