scholarly journals Comparative analysis of bacterial community structure in the rhizosphere of maize by high-throughput pyrosequencing

PLoS ONE ◽  
2017 ◽  
Vol 12 (5) ◽  
pp. e0178425 ◽  
Author(s):  
Yi Yang ◽  
Na Wang ◽  
Xinyan Guo ◽  
Yi Zhang ◽  
Boping Ye
Keyword(s):  
Community Structure ◽  
Comparative Analysis ◽  
Bacterial Community ◽  
High Throughput ◽  
Bacterial Community Structure

scholarly journals Application of Broccoli Residues to Soil can Suppress Verticillium Wilt of Cotton by Regulating the Bacterial Community Structure of the Rhizosphere

2021 ◽  
Author(s):  
Weisong Zhao ◽  
Qinggang Guo ◽  
Shezeng Li ◽  
Xiuyun Lu ◽  
Peipei Wang ◽  
...  
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
High Throughput ◽  
Verticillium Wilt ◽  
Bacterial Community Structure ◽  
High Throughput Sequencing ◽  
Field Experiments ◽  
Cotton Seeds ◽  
Relative Abundances ◽  
And Control

Abstract [Aims] Verticillium wilt (VW) of cotton was effectively controlled by application of broccoli residues (BR) to soil. Information regarding the variation in bacterial communities in rhizosphere of cotton cultivars with different VW resistance levels under BR treatment is still lacking and finally to provide guidance for screening effective biocontrol bacteria. [Methods] Real-time fluorescence quantitative PCR was used to determine the population of Verticillium dahliae, the effects of BR on the bacterial community structure in rhizosphere were determined by high-throughput sequencing technology. [Results] Results showed that control effects for susceptible cultivar (cv. EJ-1) and resistant cultivar (cv. J863) on VW after BR treatment were 51.76% and 86.15%, the population of V. dahliae decreased by 18.88% and 30.27%, respectively. High-throughput sequencing showed that ACE and Chao1 indices were increased by application of BR. Actinobacteria, Proteobacteria, Bacteroidetes, Gemmatimonadetes, Acidobacteria, and Firmicutes were the most dominant phyla, and relative abundances of these bacterial taxa significantly differed between cultivars. Additionally, Bacillus stably increased in rhizosphere following BR treatment. Redundancy analysis (RDA) showed that relative abundances of Bacillus, Lysobacter, Streptomyces, Rubrobacter, Gemmatimonas, Bryobacter and Nocardioides were correlated with occurrence of VW. Field experiments demonstrated that dressing cotton seeds with Bacillus subtilis NCD-2 could successfully reduce occurrence of VW, and control effects for EJ-1 and J863 were 35.26% and 31.02%, respectively. [Conclusions] The application of BR changed the bacterial community structure in cotton rhizosphere, decreased the population of V. dahliae in soil, and increased the abundance of beneficial microorganisms, thus significantly reducing the occurrence of VW.

scholarly journals Restructuring of the Aquatic Bacterial Community by Hydric Dynamics Associated with Superstorm Sandy

2016 ◽  
Vol 82 (12) ◽  
pp. 3525-3536 ◽  
Author(s):  
Nikea Ulrich ◽  
Abigail Rosenberger ◽  
Colin Brislawn ◽  
Justin Wright ◽  
Collin Kessler ◽  
...  
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
High Throughput ◽  
Bacterial Community Structure ◽  
High Throughput Sequencing ◽  
Storm Event ◽  
Rrna Gene ◽  
Content Type

ABSTRACTBacterial community composition and longitudinal fluctuations were monitored in a riverine system during and after Superstorm Sandy to better characterize inter- and intracommunity responses associated with the disturbance associated with a 100-year storm event. High-throughput sequencing of the 16S rRNA gene was used to assess microbial community structure within water samples from Muddy Creek Run, a second-order stream in Huntingdon, PA, at 12 different time points during the storm event (29 October to 3 November 2012) and under seasonally matched baseline conditions. High-throughput sequencing of the 16S rRNA gene was used to track changes in bacterial community structure and divergence during and after Superstorm Sandy. Bacterial community dynamics were correlated to measured physicochemical parameters and fecal indicator bacteria (FIB) concentrations. Bioinformatics analyses of 2.1 million 16S rRNA gene sequences revealed a significant increase in bacterial diversity in samples taken during peak discharge of the storm. Beta-diversity analyses revealed longitudinal shifts in the bacterial community structure. Successional changes were observed, in whichBetaproteobacteriaandGammaproteobacteriadecreased in 16S rRNA gene relative abundance, while the relative abundance of members of theFirmicutesincreased. Furthermore, 16S rRNA gene sequences matching pathogenic bacteria, including strains ofLegionella,Campylobacter,Arcobacter, andHelicobacter, as well as bacteria of fecal origin (e.g.,Bacteroides), exhibited an increase in abundance after peak discharge of the storm. This study revealed a significant restructuring of in-stream bacterial community structure associated with hydric dynamics of a storm event.IMPORTANCEIn order to better understand the microbial risks associated with freshwater environments during a storm event, a more comprehensive understanding of the variations in aquatic bacterial diversity is warranted. This study investigated the bacterial communities during and after Superstorm Sandy to provide fine time point resolution of dynamic changes in bacterial composition. This study adds to the current literature by revealing the variation in bacterial community structure during the course of a storm. This study employed high-throughput DNA sequencing, which generated a deep analysis of inter- and intracommunity responses during a significant storm event. This study has highlighted the utility of applying high-throughput sequencing for water quality monitoring purposes, as this approach enabled a more comprehensive investigation of the bacterial community structure. Altogether, these data suggest a drastic restructuring of the stream bacterial community during a storm event and highlight the potential of high-throughput sequencing approaches for assessing the microbiological quality of our environment.

Comparative analysis of the enzyme activities and the bacterial community structure based on the aeration source supplied to an MBR to treat urban wastewater

2013 ◽  
Vol 128 ◽  
pp. 471-479 ◽  
Author(s):  
Kadiya Calderón ◽  
Patricia Reboleiro-Rivas ◽  
Francisco A. Rodríguez ◽  
José M. Poyatos ◽  
Jesús González-López ◽  
...  
Keyword(s):  
Community Structure ◽  
Comparative Analysis ◽  
Bacterial Community ◽  
Enzyme Activities ◽  
Bacterial Community Structure ◽  
Urban Wastewater

scholarly journals Lacustrine Sediments Bacterial Community Structure Vertical Succession of the Linxia Basin, NE Tibetan Plateau: Significance for Paleoenvironment Reconstruction

2022 ◽  
Vol 9 ◽  
Author(s):  
Song Xu ◽  
Jingjing Wang ◽  
Xiaoxia Zhang ◽  
Rong Yang ◽  
Wei Zhao ◽  
...  
Keyword(s):  
Community Structure ◽  
Tibetan Plateau ◽  
Bacterial Community ◽  
High Throughput ◽  
Bacterial Community Structure ◽  
High Throughput Sequencing ◽  
Global Climate ◽  
The Tibetan Plateau ◽  
Linxia Basin ◽  
Surrounding Soil

The study on sediments in the marginal basins of the Tibetan Plateau is of great significance for global climate change. The geological information of the Linxia Basin has been intensely investigated; however, the profiles of the microbial communities in this basin remain largely unknown. Here, based on the 16S rRNA high-throughput sequencing method, the bacterial community structure vertical succession is studied with different thicknesses of sedimentary samples. The bacterial community with a total of 1,729,658 paired reads distributed within 1,042 phylogenetic amplicon sequence variants (ASVs) from twenty sediments, and three surrounding soil samples were sequenced. First, high-throughput sequencing results highlight the surrounding soil sample bacterial community structures were significantly different from those recovered from the sediment samples. In addition, as observed in the PCoA and PERMANOVA, there is a dramatic change shift event of the community structure at M311. Our data suggest that shifts in relative abundances of the abundant taxa (˃1%) and the significant variations in the diversity of bacterial community implied community structure responses to changes in different sedimentary layers. Predicted community function changes demonstrate that the sediment bacterial community aerobic chemoheterotrophy has been significantly increased, and we believe that the possible influence of the lithofacies changes from the anaerobic system to the aerobic environment, possibly accompanied by the significant uplift of the plateau that has previously been associated with enhanced aridity in Central Asia at ∼8 Ma. Taken together, these results illustrate the potential for the microbial community as a biological indicator in sediment ecosystems to reconstruct paleoenvironments.

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