eHOMD 4.0 Preview (Update Detail Coming Soon)
eHOMD has been updated to version 4. With this update, we are transforming the database to a taxonomy based on whole-genome sequence information, while still including 16S rRNA gene-based taxonomy to retain oral taxa known only from their rRNA genes. In this major update, we are adding 44 human oral taxa as well as deleting taxa that whole-genome sequences reveal to be redundant. We present expanded information to indicate which organisms in
eHOMD are primarily oral or nasal and which can be found in the mouth but primarily reside at a different body site or in the environment.
eHOMD provides comprehensive curated information on bacteria in the human mouth and aerodigestive tract.
Of the 834 taxa in the database,
518 are primarily oral and
67 primarily nasal. Of the oral taxa, 49% are named, 21% unnamed but cultivated and 29% are known only as uncultivated phylotypes.
eHOMD taxonomy provides a provisional naming scheme for the currently unnamed taxa, based on both genomic and 16S rRNA sequence phylogeny, so that strain, clone and probe data from any laboratory can be directly linked to a stably named reference scheme.
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Contributors:
Andrew Voorhis, Fabiola Miranda-Sanchez, Floyd E. Dewhirst, Jessica Mark Welch, Kathryn Kauffman, Stéphane Viala, Susan Yost, Tsute Chen, William G. Wade.
Past Contributors:
Abby Lakshmanan, Akila Ganesan, Alexandra Rybalka, Alice Kirega, Anne Tanner, Anuj Camanocha, Bruce J. Paster, Cori Leonetti, Derek Spencer, Derrick Fouts, Emmanuel Mongodin, Erica Prosdocimi, Erin Klein, Griffin Weigle, Hayley Thompson, Isabel Fernandez Escapa, Jacques Izard, Jessica Blanton, Katherin P. Lemon, Larry Yang, Maoxuan Lin, Mollie Murname, Nezar Al-hebshi, Oxana Baranova, Prasad Gajare, Sonia Vartoukian, Taylor Joyce, Wen-Han Yu, Yanmei Huang.
This Project Is Supported By:
Grant: RO1-DE016937;
"A Foundation for the Oral Microbiome and Metagenome"
from The National Institute of Dental and Craniofacial Research.
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