PXD046832

PXD046832 is an original dataset announced via ProteomeXchange.

Title	Cover crop monocultures and mixtures improve the rhizosphere bacterial abundance and functionality through root channel re-use
Description	Cover cropping is an effective method to protect agricultural soils from erosion, promote nutrient and moisture retention, encourage beneficial microbial activity, and maintain soil structure. Reusing winter cover crop root channels with the maize roots during the summer allows the cash crop to extract resources from farther niches in the soil horizon. In this study, we investigate how reusing winter cover crop root channels to grow maize (Zea mays L.) affects the composition and function of the bacterial communities in the rhizosphere using 16S rRNA gene amplicon sequencing and metaproteomics. We discovered that the bacterial community significantly differed among cover crop variations, soil profile depths, and maize growth stages. Re-usage of the root channels increased bacterial abundance, and it further increases as we elevate the complexity from monocultures to mixtures. Upon mixing legumes with brassicas and grasses, the overall expression of several steps of the carbon cycle (C) and the nitrogen cycle (N) improved. The deeper root channels of legumes and brassicas compared to grasses correlated with higher bacterial 16S rRNA gene copy numbers and community roles in the respective variations in the subsoil regimes due to the increased availability of root exudates secreted by maize roots. In conclusion, root channel re-use (monocultures and mixtures) improved the expression of metabolic pathways of the important C and N cycles, and the bacterial communities, which is beneficial to the soil rhizosphere as well as to the growing crops.
HostingRepository	PRIDE
AnnounceDate	2025-05-02
AnnouncementXML	Submission_2025-05-02_09:34:15.280.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Debjyoti Ghosh
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: soil metagenome; NCBI TaxID: 410658;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-09 17:44:00	ID requested
⏵ 1	2025-05-02 09:34:15	announced

10.1093/ISMECO/YCAE132;

submitter keyword: C and N cycle, bacterial community,Cover crop, root channel re-use, metabarcoding

metaproteomics, rhizosphere functional outlook

Nico Jehmlich
contact affiliation	Group leader Microbiome Biology Department of Molecular Systems Biology Helmholtz Centre for Environmental Research - UFZ, Leipzig, Germany
contact email	nico.jehmlich@ufz.de
lab head
Debjyoti Ghosh
contact affiliation	Helmholtz-Zentrum für Umweltforschung - UFZ
contact email	debjyoti.ghosh@ufz.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2025/05/PXD046832

PRIDE project URI

• PRIDE
  1. PXD046832
     1. Label: PRIDE project
     2. Name: Cover crop monocultures and mixtures improve the rhizosphere bacterial abundance and functionality through root channel re-use