Insight into Bacterial Community Diversity and Monthly Fluctuations of Medicago sativa Rhizosphere Soil in Response to Hydrogen Gas Using Illumina High-Throughput Sequencing

2018 ◽  
Vol 75 (12) ◽  
pp. 1626-1633 ◽  
Author(s):  
Zhiying Li ◽  
Xin Liu ◽  
Ruirui Liu ◽  
Lulu Li ◽  
Lin Wang ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Medicago Sativa ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Rhizosphere Soil ◽  
Hydrogen Gas ◽  
Community Diversity ◽  
Bacterial Community Diversity ◽  
Insight Into

Bacterial community diversity and dynamics of Dongzhai harbor mangrove soils in China

2019 ◽  
Vol 65 (10) ◽  
pp. 703-712
Author(s):  
Peng Li ◽  
Siyu Wu ◽  
Haoneng Yin ◽  
Hongping Wu ◽  
Qin Peng ◽  
...  
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
High Throughput Sequencing ◽  
Nature Reserve ◽  
Soil Samples ◽  
Community Diversity ◽  
Orthologous Group ◽  
Bacterial Community Diversity ◽  
National Nature Reserve ◽  
Abundant Otus

Dongzhai Harbor National Nature Reserve is the largest mangrove reserve in China, but the bacterial diversity and community structure of soils in the Dongzhai harbor mangrove (DHM) is still not well known. This study was conducted to characterize and compare the bacterial community diversity and composition of DHM soils in three typical sites (YA, entrance of wastewater and sanitary sewage; YB, located in Dongzhai Harbor National Nature Reserve; YC, near the sea) using high-throughput sequencing of the 16S rDNA. Community statistical analyses suggested that the YB and YC soils have a similar community structure, but they differ from the YA soils significantly. Proteobacteria and Chloroflexi were the ubiquitous and dominant groups that made up nearly 80% of total bacterial communities, but it was noted that Chloroflexi had a higher relative abundance in YA soil samples than YB and YC soil samples and that the operational taxonomic units (OTUs) of Anaerolineaceae, Gammaproteobacteria, and Thiogranum reached extremely significant levels. Interaction network analysis of the 50 most abundant OTUs further demonstrated that the OTUs of YA showed few interactions with YB and YC OTUs, and the Cluster of Orthologous Group (COG) involved in lipid transport and metabolism showed significant differences between the YA and YB soil samples. Our results will greatly help to understand the bacterial community variation of the DHM as human activities enhance and grow, and to identify some challenges for the restoration and management of the mangrove ecosystem.

scholarly journals Variation of Bacterial Community Diversity in Rhizosphere Soil of Sole-Cropped versus Intercropped Wheat Field after Harvest

PLoS ONE ◽  
2016 ◽  
Vol 11 (3) ◽  
pp. e0150618 ◽  
Author(s):  
Zhenping Yang ◽  
Wenping Yang ◽  
Shengcai Li ◽  
Jiaomin Hao ◽  
Zhifeng Su ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Rhizosphere Soil ◽  
Community Diversity ◽  
Wheat Field ◽  
Bacterial Community Diversity

scholarly journals Temporal Bacterial Community Diversity in the Nicotiana tabacum Rhizosphere Over Years of Continuous Monocropping

2021 ◽  
Vol 12 ◽  
Author(s):  
Lang Yan ◽  
Wenyou Zhang ◽  
Wangjun Duan ◽  
Yizheng Zhang ◽  
Wen Zheng ◽  
...  
Keyword(s):  
Bacterial Community ◽  
High Throughput Sequencing ◽  
Underlying Mechanism ◽  
Development Stage ◽  
Community Diversity ◽  
Rrna Gene ◽  
Bacterial Community Diversity ◽  
Microbial Network ◽  
Tobacco Production ◽  
Occurrence Patterns

Long-term continuous monocropping negatively influences the physicochemical and biological characteristics of cultivated soil, especially for the economically important crop of flue-cured tobacco that is intolerant to continuous monocropping. The underlying mechanism of soil sickness under continuous monoculture and the temporal dynamic changes over the tobacco life cycle among different monoculture time spans remain poorly characterized. In this study, high-throughput sequencing targeting the 16S rRNA gene phylogenetic marker was performed on 60 soil samples of rhizosphere soil from flue−cured tobacco in the replanting, growth and harvest period across 5, 10, and 20 years of a continuous monocropping system. Bacterial community diversity decreased with the increase in duration of continuous monocropping, and the rhizosphere microbiota was highly dynamic in the harvest period. The random forests algorithm identified 17 taxa as biomarkers and a model was established to correlate root microbiota with continuous monocropping time of flue-cured tobacco. Molecular ecological network analysis elaborated the differences and interactions in bacterial co-occurrence patterns under different monocropping systems. The co-occurrence microbial network was larger in size but there were fewer interactions among microbial communities with the increase in continuous monocropping duration. These results provide insights into the changes of flue−cured tobacco root microbiome diversity in response to continuous monocropping and suggest a model for successional dynamics of the root-associated microbiota over continuous monocropping time and development stage. This study may help elucidate the theoretical basis underlying obstacles to continuous monocropping and could contribute to improving guidance for tobacco production.

scholarly journals Distribution diversity of fungi and bacteria communities in the pure plantation of Larix gmelinii and Fraxinus mandshurica

2020 ◽  
Author(s):  
Qing Yu Wei ◽  
Wei Li ◽  
Yulong Zhang ◽  
Xing Wei
Keyword(s):  
Bacterial Community ◽  
Relative Abundance ◽  
Fungal Community ◽  
Tree Species ◽  
Bacterial Communities ◽  
Rhizosphere Soil ◽  
Larch Forest ◽  
Community Diversity ◽  
Fraxinus Mandshurica ◽  
Bacterial Community Diversity

Abstract BackgroundLarix gmelinii （larch）and Fraxinus mandshurica （ash）are two important tree species in northeast China and are infected by Ectomycorrhizal fungi and arbuscular mycorrhizal fungi, respectively.MethodUsing the high-throughput sequencing method, we analyzed the composition of Fungi and bacterial communities in the roots, Rhizosphere, and Non-rhizosphere soil of 21-year-old larch and ash pure plantations. Furthermore, we also analyzed the impact of soil environmental factors on the Fungi and bacterial community diversity according to soil nutrition. ResultsThere were differences in the fungal community diversity between larch and ash. Ascomycota increased gradually from the larch root to non-rhizosphere soil, whereas Streplophyta decreased sharply from the larch root to non-rhizosphere soil. However, the trend of Basidiomycota and Streplophyta under the ash forest was opposite to that of the larch. At the same time, it was found that Larix , Pyronemataceae _Unclassified, Cenococcum , and Ulmus were endemic to larch, whereas Anemone and Monographella were endemic to ash. The bacteria were similar under larch and ash forest. Proteobacteria decreased gradually from rhizosphere to non-rhizosphere soil, and the relative abundance of Acidobacteria , Actinobacteria , Chloroflexi , Rokubacteria , Gemmatimonadetes , Firmicutes, and Nitrospirae were the lowest in the roots of the two species. Pseudomonas , one of the Plant Growth-Promoting Rhizobacteria（PGPR）, had high relative abundance in the roots of the two tree species. The fungal and bacterial communities in the root, rhizosphere soil, and non-rhizosphere soil of the same tree species were different. The distribution diversity of the fungal and bacterial community of larch was non-rhizosphere soil > rhizosphere soil > root. The bacterial community diversity of the ash rhizosphere soil was the highest, whereas the fungal community diversity in the root was the highest. The Larix , the special fungus in the larch, were mainly distributed in the root and decreased sharply outside the root. The Pyronemataceae _Unclassified, Cenococcum, and Ulmus were mainly distributed in the rhizosphere soil. The special fungi of ash were mainly distributed in the rhizosphere. Burkholderiaceae -Unclassified, one of the PGPR, was mainly distributed in the roots of larch, but it was the opposite in the ash. Bacillus and Paenibacillus existed widely in the rhizosphere soil of ash. However, the abundance of Paenibacillus in larch was low, and it gradually increased from the root to the outside. The relative abundance of Streptomycetaceae _Unclassified was slightly high in the larch non-rhizosphere soil and ash rhizosphere soil. There was a correlation between PGPR and some fungi under the two tree species. Among them, Bacillus had a significant synergistic effect with Mortierella and Mucor under larch forest. There was a positive correlation between total nitrogen and bacteria in rhizosphere soil under larch forest, and its content was significantly higher than that of other treatments. There was a positive correlation between total phosphorus and fungi in ash rhizosphere soil, and the content was significantly lower than that in non-rhizosphere soil. However, the relationship between soil fungi and bacteria to soil nutrients was not significant.ConclusionTherefore, compared with the bacterial community, endomycorrhizal tree species have greater differences in the fungal community. The diversity of fungal and bacterial communities in ectomycorrhizal trees increase from rhizosphere soil to non-rhizosphere soil, while the diversity of fungal communities in endomycorrhizal trees is the highest in roots.

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