Rhizospheric microbial community in plant species from the Phaseolus genus

Lopes, Ângela Célis de Almeida; Mendes, Lucas William; Brito, Karla Annielle da Silva Bernardo; Silva, Josieli Lima da; Rocha, Sandra Mara Barbosa; Antunes, Jadson Emanuel Lopes; Oliveira, Louise Melo de Souza; Melo, Vânia Maria Maciel; Oliveira, Francisco Artur Forte; Pereira, Arthur Prudêncio de Araújo; Costa, Gérson do Nascimento; Silva, Verônica Brito da; Gomes, Regina Lúcia Ferreira; Neto, Francisco de Alcântara; Araújo, Ademir Sérgio Ferreira de

doi:10.1016/j.apsoil.2022.104731

Cited by 4 publications

(2 citation statements)

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“…For some time now, metabarcoding of the 16S rRNA gene is a standard tool in microbial ecology used to study the diversity of microbial communities in different habitats, including plants [ 32 , 33 ]. We wondered if that dataset alone would be informative enough to predict the most known plant-associated bacteria with beneficial traits.…”

Section: Discussionmentioning

confidence: 99%

Culture-Dependent and Metabarcoding Characterization of the Sugar Beet (Beta vulgaris L.) Microbiome for High-Yield Isolation of Bacteria with Plant Growth-Promoting Traits

Krstić Tomić,

Atanasković,

Nikolić

et al. 2023

Microorganisms

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The diversity of plant-associated bacteria is vast and can be determined by 16S rRNA gene metabarcoding. Fewer of them have plant-beneficial properties. To harness their benefits for plants, we must isolate them. This study aimed to check whether 16S rRNA gene metabarcoding has predictive power in identifying the majority of known bacteria with plant-beneficial traits that can be isolated from the sugar beet (Beta vulgaris L.) microbiome. Rhizosphere and phyllosphere samples collected during one season at different stages of plant development were analyzed. Bacteria were isolated on rich unselective media and plant-based media enriched with sugar beet leaves or rhizosphere extracts. The isolates were identified by sequencing the 16S rRNA gene and tested in vitro for their plant-beneficial properties (stimulation of germination; exopolysaccharide, siderophore, and HCN production; phosphate solubilization; and activity against sugar beet pathogens). The highest number of co-occurring beneficial traits was eight, found in isolates of five species: Acinetobacter calcoaceticus, Bacillus australimaris, B. pumilus, Enterobacter ludwiigi, and Pantoea ananatis. These species were not detected by metabarcoding and have not previously been described as plant-beneficial inhabitants of sugar beets. Thus, our findings point out the necessity of a culture-dependent microbiome analysis and advocate for low-nutrient plant-based media for high-yield isolation of plant-beneficial taxa with multiple beneficial traits. A culture-dependent and -independent approach is required for community diversity assessment. Still, isolation on plant-based media is the best approach to select isolates for potential use as biofertilizers and biopesticides in sugar beet cultivation.

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Section: Discussionmentioning

confidence: 99%

Culture-Dependent and Metabarcoding Characterization of the Sugar Beet (Beta vulgaris L.) Microbiome for High-Yield Isolation of Bacteria with Plant Growth-Promoting Traits

Krstić Tomić,

Atanasković,

Nikolić

et al. 2023

Microorganisms

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“…The ability of rhizosphere Streptomyces to enhance crop growth and stem ambient stress to promote crop health has variously reported in many crops(Hu et al, 2020;Kum and Ince, 2021;Pang et al, 2022). the maize apparently related with marginal differences among the habitats(Ni et al, 2023) and differ according to phylogenetic distance of crops(Chen et al, 2022;Lopes et al, 2023), in this case, the maize. The highest bacterial richness estimated via diversity indexes associated with Ma2R (6017) further consolidate the assertion that the rhizosphere in the southern part are relatively more nutritive for maize cultivation.…”

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confidence: 95%

Geographical variation of Geochemistry and Bacteriome of Maize Rhizosphere in Agricultural Farmlands

Momoh-Salami,

AKINYEMI,

Oyetibo

et al. 2023

Preprint

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Sustainable food production systems in developing countries require resilient production of crops like Zea mays (maize) with understanding of its rhizosphere bacteriome. Maize rhizospheres in six locations, representing two main hemispheres (southern: Ma2R, Ma3R, and BaMR; northern: MF1A-R, MF2A-R, and MF3A-R), were assessed for geochemistry and 16S rRNA microbiome. The pH of the rhizospheres tends mostly towards acidic (6.33–6.98) with some significant variations (p < 0.05) in the geochemical features across the locations. Varied concentrations of organochlorine compounds were observed in the rhizospheres, where endrin was recorded in all the rhizospheres. The dominance of Proteobacteria, Actinobacteria, Firmicutes, Acidobacteria, Chloroflexi, Plactomycetes, Verrucomicrobia, and Bacteroidetes with apparent variations was observed across the locations. Firmicutes (as evidenced with Bacillus fumarioli group) varied significantly between MF2A-R and MaMR (t = 2.96; p < 0.05), Ma3R (t = 3.99; p < 0.01), and Ma2R (t = 3.13; p < 0.05). Remarkably, Proteobacteria (represented by Bradyrhizobium japonicum group) was relatively higher in the maize rhizosphere from the southern (Ma2R, 24.8%; Ma3R, 37.8%; BaMR, 37.6%) than in northern (MF1A-R, 22.1%; MF2A-R, 25.6%; MF3A-R, 27.1%) hemispheres. Contrariwise, the abundance of Acidobacteria (mostly unclassified species), Chloroflexi and Actinobacteria skewed towards maize rhizospheres in the northern sphere indicating oligotrophic ecosystem. The phylogenetic Diversity index revealed Ma2R was the most diverse phylotypes with a 5142-factor followed by MF1A-R (4957), Ma3R (4949), MF2A-R (4465), MF3A-R (4440), and the least diverse was BaMR (4284). Canonical correspondence analysis and other beta-diversity indexes established a 19.6% variance between the southern and northern rhizosphere as the bacteriome related to environmental fluxes through 64.4% variability.

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Physiological tolerance of black locust (Robinia pseudoacacia L.) and changes of rhizospheric bacterial communities in response to Cd and Pb in the contaminated soil

Luo,

Liu,

Tian

et al. 2023

Environ Sci Pollut Res

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Rhizospheric microbial community in plant species from the Phaseolus genus

Cited by 4 publications

References 50 publications

Culture-Dependent and Metabarcoding Characterization of the Sugar Beet (Beta vulgaris L.) Microbiome for High-Yield Isolation of Bacteria with Plant Growth-Promoting Traits

Culture-Dependent and Metabarcoding Characterization of the Sugar Beet (Beta vulgaris L.) Microbiome for High-Yield Isolation of Bacteria with Plant Growth-Promoting Traits

Geographical variation of Geochemistry and Bacteriome of Maize Rhizosphere in Agricultural Farmlands

Physiological tolerance of black locust (Robinia pseudoacacia L.) and changes of rhizospheric bacterial communities in response to Cd and Pb in the contaminated soil

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