Long term effects of management practice intensification on soil microbial community structure and co-occurrence network in a non-timber plantation

Xue, Lianqing; Ren, Huadong; Brodribb, Timothy J.; Wang, Jia; Yao, Xiaohua; Li, Sheng

doi:10.1016/j.foreco.2019.117805

Cited by 62 publications

(31 citation statements)

References 69 publications

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“…Soil microbial network complexity varies with their habitat conditions ( Ma et al, 2016 ; Banerjee et al, 2019 ; Xue et al, 2020 ). For instance, soil microbial network complexity in late successional fields was higher than that in early successional fields ( Morriën et al, 2017 ) and agricultural intensification can reduce soil microbial network complexity ( Banerjee et al, 2019 ).…”

Section: Discussionmentioning

confidence: 99%

“…Predictive understanding of soil bacterial communities is very important to forecast the ecological consequences caused by environmental changes ( Delgado-Baquerizo et al, 2018 ; Liang et al, 2020 ). Besides, the advent of high-throughput sequencing technologies provide a rapid and low-cost tool to understand microbial ecology, such as microbial community structures, diversities, interactions and co-occurrence patterns ( Loman et al, 2012 ; Ma et al, 2016 ; Xue et al, 2017 , 2020 ; Schmidt et al, 2019 ; Wagg et al, 2019 ).…”

Section: Introductionmentioning

confidence: 99%

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Impact of Rocky Desertification Control on Soil Bacterial Community in Karst Graben Basin, Southwestern China

et al. 2021

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Microorganisms play critical roles in belowground ecosystems, and karst rocky desertification (KRD) control affects edaphic properties and vegetation coverage. However, the relationship between KRD control and soil bacterial communities remains unclear. 16S rRNA gene next-generation sequencing was used to investigate soil bacterial community structure, composition, diversity, and co-occurrence network from five ecological types in KRD control area. Moreover, soil physical-chemical properties and soil stoichiometry characteristics of carbon, nitrogen and phosphorus were analyzed. Soil N and P co-limitation decreased in the contribution of the promotion of KRD control on edaphic properties. Though soil bacterial communities appeared strongly associated with soil pH, soil calcium, soil phosphorus and plant richness, the key factor to determine their compositions was the latter via changed edaphic properties. The co-occurrence network analysis indicated that soil bacterial network complexity in natural ecosystem was higher than that in additional management ecosystem. Candidatus Udaeobacter, Chthoniobacterales, and Pedosphaeraceae were recognized as the key taxa maintaining karst soil ecosystems in KRD control area. Our results indicate that natural recovery is the suitable way for restoration and rehabilitation of degraded ecosystems, and thus contribute to the ongoing endeavor to appraise the interactions among soil-plant ecological networks.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Impact of Rocky Desertification Control on Soil Bacterial Community in Karst Graben Basin, Southwestern China

et al. 2021

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“…In the present study, a total of 337 OTUs of endophytic fungi were identi ed at a 97% sequence similarity level. This level of endophytic fungal diversity associated with shrubs growing under extreme desert conditions in Northwest China was signi cantly lower than that associated with plants in subtropical forests, farmland plantations and even wetland ecosystems [19,37,41]. Considering the unique habitat provided by arid areas, it seems that the typical harsh environmental conditions of extreme desert lands truly reduce the number of plant endophytes.…”

Section: Discussionmentioning

confidence: 91%

“…This nding is in agreement with those from a study by Mandakovic et al [89], who compared microbial co-occurrence networks representing soil bacterial communities along a western slope of the Andes in the Atacama Desert and revealed that highly abundant OTUs were not as important as some of the relatively rare but highly connected species in terms of network dynamics and stability. Xue et al [93] demonstrated that the removal of keystone taxa from microbial co-occurrence networks signi cantly decreased the number of edges and average connectivity of the network. Although all of the networks shared similar node OTU names, no overlapping keystone OTUs were found in the networks among the different plant compartments (Table S3).…”

Section: Discussionmentioning

confidence: 99%

“…Describing the architecture of these networks may help to decipher underlying species coexistence and ecosystem stability [40]. Co-occurrence network analysis has proven to be a useful tool for analysing microbial relationships and has recently been used to study complex ecological systems, such as bacterial or fungal communities in various environments [41][42][43]. The characteristics of keystone species, member interactions and community organization can be predicted by network analysis to determine the importance of operational taxonomic units (OTUs) and their associations in the community [44,45].…”

Section: Introductionmentioning

confidence: 99%

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Niche Differentiation and Co-Occurrence Network of Fungal Communities Associated with Host Affiliations in an Extremely Arid Desert Ecosystem

Zuo¹,

Li²,

Yang³

et al. 2020

Preprint

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Background: Desert shrubs represent high productivity and play essential roles in maintaining the biodiversity and stability of ecosystem functioning in arid desert ecosystems. These xerophytic plants provide specific biotic and abiotic conditions for the resident specialist microorganisms. However, a robust understanding of the structural composition of the fungal microbiome associated with desert plants and especially the relationship between above- and belowground communities is currently lacking. In this study, we examined the endophytic fungal communities associated with the root, stem, and leaf tissues of five desert shrubs using Illumina MiSeq sequencing of internal transcribed spacer 2 (ITS2) sequences.Results: A total of 337 operational taxonomic units (OTUs) of endophytic fungi were identified at a 97% sequence similarity level. Pleosporales were dominant and played an irreplaceable role as keystone species in maintaining the connectivity and complexity of the fungal networks. Desert shrub identity significantly affected the community composition of the endophytic fungi in different tissues. Compared with the fungi in the aboveground tissues, root-associated fungi represented the most abundant reservoir of biodiversity in the desert habitat and displayed significantly high tissue specificity. Interestingly, the aboveground stems and leaves showed higher taxonomic overlap with underground root tissues than with each other. The root fungal network revealed the highest connectivity, and the interspecies relationships between desert fungal OTUs revealed a high percentage of co-presence rather than mutual exclusion. In addition, members of Hypocreales played a central role in connecting the above- and belowground fungal networks.Conclusions: This study represents the first example of research revealing plant-fungus endophytic associations in an extremely arid desert ecosystem with the simultaneous consideration and comparison of above- and belowground niches. Understanding the complex host-microbe interactions associated with desert plants could provide a basis for the exploitation of plant-fungus associations in the manipulation of the shrub microbiome for ecological restoration purposes.

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EleMi: A Robust Method to Infer Soil Ecological Networks with Better Community Structure

Chen,

Bucur

2024

Springer Proceedings in Complexity

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Long term effects of management practice intensification on soil microbial community structure and co-occurrence network in a non-timber plantation

Cited by 62 publications

References 69 publications

Impact of Rocky Desertification Control on Soil Bacterial Community in Karst Graben Basin, Southwestern China

Impact of Rocky Desertification Control on Soil Bacterial Community in Karst Graben Basin, Southwestern China

Niche Differentiation and Co-Occurrence Network of Fungal Communities Associated with Host Affiliations in an Extremely Arid Desert Ecosystem

EleMi: A Robust Method to Infer Soil Ecological Networks with Better Community Structure

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