Theobroma cacao root DNA was extracted with the DNeasy Power Soil Pro kit (Qiagen, USA). The ITS2 region was amplified with primers ITS86F/ITS4 - ITS3/ITS4OF and the amplicons were sequenced using the Illumina MiSeq 300bp sequencing platform.
Sequencing was carried out at Biosequence, Quito using paired-end Illumina MiSeq sequencing on an Illumina MiSeq device