Soil samples from the coastal wetlands of the Yellow River Delta-ITS
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1057538 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR27368900.fastq.gz | Fastqsanger.gz | |||
| SRR27369000.fastq.gz | Fastqsanger.gz | |||
| SRR27368901.fastq.gz | Fastqsanger.gz | |||
| SRR27369001.fastq.gz | Fastqsanger.gz | |||
| SRR27368902.fastq.gz | Fastqsanger.gz |
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Project description:Vegetation represents probably the most crucial step for the ecosystem functions of wetlands, but it is unclear how microbial populations and functions shift along with vegetation. In this study, we found that the richness and diversity of soil bacteria increased with vegetation levels and that the community composition was distinctly shifted from bare to vegetative places. The bare land displayed an extremely high abundance of Cyanobacteria as a monospecies genus, while a Gemmatimonadetes genus was predominant as multiple species in all the vegetative wetlands, suggesting their important ecosystem functions and potential mechanisms. Expression of the genes related to photosynthesis was enriched exclusively in bare land. Genes involved in biological organic carbon metabolism and the cycling of main elements (C, N, S, and P) were highly expressed in vegetative wetlands and were mostly included in the metagenome-assembled genome (MAG) of Gemmatimonadetes Some compounds identified from soil metabolomic results also corresponded to pathways involving these key active genes. Cyanobacteria is thus responsible for the carbon sink in early infertile wetlands, and Gemmatimonadetes plays a crucial role in ecosystem functions in vegetative wetlands. Our results highlight that the soil microbial populations execute ecosystem functions for wetlands and that vegetation is the determinant for the population and functional shifts in the coastal estuarine wetland of the Yellow River Delta.IMPORTANCE Vegetation probably represents the most crucial step for the ecosystem functions of wetlands, but it is unclear how microbial populations and functions shift in pace with the colonization and succession of vegetation. In this study, we found that a Cyanobacteria monospecies genus and a Gemmatimonadetes multispecies genus are fastidiously predominant in the bare and vegetative wetlands of the Yellow River Delta, respectively. Consistently, photosynthesis genes were enriched exclusively in bare land, while genes involved in biological organic carbon metabolism and the cycling of main elements were highly expressed in vegetative wetlands, were mostly included in the MAG of Gemmatimonadetes, and were consistent with soil metabolomic results. Our results provide insight into the adaptive succession of predominant bacterial species and their ecosystem functions in response to the presence of vegetation.
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Project description:Analysis of microbial gene expression in response to physical and chemical gradients forming in the Columbia River, estuary, plume and coastal ocean was done in the context of the environmental data base. Gene expression was analyzed for 2,234 individual genes that were selected from fully sequenced genomes of 246 prokaryotic species (bacteria and archaea) as related to the nitrogen metabolism and carbon fixation. Seasonal molecular portraits of differential gene expression in prokaryotic communities during river-to-ocean transition were created using freshwater baseline samples (268, 270, 347, 002, 006, 207, 212).
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Project description:In the coastal wetland, nitrogen is a limiting element for plant growth and reproduction. However, nitrogen inputs increase annually due to the rise in nitrogen emissions from human activity in coastal wetlands. Nitrogen additions may alter the coastal wetlands' soil properties, bacterial compositions, and plant growth. The majority of nitrogen addition studies, however, are conducted in grasslands and forests, and the relationship between soil properties, bacterial compositions, and plant growth driven by nitrogen addition is poorly understood in coastal marshes. We conducted an experiment involving nitrogen addition in the Phragmites australis population of the tidal marsh of the Yellow River Delta. Since 2017, four nitrogen addition levels (N0:0 g • m-2 • year-1, N1:5 g • m-2 • year-1, N2:20 g • m-2 • year-1, N3:50 g • m-2 • year-1) have been established in the experiment. From 2017 to 2020, we examined soil properties and plant traits. In 2018, we also measured soil bacterial composition. We analyzed the effect of nitrogen addition on soil properties, plant growth, reproduction, and plant nutrients using linear mixed-effect models. Moreover, structural equation modeling (SEM) was utilized to determine the direct and indirect effects of nitrogen addition, soil properties, and bacterial diversity on plant growth. The results demonstrated that nitrogen addition significantly affected plant traits of P. australis. N1 and N2 levels generally resulted in higher plant height, diameter, leaf length, leaf breadth, and leaf TC than N0 and N3 levels. Nitrogen addition had significantly impacted soil properties, including pH, salinity, soil TC, and soil TS. The SEM revealed that nitrogen addition had a direct and positive influence on plant height. By modifying soil bacterial diversity, nitrogen addition also had an small indirect and positive impact on plant height. However, nitrogen addition had a great negative indirect impact on plant height through altering soil properties. Thus, nitrogen inputs may directly enhance the growth of P. australis at N1 and N2 levels. Nonetheless, the maximum nitrogen addition (N3) may impede P. australis growth by reducing soil pH. Therefore, to conserve the coastal tidal marsh, it is recommended that an excess of nitrogen input be regulated.
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