Assessment of the rhizosphere fungi and bacteria recruited by sugarcane during smut invasion

Duan, Mingzheng; Wang, Lingqiang; Song, Xiu–Peng; Zhang, Xiao-Qiu; Wang, Zeping; Lei, Jingchao; Yan, Meixin

doi:10.1007/s42770-022-00871-6

Cited by 13 publications

(7 citation statements)

References 54 publications

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“…We observed increased functional gene expression in diseased rhizosphere for unidentified saprotrophs, plant saprotrophs, fungal parasite-plant pathogens, and animal pathogens. Similar to our findings another study (Duan et al, 2023) reported seven categories of fungal functional annotations dominated by saprotroph, pathotroph-saprotroph-symbiotroph, pathotroph, symbiotroph. Our study provides new insights into the dynamics of the rhizosphere microbiomes of diseased and healthy berseem plants for future biocontrol and fertilization regimes.…”

Section: Discussionsupporting

confidence: 92%

Stem rot affects the structure of rhizosphere microbiome in Berseem Clover (Trifolium alexandrinum)

Mukhtar,

Ahmad,

Khan

et al. 2024

Preprint

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Rhizosphere microbiome plays an essential role in maintaining plant health and productivity. Fungal and bacterial diseases may affect the rhizosphere-associated microbial communities and overall structure of plant microbiome. Here, we studied the effect of stem rot of berseem clover on the bacterial and fungal communities associated with the rhizosphere. We analyzed the rhizosphere-associated bacterial and fungal microbiome from healthy and infected berseem clover collected from three sampling sites by using 16S rRNA and ITS based Illumina sequencing metabarcoding approach. Microbiome analysis showed that healthy plants had higher bacterial and fungal diversity as compared to stem rot infected plants. At the genus level, bacterial genera Rhizobium and Comamonas were more abundant in healthy plants while Pantoea was more abundant in infected plants and fungal genera Sclerotinia, Fusarium and Cladorrhinum were more abundant in infected plants while Microdochium and Cladosporium were distinctively abundant in healthy Berseem. Functional characterization of bacterial and fungal microbiomes revealed that bacterial communities from infected plants showed more abundance of bacteria with functions replication and repair, enzyme families and biosynthesis of other secondary metabolites as compared to healthy plant microbiome and decreased in fungal groups including arbuscular mycorrhiza and soil saprotrophs and an increase in plant saprotrophs and fungal parasite-plant pathogens. This study provides comprehensive information about the structure and composition of bacterial and fungal communities associated with the berseem clover rhizosphere that could be utilized for future research on the control of stem rot of berseem clover.

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Section: Discussionsupporting

confidence: 92%

Stem rot affects the structure of rhizosphere microbiome in Berseem Clover (Trifolium alexandrinum)

Mukhtar,

Ahmad,

Khan

et al. 2024

Preprint

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“…Edaphobacter , which is affiliated with Acidobacteriaceae ( Acidobacteriota ), has been primarily linked to alpine and forest soils [ 73 , 74 ]. Additionally, Edaphobacter has shown associations with smut resistance in sugarcane [ 75 ]. In the context of plant endophytes, Edaphobacter was found to be more abundant in the roots than in the bulk soil and rhizosphere of cultivated Allium ulleungense [ 76 ].…”

Section: Discussionmentioning

confidence: 99%

Core Endophytic Bacteria and Their Roles in the Coralloid Roots of Cultivated Cycas revoluta (Cycadaceae)

Liu,

Xu,

Wang

et al. 2023

Microorganisms

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As a gymnosperm group, cycads are known for their ancient origin and specialized coralloid root, which can be used as an ideal system to explore the interaction between host and associated microorganisms. Previous studies have revealed that some nitrogen-fixing cyanobacteria contribute greatly to the composition of the endophytic microorganisms in cycad coralloid roots. However, the roles of host and environment in shaping the composition of endophytic bacteria during the recruitment process remain unclear. Here, we determined the diversity, composition, and function prediction of endophytic bacteria from the coralloid roots of a widely cultivated cycad, Cycas revoluta Thunb. Using next-generation sequencing techniques, we comprehensively investigated the diversity and community structure of the bacteria in coralloid roots and bulk soils sampled from 11 sites in China, aiming to explore the variations in core endophytic bacteria and to predict their potential functions. We found a higher microbe diversity in bulk soils than in coralloid roots. Meanwhile, there was no significant difference in the diversity and composition of endophytic bacteria across different localities, and the same result was found after removing cyanobacteria. Desmonostoc was the most dominant in coralloid roots, followed by Nostoc, yet these two cyanobacteria were not shared by all samples. Rhodococcus, Edaphobacter, Niastella, Nordella, SH-PL14, and Virgisporangium were defined as the core microorganisms in coralloid roots. A function prediction analysis revealed that endophytic bacteria majorly participated in the plant uptake of phosphorus and metal ions and in disease resistance. These results indicate that the community composition of the bacteria in coralloid roots is affected by both the host and environment, in which the host is more decisive. Despite the very small proportion of core microbes, their interactions are significant and likely contribute to functions related to host survival. Our study contributes to an understanding of microbial diversity and composition in cycads, and it expands the knowledge on the association between hosts and symbiotic microbes.

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“…Species of Niastella are antibiotic-resistant, metal-tolerant, and chitosan-hydrolyzing and were reported in the lateral roots of [94]. Promicromonospora has demonstrated its biocontrol function in resistance to Phytophthora capsici infection in pepper and resistance to smut in sugarcane [95,96], and denitri cation and bacterial wilt control in Reyranella [97]. Exiguobacterium, a bacterial genus classi ed as a distinct taxon in Moulton, is renowned for its widespread distribution owing to its ability to utilize a wide variety of polysaccharides and its resistance to environmental stress [98], whereas members of unidenti ed Streptosporangiales enriched in Carrizo Springs is known to produce antimicrobial compounds [38].…”

Section: Enrichment Of Speci C Microbial Taxa In the Rhizocompartmentsmentioning

confidence: 99%

Unraveling the Spatio-Temporal Dynamics of Soil and Root-Associated Microbiome in Texas Olive Orchards: A Comprehensive Analysis

Thenappan,

Thompson,

Joshi

et al. 2024

Preprint

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Understanding the structure and diversity of microbiomes is critical to establishing olives in non-traditional production areas. Limited studies have investigated soil and root-associated microbiota dynamics in olives across seasons or locations in the United States. We explored the composition and spatiotemporal patterns in two niches (roots and soils), seasons (spring, summer, and fall), and domains (bacteria and fungi) in the microbiome of the olive variety Arbequina across three olive orchards in Texas to investigate the structure of the olive-associated microbial communities and specificity to the root endosphere and soil rhizosphere zones. The bacterial populations in the rhizosphere (16.42%) and endosphere (15.49%) were dominated by Phylum Proteobacteria, followed by Actinobacteriota (RS, 12.63%; RE, 16.47%). Rubrobacter (5.27%) and Actinophytocola (3.49%) were dominant taxa in the rhizosphere and root endosphere at the genus level. Among fungal communities, phylum Ascomycota was prevalent in the rhizosphere (71.09%) and endosphere (41.37%). Members of the Chaetomiaceae taxon outnumbered (17.61%) another taxon in the root endosphere. As Per the alpha diversity indices, rhizosphere soil at Moulton showed much higher richness and diversity than other places, which predicted a significant difference in rhizosphere between locations for bacterial diversity and richness. There was no significant variation in the bacterial diversity in the niches and the fungal diversity within the root endosphere between locations. Beta diversity analysis confirmed the effect of compartments (Fungi: 12.3%; Bacteria: 45.1%) in influencing community differences. Microbial diversity was apparent within the endosphere (Bacteria:14.6%, Fungi:15.6%) and rhizosphere (30.5%, Fungi: 21.6%). The seasons influenced only the rhizosphere fungal diversity (8.5%), contrasting the bacterial diversity in either niche. The research provided a comprehensive overview of the microbial diversity present in both the rhizosphere and endosphere of olive trees. The abundance and composition of OTUs associated with the rhizosphere soil of Arbequina suggest its role as a source reservoir in defining the potential endophytes.

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Assessment of the rhizosphere fungi and bacteria recruited by sugarcane during smut invasion

Cited by 13 publications

References 54 publications

Stem rot affects the structure of rhizosphere microbiome in Berseem Clover (Trifolium alexandrinum)

Stem rot affects the structure of rhizosphere microbiome in Berseem Clover (Trifolium alexandrinum)

Core Endophytic Bacteria and Their Roles in the Coralloid Roots of Cultivated Cycas revoluta (Cycadaceae)

Unraveling the Spatio-Temporal Dynamics of Soil and Root-Associated Microbiome in Texas Olive Orchards: A Comprehensive Analysis

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