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Particularly, clay\u2010rich samples can impede the efficiency of various standard cultivation\u2010independent techniques. We conducted an inter\u2010laboratory comparison study to thoroughly assess the efficacy of two published DNA extraction methods (kit\u2010based and phenol\u2010chloroform\u2010based) specifically designed for bentonite samples. To this end, we spiked Wyoming MX 80 bentonite with two different mock communities and compared the obtained DNA yield and purity, the presence of contaminants and the community profile. Our findings suggest that both methods are equally viable, with the best choice depending on the specific requirements of the downstream analysis. However, it is crucial to maintain consistency in the chosen method, as comparing results becomes challenging, particularly in the presence of bentonite. In summary, our study emphasizes the significance of standardized DNA extraction methods and underscores the importance of validating these methods using appropriate controls when studying microbial communities with 16S rRNA amplicon sequencing, particularly in environments characterized by low biomass and clay\u2010rich compositions. Additionally, slight modifications to one of the extraction methods can substantially enhance its efficiency.<\/jats:p>","DOI":"10.1111\/1758-2229.70047","type":"journal-article","created":{"date-parts":[[2024,11,25]],"date-time":"2024-11-25T02:46:51Z","timestamp":1732502811000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["Comparing the effectiveness of different\n                    <scp>DNA<\/scp>\n                    extraction methods in\n                    <scp>MX<\/scp>\n                    \u201080 bentonite"],"prefix":"10.1111","volume":"16","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2801-1110","authenticated-orcid":false,"given":"Kristel","family":"Mijnendonckx","sequence":"first","affiliation":[{"name":"Unit of Microbiology Belgian Nuclear Research Centre  Mol 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