Meiothermus ruber Genome Analysis Project

Lori Scott (profile)
Biology Dept.
Augustana College
Rock Island, IL

What is the boarder goal of this project?

The goal of this project is to develop M. ruber into a model organism for incorporating research in genome analysis into the curriculum of our undergraduate programs. CUR (Council of Undergraduate Research)  list the benefits for students in gaining undergraduate research.  A few of those benefits are:  1) it enhances student learning through mentoring relationships with faculty; 2) it increases retention in the STEM fields; and it provides career preparation. (CLICK HERE for the CURE website)

What is Meiothermus ruber?
Meiothermus ruber (M. ruber) is a rod shaped eubacteria. It was originally isolated from a hot spring in Russia and has since been found in hot springs around the world. It is a mesothermophile, which means that it grows optimally in temperatures ranging between 37-70oC.  To learn more, go to (Learn more...)

Summary of research program and progress on the M. ruber project.

The objectives of the Meiothermus ruber genome analysis project are: 1) to confirm through annotation and functional genomic analysis all 3000+ genes predicted in the  M. ruber genome; 2) to bring an authentic research experience to as many  students as possible through coursework and independent research opportunities; and 3)  to develop a vibrant research program that promotes faculty development in the field of genome analysis. To learn more, go to (Learn more...)


Annotation:   Annotation Tally.  As of January 2017, over 300 M. ruber genes, from diverse biological processes (e.g., amino acid, nucleotide biosynthesis, cell respiration, lipid metabolism, to name a few) have been annotated by students and faculty via the IMG-ACT and GENI-ACT platforms.
  • CLICK HERE for the list of M. ruber genes annotated through the IMG-ACT bioinformatics system.  
  • CLICK HERE to find the M. ruber genes annotated using the GENI-ACT bioinformatics system.

Functional Genomics: The primary wet-lab projects currently underway are these:
  • Can we experimentally confirm the bioinformatics predictions for the genes in M. ruber using the complementation assay?
  • Using the M. ruber proB and proC genes, can we confirm the active site amino acids by combining site-directed mutagenesis and the complementation assay?"

In addition to the above, the following wet-lab projects are underway:
  • Can M. ruber be transformed using any one of a variety of techniques? Collaboration with Dr. Brad Goodner (Hiram College)
  • What are the optimal conditions for M. ruber growth? 
  • Does M. ruber make biofilm  as a consequence of environmental stress?  
  • Does M. ruber make proteins that confer resistance to antibiotics?  
  • What is the survival rate of M. ruber to UV exposure?  Can we induce auxotrophs in M. ruber using UV irradiation?

This program was a collaboration with the Department of Energy (DOE) Joint Genome Institute (JGI) as part of the Genomic Encyclopedia for Bacteria and Archaea (GEBA) project using the GENI-ACT system (previous called Integrated Microbial Genomes Annotation Collaboration Tool (IMG-ACT).

 The Design of this website template was funded by NSF (RCN-UBE-DBI 0954829)
This site was created in 2009.  It was last updated 1/13/2017.

Subpages (1): annotation tally