Metagenomic profiling of bacterial diversity and community structure in termite mounds and surrounding soils

Enagbonma, Ben Jesuorsemwen; Ajilogba, Caroline Fadeke

doi:10.1007/s00203-020-01994-w

Cited by 23 publications

(21 citation statements)

References 40 publications

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“…As illustrated by CCA, N-NO 3 remains the most influential soil factor shaping the structural diversity of bacteria in our sampling sites. Although the significance of pH on bacterial structure has been reported in several studies [ 61 , 62 ], because the pH of our sampling sites was within the considerable range required for bacterial inhabitation, it led to its negligible contribution to the community structure of bacteria of the sampling sites [ 18 ].…”

Section: Discussionmentioning

confidence: 99%

Metagenomic Insight into the Community Structure of Maize-Rhizosphere Bacteria as Predicted by Different Environmental Factors and Their Functioning within Plant Proximity

Akinola

Babalola

2021

Microorganisms

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The rhizosphere microbiota contributes immensely to nutrient sequestration, productivity and plant growth. Several studies have suggested that environmental factors and high nutrient composition of plant’s rhizosphere influence the structural diversity of proximal microorganisms. To verify this assertion, we compare the functional diversity of bacteria in maize rhizosphere and bulk soils using shotgun metagenomics and assess the influence of measured environmental variables on bacterial diversity. Our study showed that the bacterial community associated with each sampling site was distinct, with high community members shared among the samples. The bacterial community was dominated by Proteobacteria, Actinobacteria, Acidobacteria, Gemmatimonadetes, Bacteroidetes and Verrucomicrobia. In comparison, genera such as Gemmatimonas, Streptomyces, Conexibacter, Burkholderia, Bacillus, Gemmata, Mesorhizobium, Pseudomonas and Micromonospora were significantly (p ≤ 0.05) high in the rhizosphere soils compared to bulk soils. Diversity indices showed that the bacterial composition was significantly different across the sites. The forward selection of environmental factors predicted N-NO3 (p = 0.019) as the most influential factor controlling the variation in the bacterial community structure, while other factors such as pH (p = 1.00) and sulfate (p = 0.50) contributed insignificantly to the community structure of bacteria. Functional assessment of the sampling sites, considering important pathways viz. nitrogen metabolism, phosphorus metabolism, stress responses, and iron acquisition and metabolism could be represented as Ls > Rs > Rc > Lc. This revealed that functional hits are higher in the rhizosphere soil than their controls. Taken together, inference from this study shows that the sampling sites are hotspots for biotechnologically important microorganisms.

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Section: Discussionmentioning

confidence: 99%

Metagenomic Insight into the Community Structure of Maize-Rhizosphere Bacteria as Predicted by Different Environmental Factors and Their Functioning within Plant Proximity

Akinola

Babalola

2021

Microorganisms

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“…The rhizosphere is a hotspot for microbial diversity containing more active, abundant and distinct microbial communities in contrast to proximate bulk soils (de Vries and Wallenstein 2017;Praeg et al 2019). Bacteria are the most abundant microbes in the rhizosphere and are used as indicators of soil quality and fertility due to their rapid response to environmental alterations (Enagbonma et al 2020). The actions of bacteria are vital because they expedite most biogeochemical progressions, thereby influencing mineral nutrient availability in soils (Amoo and Babalola 2019).…”

Section: Introductionmentioning

confidence: 99%

Metagenomic insights into the bacterial community structure and functional potentials in the rhizosphere soil of maize plants

Molefe

Amoo

Babalola

2021

Journal of Plant Interactions

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Plant rhizosphere zones are hotspots for microbial diversity consisting of different communities when contrasted with surrounding bulk soils. Rhizosphere microorganisms play significant roles in plant development. We investigated the bacterial community and metabolic potentials of maize rhizosphere and bulk soils at two distant geographical locations in the North West Province of South Africa using shotgun metagenomics. We further characterized bacterial genes contributing to plant-beneficial functions present in the soils. Genes involved in plant-beneficial functions like nitrogen fixation and potassium transport were uncovered. Overall, 51 OTUs were identified in the soils. Shared OTUs between soils were 10.9% and 17.2% at Ventersdorp and Mafikeng, respectively. Significant differences in bacterial taxonomic composition and functional categories between soils (P < 0.05) were revealed. Acidobacteria and Firmicutes dominated the rhizosphere soils while Actinobacteria and Gemmatimonadetes were predominant in bulk soils. Proper understanding of soil indigenous microbiome can help ascertain prospective targets for imminent crop breeding and management.

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“…Abiotic factors such as aeration, temperature and humidity, which are regulated by the architecture of termite nests, play a key role in microbiome stability (Marins et al, 2016). Among the various nest compartments, the carton nest is expected to contain the most adapted microbiota because it consists of salivary secretions and feces (Enagbonma et al, 2020). Furthermore, the carton nest is frequented by termites and protected from external contact except during feeding.…”

Section: Stability Of the C Testaceus Carton Nest Microbiomementioning

confidence: 99%

High-Throughput Cultivation for the Selective Isolation of Acidobacteria From Termite Nests

et al. 2020

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Microbial communities in the immediate environment of socialized invertebrates can help to suppress pathogens, in part by synthesizing bioactive natural products. Here we characterized the core microbiomes of three termite species (genus Coptotermes ) and their nest material to gain more insight into the diversity of termite-associated bacteria. Sampling a healthy termite colony over time implicated a consolidated and highly stable microbiome, pointing toward the fact that beneficial bacterial phyla play a major role in termite fitness. In contrast, there was a significant shift in the composition of the core microbiome in one nest during a fungal infection, affecting the abundance of well-characterized Streptomyces species (phylum Actinobacteria) as well as less-studied bacterial phyla such as Acidobacteria. High-throughput cultivation in microplates was implemented to isolate and identify these less-studied bacterial phylogenetic group. Amplicon sequencing confirmed that our method maintained the bacterial diversity of the environmental samples, enabling the isolation of novel Acidobacteriaceae and expanding the list of cultivated species to include two strains that may define new species within the genera Terracidiphilus and Acidobacterium .

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Metagenomic profiling of bacterial diversity and community structure in termite mounds and surrounding soils

Cited by 23 publications

References 40 publications

Metagenomic Insight into the Community Structure of Maize-Rhizosphere Bacteria as Predicted by Different Environmental Factors and Their Functioning within Plant Proximity

Metagenomic Insight into the Community Structure of Maize-Rhizosphere Bacteria as Predicted by Different Environmental Factors and Their Functioning within Plant Proximity

Metagenomic insights into the bacterial community structure and functional potentials in the rhizosphere soil of maize plants

High-Throughput Cultivation for the Selective Isolation of Acidobacteria From Termite Nests

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