Distinct bacterial community structure and composition along different cowpea producing ecoregions in Northeastern Brazil

AbstractSoil microbial communities represent the largest biodiversity on Earth, holding an important role in promoting plant growth and productivity. However, the knowledge about how soil factors modulate the bacteria community structure and distribution in tropical regions remain poorly understood, mainly in different cowpea producing ecoregions belonging to Northeastern Brazil. This study addressed the bacterial community along three different ecoregions (Mata, Sertão, and Agreste) through the16S rRNA gene sequencing. The results showed that soil factors, such as Al3+, sand, Na+, cation exchange excel, and total organic C, influenced the bacterial community and could be a predictor of the distinct performance of cowpea production. Also, the bacterial community changed between different ecoregions, and some keystone groups related to plant-growth promotion, such as Bradyrhizobium, Bacillales, Rhizobiales, and Solibacillus, were correlated to cowpea yield, so revealing that the soil microbiome has a primordial role in plant productivity. Here, we provide evidence that bacterial groups related to nutrient cycling can help us to increase cowpea efficiency and we suggest that a better microbiome knowledge can contribute to improving the agricultural performance.

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Enhanced tomato plant growth in soil under reduced P supply through microbial inoculants and microbiome shifts

FEMS Microbiology Ecology ◽

10.1093/femsec/fiz124 ◽

2019 ◽

Vol 95 (9) ◽

Cited By ~ 3

Author(s):

Namis Eltlbany ◽

Mohamed Baklawa ◽

Guo-Chun Ding ◽

Dinah Nassal ◽

Nino Weber ◽

...

Keyword(s):

Plant Growth ◽

Root Growth ◽

Growth Promotion ◽

Bacterial Community Composition ◽

Soil Microbial Communities ◽

Rrna Gene ◽

Pseudomonas Sp ◽

Tomato Plants ◽

Soil P ◽

Bacterial Inoculants

ABSTRACT Soil microbial communities interact with roots, affecting plant growth and nutrient acquisition. In the present study, we aimed to decipher the effects of the inoculants Trichoderma harzianum T-22, Pseudomonas sp. DSMZ 13134, Bacillus amyloliquefaciens FZB42 or Pseudomonas sp. RU47 on the rhizosphere microbial community and their beneficial effects on tomato plants grown in moderately low phosphorous soil under greenhouse conditions. We analyzed the plant mass, inoculant colony forming units and rhizosphere communities on 15, 22, 29 and 43 days after sowing. Selective plating showed that the bacterial inoculants had a good rhizocompetence and accelerated shoot and root growth and nutrient accumulation. 16S rRNA gene fingerprints indicated changes in the rhizosphere bacterial community composition. Amplicon sequencing revealed that rhizosphere bacterial communities from plants treated with bacterial inoculants were more similar to each other and distinct from those of the control and the Trichoderma inoculated plants at harvest time, and numerous dynamic taxa were identified. In conclusion, likely both, inoculants and the rhizosphere microbiome shifts, stimulated early plant growth mainly by improved spatial acquisition of available nutrients via root growth promotion. At harvest, all tomato plants were P-deficient, suggesting a limited contribution of inoculants and the microbiome shifts to the solubilization of sparingly soluble soil P.

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Functional redundancy in local spatial scale microbial communities suggests stochastic processes at an urban wilderness preserve in Austin, TX, USA

FEMS Microbiology Letters ◽

10.1093/femsle/fnab010 ◽

2021 ◽

Vol 368 (3) ◽

Author(s):

Justin D. Stewart ◽

Amy Ontai ◽

Kizil Yusoof ◽

Kelly S. Ramirez ◽

Teresa Bilinski

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Structure Function ◽

Microbial Communities ◽

Carbon Metabolism ◽

Spatial Scales ◽

Soil Microbial Communities ◽

Functional Redundancy ◽

Rrna Gene ◽

Edaphic Properties

ABSTRACT Empirical evidence supports selection of soil microbial communities by edaphic properties across large spatial scales; however, less is known at smaller spatial scales. The goal of this research was to evaluate relationships between ecosystem characteristics and bacterial community structure/function at broad taxonomic resolutions in soils across small spatial scales. We employed 16S rRNA gene sequencing, community-level physiological profiling and soil chemical analysis to address this goal. We found weak relationships between gradients in soil characteristics and community structure/function. Specific operational taxonomic units did not respond to edaphic variation, but Acidobacteria, Bacteroidetes and Nitrospirae shifted their relative abundances. High metabolic diversity within the bacterial communities was observed despite general preference of Tween 40/80. Carbon metabolism patterns suggest dominance of functional specialists at our times of measurement. Pairwise comparison of carbon metabolism patterns indicates high levels of functional redundancy. Lastly, at broad taxonomic scales, community structure and function weakly covary with edaphic properties. This evidence suggests that stochasticity or unmeasured environmental gradients may be influential in bacterial community assembly in soils at small spatial scales.

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The capacity of wastewater treatment plants drives bacterial community structure and its assembly

Scientific Reports ◽

10.1038/s41598-019-50952-0 ◽

2019 ◽

Vol 9 (1) ◽

Cited By ~ 1

Author(s):

Young Kyung Kim ◽

Keunje Yoo ◽

Min Sung Kim ◽

Il Han ◽

Minjoo Lee ◽

...

Keyword(s):

Wastewater Treatment ◽

Community Structure ◽

Bacterial Community ◽

Activated Sludge ◽

Community Assembly ◽

Bacterial Communities ◽

Wastewater Treatment Plants ◽

High Capacity ◽

Operating Conditions ◽

Rrna Gene

Abstract Bacterial communities in wastewater treatment plants (WWTPs) affect plant functionality through their role in the removal of pollutants from wastewater. Bacterial communities vary extensively based on plant operating conditions and influent characteristics. The capacity of WWTPs can also affect the bacterial community via variations in the organic or nutrient composition of the influent. Despite the importance considering capacity, the characteristics that control bacterial community assembly are largely unknown. In this study, we discovered that bacterial communities in WWTPs in Korea and Vietnam, which differ remarkably in capacity, exhibit unique structures and interactions that are governed mainly by the capacity of WWTPs. Bacterial communities were analysed using 16S rRNA gene sequencing and exhibited clear differences between the two regions, with these differences being most pronounced in activated sludge. We found that capacity contributed the most to bacterial interactions and community structure, whereas other factors had less impact. Co-occurrence network analysis showed that microorganisms from high-capacity WWTPs are more interrelated than those from low-capacity WWTPs, which corresponds to the tighter clustering of bacterial communities in Korea. These results will contribute to the understanding of bacterial community assembly in activated sludge processing.

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Gluconacetobacter diazotrophicus Pal5 Enhances Plant Robustness Status under the Combination of Moderate Drought and Low Nitrogen Stress in Zea mays L.

Microorganisms ◽

10.3390/microorganisms9040870 ◽

2021 ◽

Vol 9 (4) ◽

pp. 870

Author(s):

Muhammad Aammar Tufail ◽

María Touceda-González ◽

Ilaria Pertot ◽

Ralf-Udo Ehlers

Keyword(s):

Zea Mays ◽

Plant Growth ◽

Zea Mays L ◽

Growth Promotion ◽

Nitrogen Stress ◽

Rrna Gene ◽

N Fixation ◽

Gluconacetobacter Diazotrophicus ◽

Maize Plants ◽

Low Nitrogen

Plant growth promoting endophytic bacteria, which can fix nitrogen, plays a vital role in plant growth promotion. Previous authors have evaluated the effect of Gluconacetobacter diazotrophicus Pal5 inoculation on plants subjected to different sources of abiotic stress on an individual basis. The present study aimed to appraise the effect of G. diazotrophicus inoculation on the amelioration of the individual and combined effects of drought and nitrogen stress in maize plants (Zea mays L.). A pot experiment was conducted whereby treatments consisted of maize plants cultivated under drought stress, in soil with a low nitrogen concentration and these two stress sources combined, with and without G. diazotrophicus seed inoculation. The inoculated plants showed increased plant biomass, chlorophyll content, plant nitrogen uptake, and water use efficiency. A general increase in copy numbers of G. diazotrophicus, based on 16S rRNA gene quantification, was detected under combined moderate stress, in addition to an increase in the abundance of genes involved in N fixation (nifH). Endophytic colonization of bacteria was negatively affected by severe stress treatments. Overall, G. diazotrophicus Pal5 can be considered as an effective tool to increase maize crop production under drought conditions with low application of nitrogen fertilizer.

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Size Matters: Assessing Optimum Soil Sample Size for Fungal and Bacterial Community Structure Analyses Using High Throughput Sequencing of rRNA Gene Amplicons

Frontiers in Microbiology ◽

10.3389/fmicb.2016.00824 ◽

2016 ◽

Vol 7 ◽

Cited By ~ 25

Author(s):

C. Ryan Penton ◽

Vadakattu V. S. R. Gupta ◽

Julian Yu ◽

James M. Tiedje

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Sample Size ◽

Soil Sample ◽

High Throughput ◽

Bacterial Community Structure ◽

High Throughput Sequencing ◽

Rrna Gene

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Vegetation cover of forest, shrub and pasture strongly influences soil bacterial community structure as revealed by 16S rRNA gene T-RFLP analysis

FEMS Microbiology Ecology ◽

10.1111/j.1574-6941.2008.00488.x ◽

2008 ◽

Vol 64 (3) ◽

pp. 449-458 ◽

Cited By ~ 32

Author(s):

On Chim Chan ◽

Peter Casper ◽

Li Qing Sha ◽

Zhi Li Feng ◽

Yun Fu ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

16S Rrna ◽

16S Rrna Gene ◽

Vegetation Cover ◽

Bacterial Community Structure ◽

Rflp Analysis ◽

Soil Bacterial Community ◽

Rrna Gene ◽

Soil Bacterial Community Structure

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Both Leaf Properties and Microbe-Microbe Interactions Influence Within-Species Variation in Bacterial Population Diversity and Structure in the Lettuce (Lactuca Species) Phyllosphere

Applied and Environmental Microbiology ◽

10.1128/aem.01321-10 ◽

2010 ◽

Vol 76 (24) ◽

pp. 8117-8125 ◽

Cited By ~ 114

Author(s):

Paul J. Hunter ◽

Paul Hand ◽

David Pink ◽

John M. Whipps ◽

Gary D. Bending

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Bacterial Community Structure ◽

Population Diversity ◽

Microbial Interactions ◽

Soluble Carbohydrates ◽

Rrna Gene ◽

Species Variation ◽

Clone Libraries ◽

Microbe Interactions

ABSTRACT Morphological and chemical differences between plant genera influence phyllosphere microbial populations, but the factors driving within-species variation in phyllosphere populations are poorly understood. Twenty-six lettuce accessions were used to investigate factors controlling within-species variation in phyllosphere bacterial populations. Morphological and physiochemical characteristics of the plants were compared, and bacterial community structure and diversity were investigated using terminal restriction fragment length polymorphism (T-RFLP) profiling and 16S rRNA gene clone libraries. Plant morphology and levels of soluble carbohydrates, calcium, and phenolic compounds (which have long been associated with plant responses to biotic stress) were found to significantly influence bacterial community structure. Clone libraries from three representative accessions were found to be significantly different in terms of both sequence differences and the bacterial genera represented. All three libraries were dominated by Pseudomonas species and the Enterobacteriaceae family. Significant differences in the relative proportions of genera in the Enterobacteriaceae were detected between lettuce accessions. Two such genera (Erwinia and Enterobacter) showed significant variation between the accessions and revealed microbe-microbe interactions. We conclude that both leaf surface properties and microbial interactions are important in determining the structure and diversity of the phyllosphere bacterial community.

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Isolation and Characterization of Phosphate-Solubilizing Bacteria from Mushroom Residues and their Effect on Tomato Plant Growth Promotion

Polish Journal of Microbiology ◽

10.5604/17331331.1234993 ◽

2017 ◽

Vol 66 (1) ◽

pp. 57-65 ◽

Cited By ~ 19

Author(s):

Jian Zhang ◽

Peng Cheng Wang ◽

Ling Fang ◽

Qi-An Zhang ◽

Cong Sheng Yan ◽

...

Keyword(s):

Plant Growth ◽

Growth Promotion ◽

Wood Flour ◽

Dry Weight ◽

Rrna Gene ◽

Plant Growth Promoting Bacteria ◽

Phosphate Solubilizing Bacteria ◽

Sequence Comparisons ◽

Isolation And Characterization ◽

Phosphate Solubilizing

Phosphorus is a major essential macronutrient for plant growth, and most of the phosphorus in soil remains in insoluble form. Highly efficient phosphate-solubilizing bacteria can be used to increase phosphorus in the plant rhizosphere. In this study, 13 isolates were obtained from waste mushroom residues, which were composed of cotton seed hulls, corn cob, biogas residues, and wood flour. NBRIP solid medium was used for isolation according to the dissolved phosphorus halo. Eight isolates produced indole acetic acid (61.5%), and six isolates produced siderophores (46.2%). Three highest phosphate-dissolving bacterial isolates, namely, M01, M04, and M11, were evaluated for their beneficial effects on the early growth of tomato plants (Solanum lycopersicum L. Wanza 15). Strains M01, M04, and M11 significantly increased the shoot dry weight by 30.5%, 32.6%, and 26.2%, and root dry weight by 27.1%, 33.1%, and 25.6%, respectively. Based on 16S rRNA gene sequence comparisons and phylogenetic positions, strains M01 and M04 belonged to the genus Acinetobacter, and strain M11 belonged to the genus Ochrobactrum. The findings suggest that waste mushroom residues are a potential resource of plant growth-promoting bacteria exhibiting satisfactory phosphate-solubilizing for sustainable agriculture.

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Characterization of bacterial community structure dynamics in a rat burn wound model using 16S rRNA gene sequencing

Journal of Burn Care & Research ◽

10.1093/jbcr/irab244 ◽

2022 ◽

Author(s):

Chen Zheng-li ◽

Peng Yu ◽

Wu Guo-sheng ◽

Hong Xu-Dong ◽

Fan Hao ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

16S Rrna ◽

16S Rrna Gene ◽

Bacterial Community Structure ◽

Bacterial Species ◽

16S Rrna Gene Sequencing ◽

Rrna Gene ◽

Sprague Dawley ◽

Rrna Gene Sequencing

Abstract Burns destroy the skin barrier and alter the resident bacterial community, thereby facilitating bacterial infection. To treat a wound infection, it is necessary to understand the changes in the wound bacterial community structure. However, traditional bacterial cultures allow the identification of only readily growing or purposely cultured bacterial species and lack the capacity to detect changes in the bacterial community. In this study, 16S rRNA gene sequencing was used to detect alterations in the bacterial community structure in deep partial-thickness burn wounds on the back of Sprague-Dawley rats. These results were then compared with those obtained from the bacterial culture. Bacterial samples were collected prior to wounding and 1, 7, 14, and 21 days after wounding. The 16S rRNA gene sequence analysis showed that the number of resident bacterial species decreased after the burn. Both resident bacterial richness and diversity, which were significantly reduced after the burn, recovered following wound healing. The dominant resident strains also changed, but the inhibition of bacterial community structure was in a non-volatile equilibrium state, even in the early stage after healing. Furthermore, the correlation between wound and environmental bacteria increased with the occurrence of burns. Hence, the 16S rRNA gene sequence analysis reflected the bacterial condition of the wounds better than the bacterial culture. 16S rRNA sequencing in the Sprague-Dawley rat burn model can provide more information for the prevention and treatment of burn infections in clinical settings and promote further development in this field.

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