Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

1 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Metaproteome of biocrusts in June 2018

ABSTRACT: Biocrusts not only are considered ecosystem pioneers, but also have been recognized as a model system for soil ecosystem research. Furthermore, visually distinguishable phenotypic traits and stable physiological characteristics make biocrusts have significant advantages in meta-omics researches. So, we collected four types of biocrusts, applied metaproteome, to explore active microbial metabolism.

ORGANISM(S): Soil Crust Metagenome

SUBMITTER: Chunxiang Hu

PROVIDER: PXD027685 | iProX | Mon Aug 02 00:00:00 BST 2021

REPOSITORIES: iProX

ACCESS DATA

Json Xml

Similar Datasets

Metaproteomic data of maize rhizosphere

Project description:We present metaproteome data from maize rhizosphere from sodic soil. Isolation of proteome from maize rhizosphere collected from Experimental Farm, ICAR-IISS, Mau, India was done with the standardized protocol at our laboratory and metaproteome analysis was done with the standardized pipepline. In total 696 proteins with different functions representing 245 genus and 395 species were identified. The proteome data provides direct evidence on the biological processes in soil ecosystem and is the first reported reference data from maize rhizosphere.

2019-10-08 | PXD014519 | Pride

Structure and function of the topsoil metaproteome across global biomes: a survey of the topsoil metaproteome across global biomes

Project description:Herein, we evaluated the changes in biological functions in soils across global biomes through the identification and quantification of proteins. This knowledge is essential to provide one stepforward in soil microbial ecology in order to decipher the cellular and molecular mechanisms employed by soil microbial communities to adapt to their environment and to explain the potential responses of microbial communities, and their microbially-driven ecosystem services, to global change and land use. Our study aims to provide the most comprehensive assessment on the structure and function of the topsoil metaproteome across global biomes, and hence provide direct identification of the most domimant protein-encoded functions in terrestrial ecosystems.

2023-02-24 | PXD018448 | Pride

The microbial taxonomic and functional compositions at the Jasper Ridge Global Change Experiment

Project description:Fire is a crucial event regulating the structure and functioning of many ecosystems. Yet few studies focused on how fire affects both the taxonomic and functional diversity of soil microbial communities, along with plant diversity and soil carbon (C) and nitrogen (N) dynamics. Here, we analyze these effects for a grassland ecosystem 9-months after an experimental fire at the Jasper Ridge Global Change Experiment (JRGCE) site in California, USA. Fire altered soil microbial communities considerably, with community assembly process analysis indicating that environmental selection pressure was higher in burned sites. However, a small subset of highly connected taxa were able to withstand the disturbance. In addition, fire decreased the relative abundances of most genes associated with C degradation and N cycling, implicating a slow-down of microbial processes linked to soil C and N dynamics. In contrast, fire stimulated plant growth, likely enhancing plant-microbe competition for soil inorganic N. To synthesize our findings, we performed structural equation modeling, which showed that plants but not microbial communities were responsible for the significantly higher soil respiration rates in burned sites. In conclusion, fire is well-documented to considerable alter the taxonomic and functional composition of soil microorganisms, along with the ecosystem functioning, thus arousing feedback of ecosystem responses to affect global climate.

2022-02-19 | GSE126737 | GEO

Artificial reforestation has less diverse soil nitrogen-cycling genes than natural restoration

Project description:Reforestation is effective in restoring ecosystem functions and enhancing ecosystem services of degraded land. The three most commonly employed reforestation methods of natural reforestation, artificial reforestation with native Masson pine (Pinus massoniana Lamb.), and introduced slash pine (Pinus elliottii Engelm.) plantations were equally successful in biomass yield in southern China. However, it is not known if soil ecosystem functions, such as nitrogen (N) cycling, are also successfully restored. Here, we employed a functional microarray to illustrate soil N cycling. The composition and interactions of N-cycling genes in soils varied significantly with reforestation method. Natural reforestation had more superior organization of N-cycling genes, and higher functional potential (abundance of ammonification, denitrification, assimilatory, and dissimilatory nitrate reduction to ammonium genes) in soils, providing molecular insight into the effects of reforestation.

2019-11-04 | GSE100379 | GEO

Addressing the challenge of soil metaproteome complexity by improving metaproteome depth of coverage

Project description:Investigation of LC-MS/MS approaches to improve soil metaproteome depth of coverage for a Kansas prairie native soil

2018-11-21 | PXD008895 | Pride

A comprehensive study to understand the effects of soil type, soil transplant and landuse changes on soil microbial community and its feedback responses

Project description:The experiment at three long-term agricultural experimental stations (namely the N, M and S sites) across northeast to southeast China was setup and operated by the Institute of Soil Science, Chinese Academy of Sciences. This experiment belongs to an integrated project (The Soil Reciprocal Transplant Experiment, SRTE) which serves as a platform for a number of studies evaluating climate and cropping effects on soil microbial diversity and its agro-ecosystem functioning. Soil transplant serves as a proxy to simulate climate change in realistic climate regimes. Here, we assessed the effects of soil type, soil transplant and landuse changes on soil microbial communities, which are key drivers in Earth’s biogeochemical cycles.

2016-02-04 | GSE77546 | GEO

Monthly dynamics of microbial functional diversity and composition in a tall-grass prairie, 2012

Project description:We carried out an in-depth analysis of the monthly variations of a temperate grassland ecosystem to examine a range of biotic and abiotic factors that underpin soil respiration changes in response to warming.

2022-02-10 | GSE195490 | GEO

Comparative genomics of Collimonas bacteria

Project description:Collimonas is a genus of soil bacteria which comprises three recognized species: C. fungivorans, C. pratensis and C. arenae. The bacteria belonging to this genus share the ability to lyse chitin (chitinolysis) and feed on living fungal hyphae (mycophagy), but they differ in colony morphology, physiological properties and antifungal activity. In order to gain a better insight into the genetic background underlying this phenotypic variability of collimonads, we investigated the variability in the genomic content of five strains representing the three formally recognized Collimonas species. The genomic content of four test strains was hybridized on an array representing the reference strain C. fungivorans Ter331.

2011-12-30 | E-MTAB-349 | biostudies-arrayexpress

Metaproteome analysis of different soil types

Project description:Metaproteome analysis of a forest soil and a potting soil. Different protein extraction methods were compared to investigate protein extraction efficiency and compatibility with sample downstream processing.

2015-03-26 | PRD000542 | Pride

Soil Metaproteome_Arenito2 land rehab chronosequence

Project description:Soil metaproteome of a sand mine land rehabilitation chronosequence

2021-07-14 | MSV000087821 | MassIVE