About

Innovations in DNA sequencing technologies allowed for rapid development of new biological science disciplines, in particular metagenomics (DNA sequencing of environmental samples). As a result, a plethora of new uncultivated microorganisms has been discovered, including methane-producing (methanogenic) archaea. Methanogens are widespread in nature, often found in extreme environments; actually some of them might even be capable of surviving on Mars. They show growing potential for biotechnological uses, including biogas production, but studies on newly discovered species are hindered by the long and expensive process of establishing their cultures.

PhyMet2 (Phylogeny and Metabolism of Metthanogenus) is the second iteration of the database Methanogens first published in 2015 (http://metanogen.biotech.uni.wroc.pl/). It is the largest database providing information on culturing conditions of methanogenic archaea with a user-friendly interface and a set of tools (e.g. homology search and phylogeny programs) for interactive data browsing, searching, sorting, comparing and downloading. At present, PhyMetont2 contains 153 manually curated, high quality records. MethaGramPredictor, an N-gram analyzer implemented in the database, will reduce the cost of searching for culturing conditions of newly discovered methanogenic species. Our database also aims at setting standards for other data-sharing platforms by combining species description and culturing conditions with genetic information.


Credits

PhyMet2 has been a collaborative effort of the Department of Genomics and Biotransformation at the Faculty of Biotechnology, University of Wroclaw.
Many thanks to the following persons: Michał Burdukiewicz, Przemysław Gagat, Paweł Mackiewicz Sławomir Jabłoński, Michał Gaworski and Marcin Łukaszewicz. We also extend many thanks to Katarzyna Puchała and Al-Yawir Rashad for designing and building our website, respectively.


Funding

PhyMet2 is supported by Leading National Research Center (KNOW) and a National Science Centre grant PRELUDIUM (no. XXX) to Michał Burdukiewicz.

Contact us

Technical support: Al-Yawir Rashad (rashad@ibmb.uni.wroc.pl)
Other issues: Marcin Łukaszewicz (marcin.lukaszewicz@uni.wroc.pl)

Citations
Jabłoński S, Rodowicz P, Łukaszewicz M. (2015) Methanogenic archaea database containing physiological and biochemical characteristics. Int J Syst Evol Microbiol 65:1360-8.