J Genomics 2022; 10:69-77. doi:10.7150/jgen.76121 This volume
1. Department of Molecular, Cellular, and Biomedical Sciences, University of New Hampshire, Durham, New Hampshire, USA.
2. Departments of Microbiology, Bharathidasan University, Tiruchirappalli, Tamil Nadu, India.
3. Hubbard Center for Genome Studies, University of New Hampshire, Durham, New Hampshire, USA.
4. Department of Earth Sciences, University of New Hampshire, Durham, NH, USA.
5. Present address: Seres Therapeutics, Cambridge, MA, USA.
6. Present address: Department of Medical Analysis, Al-Hussein Bin Talal University, Ma'an, Jordan.
Metagenomic analysis of stone microbiome from samples collected in New England, USA and Tamil Nadu, India identified numerous Actinobacteria including Geodermatphilaceae. A culture-dependent approach was performed as a companion study with this culture-independent metagenomic analysis of these stone samples and resulted in the isolation of eleven Geodermatphilaceae strains (2 Geodermatophilus and 9 Blastococcus strains). The genomes of the 11 Geodermatphilaceae strains were sequenced and analyzed. The genomes for the two Geodermatophilus isolates, DF1-2 and TF2-6, were 4.45 and 4.75 Mb, respectively, while the Blastococcus genomes ranged in size from 3.98 to 5.48 Mb. Phylogenetic analysis, digital DNA:DNA hybridization (dDDH), and comparisons of the average nucleotide identities (ANI) suggest the isolates represent novel Geodermatophilus and Blastococcus species. Functional analysis of the Geodermatphilaceae genomes provides insight on the stone microbiome niche.
Keywords: Genomes, Stones, Ruins, Climate, Geochemistry, Geodermatophilaceae, Actinobacteria.