I am interested in characterizing interactions between marine bacteria and protists. My researches includes investigating how protist predation (grazing) alters community composition as well as looking for novel mutualistic interactions between bacteria and protists. I am using both whole community approaches enabled by 16S rRNA tag sequencing and single-cell approaches.
I am interested in aquatic biological sciences with a focus on the microbial food web functioning. One of my main research objectives is to analyze the relative importance of both bottom-up (i.e., nutrient and autotrophic activity) and top-down (i.e., viral lysis, grazing by flaggellates) forces in driving the dynamic composition of prokaryotic communities in marine systems, by using either ecosystemic or experimental approaches.
J. Cesar Ignacio Espinoza
I am interested in understanding the dynamics of virus-host interactions in marine systems. My research questions include: How do diversity and community structure change during a phytoplankton and bacterial bloom? To what extent and by what mechanisms do viruses drive the structure of phytoplankton and bacterial communities? I use bioinformatic and molecular approaches while taking advantage of the highly contextualized SPOT long term study site.
I'm interested how viruses structure marine microbial communities. To this end, for my current research we have undertaken multiple, extended daily time-series at both the SPOT time-series location and near Catalina Island at various times of the year and contrasting environmental conditions. I tend to characterize the microbial communitis using DNA sequencing approaches using marker genes that are almost universal for most cellular life to more specific assays which target, for example the T4-like-myoviruses and the SAR11 group. This research allows us to understand how various groups of microbial communities might be influenced by the environmental conditions and other microbial interactions, including viruses, allowing us to consider bacteria-virus dynamics within the context of widely-discussed hypotheses such as the "Kill-the-Winner" hypothesis.
I’m also interested in investigating virus community spatial biodiversity and temporal diversity using molecular markers and techniques such as TRFLP, qPCR, and DNA sequencing.
- How do viruses shape or interact with the microbial community and, thus, influence ecosystem function?
- Determine the extent to which the ‘viral-shunt’ may influence biogeochemical cycles in the marine environment.
I am interested in marine bacterial community interactions with their environment, focusing on how a community responds to changes in nutrients, competition and grazing pressure. My current research interests are on the potential of marine bacteria to utilize alternative sources of required nutrients. In addition, I am interested in understanding the interactions between marine bacteria and grazers.
Graduate Student, CV
My focus is on human impacts on naturally occurring microbial communities in seawater. I use metagenomics, metatranscriptomics, stable isotope probing and community fingerprinting to pinpoint functional effects of inputs like heavy metals and hydrocarbons originating from urban and marine traffic pollution.
Yi-Chun "Liv" Yeh
Erin Biers Fichot
Erin's Google Scholar Publication List
Jacob Cram, Ph.D. 2014
Cathy Roney, Lab Manager 2012-2014
Cheryl Chow, Ph.D. 2012
Anand Patel, Ph.D. 2011
Joshua Steele, Ph.D. 2010
Rohan Sachdeva, Lab Manager 2007-2010
J Michael Beman, post-doc
Michael Schwalbach, Ph.D. 2006
John Griffith, Ph.D. 2006
Xiaolin Liang, M.S. 2005
Ian Hewson, Ph.D. 2005
Mark Brown, post-doc
Cleber Ouverney, Ph.D. 2000
Rachel Noble, Ph.D. 1998, post-doc
Stefanie Gehret M.S. 1998
Pierre Rossi, post-doc
Markus Karner, post-doc
Robin Wilcox, M.S. 1993
Lita Proctor, Ph.D. 1991
Kirk McCallum, post-doc
Yaeko Masuchi, post-doc
Curtis Suttle, post-doc
SangHoon Lee, M.S. 1986, Ph.D. 1990
James Mitchell, Ph.D. 1987
George McManus, Ph.D. 1986
John Hudak, M.S. 1985
Marianne Legier, M.S. 1985