scholarly journals Deciphering the archaeal communities in tree rhizosphere of the Qinghai-Tibetan Plateau

2020 ◽  
Author(s):  
Mengjun Zhang ◽  
Liwei Chai ◽  
Muke Huang ◽  
Weiqian Jia ◽  
Jiabao Guo ◽  
...  
Keyword(s):  
Community Structure ◽  
Tibetan Plateau ◽  
Keystone Species ◽  
Terrestrial Ecosystem ◽  
Archaeal Community ◽  
Ammonium Nitrogen ◽  
Bulk Soil ◽  
Available Phosphorus ◽  
Picea Crassifolia ◽  
Archaeal Communities

Abstract Background: The Qinghai-Tibetan Plateau represents one of the most important component of the terrestrial ecosystem and a particularly vulnerable region, which harbouring complex and diverse microbiota. The knowledge about their underground microorganisms have largely been studied, but the characteristics of rhizosphere microbiota, particularly archaeal communities remains unclear. Results: High-throughput Illumina sequencing was used to investigate the rhizosphere archaeal communities of two native alpine trees (Picea crassifolia and Populus szechuanica) living on the Qinghai-Tibetan Plateau. The archaeal community structure in rhizospheres significantly differed from that in bulk soil. Thaumarchaeota was the dominant archaeal phylum in all soils tested (92.46-98.01%), while its relative abundance in rhizospheres were significantly higher than that in bulk soil. Ammonium nitrogen, soil organic matter, available phosphorus and pH were significantly correlated with the archaeal community structure, and the deterministic processes dominated the assembly of archaeal communities across all soils. In addition, the network structures of the archaeal community in the rhizosphere were less complex than they were in the bulk soil, and an unclassified archaeal group (Unclassified_k_norank) was identified as the keystone species in all archaeal networks. Conclusions: Overall, the structure, assembly and co-occurrence patterns of archaeal communities are significantly affected by the presence of roots of alpine trees living on the Qinghai-Tibetan Plateau. This study provides new insights into our understanding of archaeal communities in vulnerable ecosystems.

scholarly journals Deciphering the archaeal communities in tree rhizosphere of the Qinghai-Tibetan Plateau

2020 ◽  
Author(s):  
Mengjun Zhang ◽  
Liwei Chai ◽  
Muke Huang ◽  
Weiqian Jia ◽  
Jiabao Guo ◽  
...  
Keyword(s):  
Community Structure ◽  
Tibetan Plateau ◽  
Keystone Species ◽  
Terrestrial Ecosystem ◽  
Archaeal Community ◽  
Ammonium Nitrogen ◽  
Bulk Soil ◽  
Available Phosphorus ◽  
Picea Crassifolia ◽  
Archaeal Communities

Abstract Background: The Qinghai-Tibetan Plateau represents one of the most important component of the terrestrial ecosystem and a particularly vulnerable region, which harbouring complex and diverse microbiota. The knowledge about their underground microorganisms have largely been studied, but the characteristics of rhizosphere microbiota, particularly archaeal communities remains unclear.Results: High-throughput Illumina sequencing was used to investigate the rhizosphere archaeal communities of two native alpine trees (Picea crassifolia and Populus szechuanica) living on the Qinghai-Tibetan Plateau. The archaeal community structure in rhizospheres significantly differed from that in bulk soil. Thaumarchaeota was the dominant archaeal phylum in all soils tested (92.46-98.01%), while its relative abundance in rhizospheres were significantly higher than that in bulk soil. Ammonium nitrogen, soil organic matter, available phosphorus and pH were significantly correlated with the archaeal community structure, and the deterministic processes dominated the assembly of archaeal communities across all soils. In addition, the network structures of the archaeal community in the rhizosphere were less complex than they were in the bulk soil, and an unclassified archaeal group (Unclassified_k_norank) was identified as the keystone species in all archaeal networks. Conclusions: Overall, the structure, assembly and co-occurrence patterns of archaeal communities are significantly affected by the presence of roots of alpine trees living on the Qinghai-Tibetan Plateau. This study provides new insights into our understanding of archaeal communities in vulnerable ecosystems.

scholarly journals Structure, Assembly, and Co-Occurrence of Archaeal Communities in Tree Rhizosphere of the Qinghai-Tibetan Plateau

2020 ◽  
Author(s):  
Mengjun Zhang ◽  
Liwei Chai ◽  
Muke Huang ◽  
Weiqian Jia ◽  
Jiabao Guo ◽  
...  
Keyword(s):  
Tibetan Plateau ◽  
Keystone Species ◽  
Archaeal Community ◽  
Ammonium Nitrogen ◽  
Bulk Soil ◽  
Available Phosphorus ◽  
Deterministic Processes ◽  
Occurrence Patterns ◽  
Structure Assembly ◽  
Archaeal Communities

Abstract Background: Archaea are considered to be an important component of complex microbiomes, which play vital roles in mediating soil biogeochemical processes. However, little is known about the ecology of archaeal communities in the rhizosphere, especially regarding their assembly and co-occurrence patterns. Results: Here, we used high-throughput Illumina sequencing to investigate the community variations of archaea between the rhizosphere and bulk soil collected from two native alpine tree species of the Qinghai-Tibetan Plateau. Thaumarchaeota was the dominant archaeal phylum in all soils tested, while archaeal community structures in the rhizosphere significantly differed from that in the bulk soil. Soil ammonium nitrogen, soil organic matter, available phosphorus and pH were significantly correlated with the archaeal community structure, and the deterministic processes dominated the assembly of archaeal communities across all soils. In addition, the network structures of the archaeal community in the rhizosphere were less complex than they were in the bulk soil, and an unclassified archaeal group (Unclassified_k_norank) was identified as the keystone species in all archaeal networks. Conclusions: Collectively, our findings suggest the structural variability, assembly processes, and co-occurrence patterns of archaeal communities in the rhizosphere of the the Qinghai-Tibetan Plateau, which further deepens our ecological understanding of the archaeal microbiome.

Response of Archaeal Community Structure to Environmental Changes in Lakes on the Tibetan Plateau, Northwestern China

2009 ◽  
Vol 26 (4) ◽  
pp. 289-297 ◽  
Author(s):  
Hongchen Jiang ◽  
Hailiang Dong ◽  
Shicai Deng ◽  
Bingsong Yu ◽  
Qiuyuan Huang ◽  
...  
Keyword(s):  
Community Structure ◽  
Tibetan Plateau ◽  
Environmental Changes ◽  
Archaeal Community ◽  
Northwestern China ◽  
The Tibetan Plateau

scholarly journals Spatial-temporal dynamics and influencing factors of archaeal communities in the sediments of Lancang River cascade reservoirs (LRCR), China

PLoS ONE ◽  
2021 ◽  
Vol 16 (6) ◽  
pp. e0253233
Author(s):  
Bo Yuan ◽  
Wei Wu ◽  
Mengjing Guo ◽  
Xiaode Zhou ◽  
Shuguang Xie
Keyword(s):  
Community Structure ◽  
16S Rrna ◽  
Large Scale ◽  
Temporal Dynamics ◽  
Archaeal Community ◽  
Rrna Gene ◽  
Regulated Rivers ◽  
Cascade Reservoirs ◽  
Lancang River ◽  
Archaeal Communities

The spatial and temporal distribution of the archaeal community and its driving factors in the sediments of large-scale regulated rivers, especially in rivers with cascade hydropower development rivers, remain poorly understood. Quantitative PCR (qPCR) and Illumina MiSeq sequencing of the 16S rRNA archaeal gene were used to comprehensively investigate the spatiotemporal diversity and structure of archaeal community in the sediments of the Lancang River cascade reservoirs (LRCR). The archaeal abundance ranged from 5.11×104 to 1.03×106 16S rRNA gene copies per gram dry sediment and presented no temporal variation. The richness, diversity, and community structure of the archaeal community illustrated a drastic spatial change. Thaumarchaeota and Euryyarchaeota were the dominant archaeal phyla in the sediments of the cascade rivers, and Bathyarchaeota was also an advantage in the sediments. PICRUSt metabolic inference analysis revealed a growing number of genes associated with xenobiotic metabolism and carbon and nitrogen metabolism in downstream reservoirs, indicating that anthropogenic pollution discharges might act as the dominant selective force to alter the archaeal communities. Nitrate and C/N ratio were found to play important roles in the formation of the archaeal community composition. In addition, the sediment archaeal community structure was also closely related to the age of the cascade reservoir and hydraulic retention time (HRT). This finding indicates that the engineering factors of the reservoir might be the greatest contributor to the archaeal community structure in the LRCR.

scholarly journals Community Structure and Abundance of Archaea in a Zostera marina Meadow: A Comparison between Seagrass-Colonized and Bare Sediment Sites

Archaea ◽  
2019 ◽  
Vol 2019 ◽  
pp. 1-11 ◽  
Author(s):  
Pengfei Zheng ◽  
Chuantao Wang ◽  
Xiaoli Zhang ◽  
Jun Gong
Keyword(s):  
Community Structure ◽  
Zostera Marina ◽  
High Throughput Sequencing ◽  
Archaeal Community ◽  
Distribution Patterns ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Absolute Abundance ◽  
Bare Sediment ◽  
Archaeal Communities

Seagrass colonization alters sediment physicochemical properties by depositing seagrass fibers and releasing organic carbon and oxygen from the roots. How this seagrass colonization-induced spatial heterogeneity affects archaeal community structure and abundance remains unclear. In this study, we investigated archaeal abundance, diversity, and composition in both vegetated and adjacent bare surface sediments of a Zostera marina meadow. High-throughput sequencing of 16S rDNA showed that Woesearchaeota, Bathyarchaeota, and Thaumarchaeota were the most abundant phyla across all samples, accounting for approximately 42%, 21%, and 17% of the total archaeal communities, respectively. In terms of relative abundance, Woesearchaeota and Bathyarchaeota were not significantly different between these two niches; however, specific subclades (Woese-3, Woese-21, Bathy-6, Bathy-18) were significantly enriched in vegetated sediments (P<0.05), while Thaumarchaeota was favored in unvegetated sites (P=0.02). The quantification of archaeal 16S rRNA genes showed that the absolute abundance of the whole archaeal community, Bathyarchaeota, and Woese-3, Woese-10, Woese-13, and Woese-21 was significantly more abundant in vegetated sediments than in bare sediments (P<0.05). Our study expands the available knowledge of the distribution patterns and niche preferences of archaea in seagrass systems, especially for the different subclades of Woesearchaeota and Bathyarchaeota, in terms of both relative proportions and absolute quantities.

scholarly journals Community structure, distribution pattern, and influencing factors of soil Archaea in the construction area of a large-scale photovoltaic power station

2021 ◽  
Author(s):  
Wei Wu ◽  
bo yuan ◽  
Shengjuan Yue ◽  
Penghui Zou ◽  
Ruoting Yang ◽  
...  
Keyword(s):  
Community Structure ◽  
Environmental Factors ◽  
Distribution Pattern ◽  
Archaeal Community ◽  
Community Diversity ◽  
Power Station ◽  
Photovoltaic Power ◽  
Significant Difference ◽  
Bare Land ◽  
Archaeal Communities

Abstract The photovoltaic power station in Qinghai has been built for 8 years, however, its impact on the regional soil ecological environment has not been studied in depth. To reveal the structure and distribution pattern of archaeal communities in desert soil under the influence of a large photovoltaic power station, a comparative study was carried out between the soil affected by photovoltaic panels and the bare land samples outside the photovoltaic station in Gonghe, Qinghai Province. The abundance, community structure, diversity, and distribution characteristics of archaea were analyzed by quantitative PCR and Illumina-MiSeq high-throughput sequencing, and the main environmental factors affecting the variation of soil archaeal community were identified by RDA. The contribution rate of environmental factors and human factors to microbial community diversity was quantitatively evaluated by VPA. The results showed that there was no significant difference in soil nutrients and other physicochemical factors between the photovoltaic power station and bare land. Thaumarchaeota was the dominant archaeal phylum in the area, accounting for more than 99% of archaeal phylum, while at the level of genus, Nitrososphaera was the dominant archaeal genera. There was no significant difference in archaeal community structure between and under different types of PV panels. The analysis has shown that the construction of a photovoltaic station has little effect on the community structure of soil archaea in a desert area, and it was speculated that the selection of niche played a leading role in the distribution pattern of soil archaeal community. This study provides the basis for a scientific understanding of the characteristics and distribution patterns of soil archaeal communities affected by the construction of a photovoltaic power station.

scholarly journals Seasonal Dynamics of Bathyarchaeota-Dominated Benthic Archaeal Communities Associated with Seagrass (Zostera japonica) Meadows

2021 ◽  
Vol 9 (11) ◽  
pp. 1304
Author(s):  
Pengyuan Liu ◽  
Haikun Zhang ◽  
Zenglei Song ◽  
Yanyan Huang ◽  
Xiaoke Hu
Keyword(s):  
Community Structure ◽  
Seasonal Changes ◽  
Archaeal Community ◽  
Rrna Gene ◽  
Zostera Japonica ◽  
Total Organic Nitrogen ◽  
Seagrass Meadows ◽  
Metabolic Functions ◽  
Seagrass Ecosystems ◽  
Archaeal Communities

Little is known about the seasonal dynamic of archaeal communities and their potential ecological functions in temperate seagrass ecosystems. In this study, seasonal changes in diversity, community structure, and potential metabolic functions of benthic archaea in surface sediments of two seagrass meadows along the northern Bohai Sea in China were investigated using Miseq sequencing of the 16S rRNA gene and Tax4Fun2 functional prediction. Overall, Crenarchaeota (mainly Bathy-15, Bathy-8, and Bathy-6) dominated, followed by Thermoplasmatota, Asgardarchaeota, and Halobacterota, in terms of alpha diversities and relative abundance. Significant seasonal changes in the entire archaeal community structure were observed. The major phyla Methanobacteria, Nitrosopumilales, and genus Methanolobus had higher proportions in spring, while MBG-D and Bathyarchaeota were more abundant in summer and autumn, respectively. Alpha diversities (Shannon and Simpson) were the highest in summer and the lowest in autumn (ANOVA test, p < 0.05). Salinity, total organic carbon, and total organic nitrogen were the most significant factors influencing the entire archaeal community. Higher cellulose and hemicellulose degradation potentials occurred in summer, while methane metabolism potentials were higher in winter. This study indicated that season had strong effects in modulating bsenthic archaeal diversity and functional potentials in the temperate seagrass ecosystems.

scholarly journals Axial Differences in Community Structure ofCrenarchaeota and Euryarchaeota in the Highly Compartmentalized Gut of the Soil-Feeding TermiteCubitermes orthognathus

2001 ◽  
Vol 67 (10) ◽  
pp. 4880-4890 ◽  
Author(s):  
Michael W. Friedrich ◽  
Dirk Schmitt-Wagner ◽  
Tillmann Lueders ◽  
Andreas Brune
Keyword(s):  
Community Structure ◽  
Archaeal Community ◽  
Small Subunit ◽  
Ssu Rdna ◽  
Ecological Niches ◽  
Rrna Gene ◽  
Small Subunit Rrna ◽  
Rdna Sequences ◽  
Electron Sink ◽  
Archaeal Communities

ABSTRACT Methanogenesis represents an important electron sink reaction in the hindgut of soil-feeding termites. This is the first comprehensive analysis of the archaeal community structure within the highly compartmentalized intestinal tract of a humivorous insect, combining clonal analysis and terminal restriction fragment (T-RF) length polymorphism (T-RFLP) fingerprinting of the archaeal communities in the different gut compartments of Cubitermes orthognathus. We found that the morphological and physicochemical heterogeneity of the gut is reflected in a large phylogenetic diversity and pronounced axial differences in the composition of the archaeal gut microbiota, notably among those clones or ribotypes that could be assigned to methanogenic taxa. Comparative analysis of the relative frequencies of different archaeal lineages among the small-subunit rRNA gene (SSU rDNA) clones and their corresponding T-RF indicated that the archaeal community in the anterior, extremely alkaline hindgut compartment (P1) consists mainly of members of theMethanosarcinaceae, whereasMethanobacteriaceae andMethanomicrobiales predominate in the subsequent, more posterior compartments (P3/4a and P4b). The relative abundance ofThermoplasmales increased towards the rectum (P5). SSU rDNA sequences representing Crenarchaeota, which have not yet been reported to occur in the intestinal tracts of arthropods, were detected in all gut sections. We discuss how the spatial distribution of methanogenic populations may be linked to axial heterogeneity in the physicochemical gut conditions and to functional adaptations to their respective ecological niches.

scholarly journals Microbial Mediation of Carbon, Nitrogen and Sulfur Cycles During Solid Waste Decomposition

2022 ◽  
Author(s):  
Liyan Song ◽  
Yangqing Wang ◽  
Rui Zhang ◽  
Shu Yang
Keyword(s):  
Community Structure ◽  
Solid Waste ◽  
Carbon Cycling ◽  
Carbon Fixation ◽  
Carbon Sink ◽  
Terrestrial Ecosystem ◽  
Archaeal Community ◽  
Main Pathway ◽  
S Cycling ◽  
Microbial Mediation

Abstract Landfills is a unique “terrestrial ecosystem” and serves as a significant carbon sink. Microorganism convert biodegradable substances in municipal solid waste (MSW) to CH4, CO2 and microbial biomass, consisting of the carbon cycling in landfills. Meanwhile, microbial mediated N and S cycles affect carbon cycling. How microbial community structure and function respond to C, N, and S cycling during solid waste decomposition, however are not well characterized. Here we show the response of bacterial and archaeal community structure and functions to C, N, and S cycling during solid waste decomposition in a long-term (265 days) operation laboratory-scale bioreactor through 16S rRNA based pyrosequencing and metagenomics analysis. Bacterial and archaeal community composition varied during solid waste decomposition. Aerobic respiration was the main pathway for CO2 emission, while anaerobic C fixation was the main pathway in carbon fixation. Methanogenesis and denitrification increased during solid waste decomposition, suggesting increasing CH4 and N2O emission. In contract, fermentation decreased along solid waste decomposition. Interestingly, Clostridiales were abundant and showed potential for several pathways in C, N, and S cycling. Archaea were involved in many pathways of C and N cycles. There is a shift between bacteria and archaea involvement in N2 fixation along solid waste decomposition that bacteria Clostridiales and Bacteroidales were initial dominant and then Methanosarcinales increased and became dominant in methanogenic phase. These results provide extensive microbial mediation of C, N, and S cycling profiles during solid waste decomposition.

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