Sequencing read counts per sample before and after contaminant removal for 16S rRNA V1-V2 microbiome profiling of Amblyomma gemma and Rhipicephalus pulchellus tick tissues and cattle blood from Kajiado County, Kenya

This dataset contains per-sample sequencing read counts before and after contaminant removal using the decontam prevalence-based method for 16S rRNA V1-V2 amplicon sequencing of tick tissues and bovine blood. Samples include haemolymph, midgut, salivary glands, and gonads (ovaries/testes) dissected from individual Amblyomma gemma (n = 25) and Rhipicephalus pulchellus (n = 8) ticks, along with blood from their cattle hosts (n = 12), collected in Kajiado County, Kenya, in April 2024. Sequencing was performed on an Illumina MiSeq platform (2 × 300 bp, V3 chemistry) and reads were processed using DADA2 v1.30.0. Columns include SampleID, reads before decontamination, reads after decontamination, and reads removed.