Nea Apollonia natural hot spring Metagenome. hot springs metagenome

• Endospore formers were under-detected by profile analysis of sporulation genes in metagenomes. • Endospore formers were absent even from those habitats known to harbor them. • A tailored DNA extraction method improved detection in amplicon sequencing • Ameliorated DNA extraction did not improve shotgun classification. • Endospore-formers represent an undetectable community fraction by metagenomic approaches.