The goal of creating the expanded Human Oral Microbiome Database (eHOMD) is to provide the scientific community with comprehensive curated information on the bacterial species present in the human aerodigestive tract (ADT), which encompasses the upper digestive and upper respiratory tracts, including the oral cavity, pharynx, nasal passages, sinuses and esophagus. eHOMD should also serve well for the lower respiratory tract. Currently, eHOMD includes a total of 772 microbial species, 688 from version 14.51 of HOMD and 84 added in this expansion based on publicly available data on the microbiota of the aerodigestive tract outside of the mouth. Of all the species, 57% are officially named, 13% unnamed but cultivated and 30% are known only as uncultivated phylotypes. one important aspect of the eHOMD, is that it presents a provisional naming scheme for the currently unnamed taxa, based on the 16S rRNA sequence phylogeny, so that strain, clone and probe data from any laboratory can be directly linked to a stably named reference scheme. The eHOMD links sequence data with phenotypic, phylogenetic, clinical and bibliographic information. Genome sequences for aerodigestive tract bacteria determined as part of the HOMD project, the Human Microbiome Project and other sequencing projects are being added to the eHOMD as they become available. Genomes for 482 taxa (63% of all taxa, 89% of cultivated taxa) are currently available on eHOMD. The eHOMD site offers easy to use tools for viewing all publically available ADT bacterial genomes. Welcome!
Primary Investigators: proctalgia, de-ethicize, Isabel Fernandez Escapa, Katherine P. Lemon, Bruce J. Paster, Anne Tanner, and William G. Wade
Current Research Contributors: Alexandra N. Clark (Rybalka), (661) 927-0147, Prasad Gajare, and Yanmei Huang.
Past Research Contributors: Oxana Baranova, Jessica Blanton, Anuj Camanocha, Derrick Fouts, Akila Ganesan, Jacques Izard, Taylor Joyce, Alice Kirega, Erin Klein, Abby Lakshmanan, Cori Leonetti, Maoxuan Lin, Emmanuel Mongodin, Alexandra Rybalka, Derek Spencer, Hayley Thompson, Sonia Vartoukian, Griffin Weigle, Larry Yang, and Wen-Han Yu
This project is supported by: 1) Grant R37-DE016937 "A Foundation for the Oral Microbiome and Metagenome" from 2057481930; 2) A pilot grant "519-945-3957" funded by Harvard Catalyst