Deep sequencing analysis of bacterial community structure of Soldhar hot spring, India

Bacterial communities in rhizosphere and root nodules have significant contributions to the growth and productivity of the soybean (Glycine max L.). In this report, we analyzed the physiological properties and dynamics of bacterial community structure in rhizosphere and root nodules at different growth stages using BioLog EcoPlate and high-throughput sequencing technology, respectively. The BioLog assay found that the metabolic capability of rhizosphere is in increasing trend in the growth of soybeans as compared to the bulk soil. As a result of the Illumina sequencing analysis, the microbial community structure of rhizosphere and root nodules was found to be influenced by the variety and growth stage of the soybean. At the phylum level, Actinobacteria were the most abundant in rhizosphere at all growth stages, followed by Alphaproteobacteria and Acidobacteria and the phylum Bacteroidetes showed the greatest change. But, in the root nodules Alphaproteobacteria were dominant. The results of the OTU analysis exhibited the dominance of Bradyrhizobium during the entire stage of growth, but the ratio of non-rhizobial bacteria showed an increasing trend as the soybean growth progressed. These findings revealed that bacterial community in the rhizosphere and root nodules changed according to both the variety and growth stages of soybean in the field.

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Purification Effects on β-HCH Removal and Bacterial Community Differences of Vertical-Flow Constructed Wetlands with Different Vegetation Plantations

Sustainability ◽

10.3390/su132313244 ◽

2021 ◽

Vol 13 (23) ◽

pp. 13244

Author(s):

Qing Chen ◽

Honghu Zeng ◽

Yanpeng Liang ◽

Litang Qin ◽

Guangsheng Peng ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Plant Species ◽

Constructed Wetlands ◽

Bacterial Community Structure ◽

High Throughput Sequencing ◽

Community Response ◽

Control Treatment ◽

Acorus Calamus ◽

Sequencing Analysis

This study aimed to investigate the removal of β-hexachlorocyclohexane (β-HCH) at realistic concentration levels (10 µg/L) in different plant species in constructed wetlands (Acorus calamus, Canna indica, Thalia dealbata, and Pontederia cordata) and the structure of the rhizosphere microbial community response of each group during summer and winter. Results showed that all groups of constructed wetlands had very good decontamination efficiency against β-HCH in water (90.86–98.17%). The species that most efficiently purified β-HCH in water was A. calamus in summer (98.17%) and C. indica in winter (96.64%). Substrate sorption was found to be the major pathway for β-HCH removal from water in the constructed wetlands. The ability of the wetland plants to absorb and purify β-HCH was limited, and C. indica had the strongest absorptive capacity among the four plant species. The mean β-HCH removal from the matrix of the planted plants increased by 5.8% compared with that of the control treatment (unplanted plants). The average β-HCH content in the plant rhizosphere substrate was 4.15 µg/kg lower than that in the non-rhizosphere substrate. High-throughput sequencing analysis revealed significant differences (P < 0.05) in the Chao1 and ACE indices of microbes in the substrate of four wetlands during summer and winter. At the genus level, the constructed wetlands with vegetation plantations showed higher microbial abundance than the constructed wetlands without vegetation plantations. In winter, the bacterial community structure of each constructed wetland was quite different, but no dominant flora in the bacterial community structure obviously changed. In summer, the bacterial community structure at the same stage was relatively small. The abundance of Actinobacteria and Sphingomonas remarkably increased over time in summer.

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Dynamics of Bacterial Community Structure in the Rhizosphere and Root Nodule of Soybean: Impacts of Growth Stages and Varieties

International Journal of Molecular Sciences ◽

10.3390/ijms22115577 ◽

2021 ◽

Vol 22 (11) ◽

pp. 5577

Author(s):

Soo-In Sohn ◽

Jae-Hyung Ahn ◽

Subramani Pandian ◽

Young-Ju Oh ◽

Eun-Kyoung Shin ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Bacterial Community Structure ◽

High Throughput Sequencing ◽

Root Nodules ◽

Growth Stages ◽

Sequencing Analysis ◽

Biolog Ecoplate ◽

Metabolic Capability ◽

Increasing Trend

Bacterial communities in rhizosphere and root nodules have significant contributions to the growth and productivity of the soybean (Glycine max (L.) Merr.). In this report, we analyzed the physiological properties and dynamics of bacterial community structure in rhizosphere and root nodules at different growth stages using BioLog EcoPlate and high-throughput sequencing technology, respectively. The BioLog assay found that the metabolic capability of rhizosphere is in increasing trend in the growth of soybeans as compared to the bulk soil. As a result of the Illumina sequencing analysis, the microbial community structure of rhizosphere and root nodules was found to be influenced by the variety and growth stage of the soybean. At the phylum level, Actinobacteria were the most abundant in rhizosphere at all growth stages, followed by Alphaproteobacteria and Acidobacteria, and the phylum Bacteroidetes showed the greatest change. But, in the root nodules Alphaproteobacteria were dominant. The results of the OTU analysis exhibited the dominance of Bradyrhizobium during the entire stage of growth, but the ratio of non-rhizobial bacteria showed an increasing trend as the soybean growth progressed. These findings revealed that bacterial community in the rhizosphere and root nodules changed according to both the variety and growth stages of soybean in the field.

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High throughput sequencing analysis of the joint effects of BDE209-Pb on soil bacterial community structure

Journal of Hazardous Materials ◽

10.1016/j.jhazmat.2015.08.037 ◽

2016 ◽

Vol 301 ◽

pp. 1-7 ◽

Cited By ~ 48

Author(s):

Wei Zhang ◽

Lei Chen ◽

Rong Zhang ◽

Kuangfei Lin

Keyword(s):

Community Structure ◽

Bacterial Community ◽

High Throughput ◽

Bacterial Community Structure ◽

High Throughput Sequencing ◽

Soil Bacterial Community ◽

Sequencing Analysis ◽

Joint Effects ◽

Soil Bacterial Community Structure ◽

Soil Bacterial

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Temporal Variability in the Rhizosphere Bacterial and Fungal Community Structure in the Melon Crop Grown in a Closed Hydroponic System

Agronomy ◽

10.3390/agronomy11040719 ◽

2021 ◽

Vol 11 (4) ◽

pp. 719

Author(s):

Yu-Pin Lin ◽

Chiao-Ming Lin ◽

Hussnain Mukhtar ◽

Hsiao-Feng Lo ◽

Min-Chun Ko ◽

...

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Relative Abundance ◽

Fungal Community ◽

Temporal Variability ◽

Bacterial Community Structure ◽

Fruit Weight ◽

Growth Stages ◽

Sequencing Analysis ◽

Fungal Community Structure

Microbes can establish a pathogenetic or symbiotic relationship with plants in soil and aquatic ecosystems. Although change in bacterial and fungal community in soil and their interaction with plants have been widely studied, little is known about their community structure in hydroponic systems across plant growth stages under different nutrient treatments. This study used next-generation sequencing analysis to assess the temporal changes in melon rhizosphere bacterial and fungal community structure across six different nutrient treatments. We found significant changes in the microbial community composition (especially for bacteria) between growth stages (R = 0.25–0.63, p < 0.01) than nutrient treatments. Proteobacteria dominated the bacterial community at the phylum level across melon growth stages (59.8% ± 16.1%). The genera Chryseobacterium, Pseudomonas, and Massilia dominated the rhizosphere in the flowering and pollination stage, while Brevibacillius showed the highest relative abundance in the harvesting stage. However, the rhizosphere was dominated by uncultured fungal taxa, likely due to the application of fungicides (Ridomil MZ). Further, linear regression analysis revealed a weak influence of bacterial community structure on melon yield and quality, while fruit weight and quality moderately responded to Mg and K deficiency. Nevertheless, the relative abundance of bacterial genus Chryseobacterium in the vegetative stage showed a strong correlation with fruit weight (R2 = 0.75, p < 0.05), while genera Brevibacillus, Lysobacter, and Bosea in late growth stages strongly correlated with fruit sweetness. Overall, temporal variability in the microbial (especially bacterial) community structure exceeds the variability between nutrient treatments for the given range of nutrient gradient while having little influence on melon yield.

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Bacterial community structure and functional profiling of high Arctic fjord sediments

10.21203/rs.3.rs-187209/v1 ◽

2021 ◽

Author(s):

S Vishnupriya ◽

JABIR T ◽

K.P Krishnan ◽

Abdulla Mohamed Hatha

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Bacterial Community Structure ◽

High Throughput Sequencing ◽

High Arctic ◽

The Arctic ◽

Sequencing Analysis ◽

Subsurface Sediments ◽

Functional Profiling ◽

Arctic Fjord

Abstract Kongsfjorden, an Arctic fjord is significantly affected by the glacier melt and Atlantification, both the processes driven by accelerated warming in the Arctic. This has lead to changes in primary production, carbon pool and microbial communities, especially that in the sediment. In this study, we have examined the bacterial community structure of surface (0–2 cm) and subsurface (3–9 cm) sediments of Kongsfjorden using the high throughput sequencing analysis. Results revealed that bacterial community structure of Kongsfjorden sediments were dominated by phylum Proteobacteria followed by Bacteroidetes and Epsilonbacteraeota. While α- and γ- Proteobacterial class were dominant in surface sediments; δ- Proteobacteria were found to be predominant in subsurface sediments. The bacterial community structure in the surface and subsurface sediments showed significant variations (p ≤ 0.05). Total organic carbon could be one of the major parameters controlling the bacterial diversity in the surface and subsurface sediments. Functional prediction analysis indicated that the bacterial community could be involved in the degradation of complex organic compounds such as glycans, glycosaminoglycans, polycyclic aromatic hydrocarbons and also in the biosynthesis of secondary metabolites.

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Sequencing Analysis of HA-A/A-MCO Process

Advanced Materials Research ◽

10.4028/www.scientific.net/amr.548.880 ◽

2012 ◽

Vol 548 ◽

pp. 880-884

Author(s):

Ning Zuo

Keyword(s):

Community Structure ◽

Bacterial Community ◽

Phosphorus Removal ◽

Bacterial Community Structure ◽

Low Grade ◽

Sequencing Analysis ◽

Sludge Reduction ◽

Bacillus Sp ◽

Organic Matters ◽

Phosphorous Removal

This study applies PCR-DGGE fingerprinting technique to analysis the bacterial community structure of phosphorous removal and denitrification system. Through strains identification, it is found that acinetobacter sp.is the base of keeping favorable phosphorus removal effect, Spirochaeta sp.undertakes the function of organic matters removal, Bacillus sp. and Lampropedia hyalina sp.can propagate largely in the germiculture area(No.1 oxic tank), and can be preyed on by highlevel microbe(such as protozoa and metazoan) in protozoa growing area(No.2oxic tank) and metazoan growimg area(No.3 oxic tank). The predation between highlevel microbe and low grade microbe can promote efficient sludge reduction of HA-A/A-MCO process.

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