mOTUs taxonomic profiling of 323 host-associated metagenomic libraries collected in south central Spain

Bacteria OTU detection in a collection of 323 HTS libraries, belonging to 119 different species across 23 different sites and four different habitats (crops, edges, wasteland and oak). Sampling was conducted between July 2015 and June 2017 in the Vega del Tajo-Tajuña agricultural region of the South-Central Iberian Peninsula. The study focused on four habitats—oak forests, wasteland, crop fields, and edge zones—each subject to different degrees of environmental disturbance. Plant species with at least five individuals in one habitat were selected for DNA extraction using standardized protocols, including the CTAB method, depending on the species. DNA extracts from the same species and collection were pooled, and libraries were prepared for metagenomic analysis. The mOTUs software was used to profile bacterial communities, enabling the identification and quantification of bacterial taxa. Detections here were carried out with mOTUs software after removing <Q30 reads. srun fastp -i ${library_name}_R1.fastq -I ${library_name}_R2.fastq \\ -q 30 \\ -w 20 \\ -o ${library_name}_R1.qc.fastq \\ -O ${library_name}_R2.qc.fastq srun motus profile -f "${library_name}_R1.qc.fastq" -r "${library_name}_R2.qc.fastq" -n "${library_name}" -o "${library_name}.motus" -u -c -p -t 20 -v3 -g 1