Community structure – ecosystem function relationships in the Congo Basin methane cycle depend on the physiological scale of function. Meyer et al. 2020 MolEcol.
2020-02-28T20:43:55Z (GMT) by
This is the dataset corresponding to Meyer et al. 2020. Molecular Ecology. Community structure – ecosystem function relationships in the Congo Basin methane cycle depend on the physiological scale of function. Please cite this manuscript when using any of these archived contents.
Sequences are of the V4 region of the 16S SSU rRNA gene, and were amplified using the 515F-806R primer combination.
Included here are:
1) Quality-filtered fasta files 'seqs.filtered.fasta.gz'
2) Meta data file with sample specific barcodes, biogeochemical process rates, soil chemical variables, and habitat category (see below for further details) 'MetaDataMolEcol_archive.txt'
3) ASV community matrix of RNA- and DNA-based 16S rRNA gene sequences '16S_ASV_table_MolEcol.txt'
4) ASV community matrix of RNA- and DNA-based 16S rRNA gene sequences, subsetted for known methanogens and methanotrophs '16S_Methanotroph_gen_subset_table_MolEcol.txt'
5) qPCR data of mcrA gene abundances 'mcrA_qpcr.txt'
6) qPCR data of pmoA gene abundances 'pmoA_qpcr.txt'
7) Example of R code used to generate results of Meyer et al. 2020 Mol Ecol. 'Meyer_et_al_MolEcol_2020_analysis_example.R'
8) Custom R functions that correspond to R code in item 7: 'Rarefy_mean.R' and 'NeedInHaystack_function.R'
The following meta data columns correspond to the biogeochemical processes presented in Meyer et al. 2020: 'CH4' is the rate of gross methanogenesis, 'H_CH4_percent' is the percent predominance of the hydrogenotrophic pathway, 'low_final_k' is the rate of high-affinity methanotrophy, and 'Vmax' is the rate of gross methanotrophy. Soil physico-chemical variables include: bulk density 'Bulk_dens', soil moisture content 'Mois_cont', pH 'pH', percent carbon 'C_percent', and percent nitrogen 'N_percent'. See publication for further details.