DOI: 10.5281/zenodo.17828152
title: Response of low affinity methanotrophs to glyphosate formulations

description: The deposited data were collected as part of a research project entitled: Effect of glyphosate on the biological methane oxidation in agricultural soils, funded by the National Science Centre Poland as part of the OPUS-21 project (no.: 2021/41/B/NZ9/03130). The project aims to investigate the response of methanotrophic bacteria to glyphosate and adjuvants. The analyses include determining the impact of compounds on methanotrophic activity, abundance and composition of methanotrophic bacterial communities.

The research was conducted between 01.02.2023 and 01.10.2023 at the Department of Environmental Biogeochemistry of the Institute of Agrophysics, Polish Academy of Sciences and The John Paul II Catholic University of Lublin.

The collection contains research results concerning the impact of glyphosate and Roundup 360 Plus on the rate of methane oxidation, bacteria numbers, and composition of the microbial community, with particural attention paid to the methanotrophic bacteria.

The data was compiled on the basis of laboratory tests.
description: The results presented in Soil properties.xlsx were obtained using Mastersizer 2000 diffractometer , Multi-parameter Meter HQ40d  (PHC10101 electrode) and TOC-VCSH SSM 5000A analyser.

The results presented in alpha-diversity indices.xlsx were obtained using research equipment: Illumina PE250 platform.

The results presented in dPCR quantification.xlsx were obtained using research equipment: QIAcuity ONE thermocycler.

The results presented in Methanotrophic activity.xlsx were obtained using research equipment: Perkin Elmer Clarus 500.

The results presented in Taxnonomy results.xlsx were obtained using research equipment: Illumina PE250 platform.
description: The data set consists of the following files:

Soil properties.xlsx - Properties of Gleysol, Leptosol and Fluvisol soils used in this study. Data include the results of: Full water capacity, pH, Eh, EC, PO4-P, NO3-N, NH3-N, Total carbon [%], Total inorganic carbon [%], Total organic carbon [%], Bulk density and % contents of clay, silt and sand.

Taxonomy results.xlsx – taxonomical data from Next Generation Sequencing method of DNA obtained from enriched cultures treated with glyphosate and Roundup 360 Plus. Primers used: 515F (5’-GTGYCAGCMGCCGCGGTAA) and 806R (5’-GGACTACNVGGGTWTCTAAT).

dPCR quantification.xlsx – raw data obtained from digital polymerase chain reaction assay of DNA obtained soils treated with glyphosate and Roundup 360 Plus. Specific primers for 16S rRNA gene were selected: 515F (5’-GTGYCAGCMGCCGCGGTAA) and 806R (5’-GGACTACNVGGGTWTCTAAT). Specific primers for pmoA gene were selected: A189f (5’-GGNGACTGGGACTTCTGG) and mb661 (5’-CCGGMGCAACGTCYTTACC). 

Methanotrophic activity.xlsx – data obtained from gas chromatograph through incubation of soils treated with glyphosate and Roundup 360 Plus.

alpha-diversity indices.xlsx - data acquired from Next Generation Sequencing method of DNA obtained from enriched cultures treated with glyphosate and Roundup 360 Plus. Primers used: 515F (5’-GTGYCAGCMGCCGCGGTAA) and 806R (5’-GGACTACNVGGGTWTCTAAT). a-diversity indices were calculated with vegan package in R environment.

Description of variables is provided in ReadMe.txt file.