CEMI Activities
 
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Funded Research Projects

CEMI Fellows

Workshops

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Title

Argonaute proteins in bacteria: a glimpse into the ancient non-coding RNA world

Characterization of a novel membrane protein-targeting pathway in photosynthetic bacteria

Understanding the physiological roles of subpopulations in clonal bacterial communities

Evolution and mechanism of type VI secretion-related nanomachines

Diverse studies in microbial diversity

Probing microbial energetics with microcalorimetry: the environmental and energetic meaning of heat production

Quantitative dissection of iron-mediated gene regulation in Pseudomonas aeruginosa


DNA signaling among proteins with 4Fe-4S clusters

Mechanosensitive channels: their role in photosynthetic cell biology

Imaging chromosome conformation in single bacteria cells

Constructing mutants of Saccharomyces cerevisiae with CRISPR/CAS9 and characterization of genes involved in mutagenesis

Evolution of photosynthesis in cyanobacteria

An integrated MEMS device for use as a microbial monitoring system in wastewater treatment

Structure and organization of the bacterial chromosome

A novel probiotic therapy for Parkinson’s disease in animal models

X-ray absorption spectroscopic studies of nitrogen fixation


Evolution and structural analysis of microbial rhodopsin based sensors

In situ “sequencing” by FISH (seqFISH) for cell ID and transcription profiling

Using optogenetic tools to manipulate the membrane potential of pathogens 

Uncovering serotonergic members of the human microbiota

Microfluidic isolation of microbes that inactivate nematode signaling molecules 

Substrate coordination to the active site cofactor of nitrogenase

Mapping biological magnetism at the nanoscale: bringing a key technology to Caltech CEMI

Detection of nematode-induced transcripts in the nematophagous fungus A. oligospora using Fluorescence in situ hybridization

Site-specific labeling of bacterial proteins in-situ using N-Myristoyltransferase for correlated, cryogenic Stochastic Optical Reconstruction Microscopy (cryo-STORM)


Sequence-level prediction and control of integral membrane protein expression

Unveiling the nutritional capabilities of heterotrophic deep-sea bacterial symbionts using NanoSIMS

A rapid approach to characterize spatial patterns of microbial colonization of host tissue

How widespread among bacteria is the ability to sporulate

Symbiosis within a symbiosis: cultivation and characterization of a novel, protozoan-associated deltaproteobacterial acetogen from termite guts

Microbiome-based autism treatment through gut barrier repair

Do different hopanoid types facilitate active transport of organic solutes?

Characterization of protein responsible for extracellular electron transport in Euryarchaeota

The proteomic response of Staphylococcus aureus to the innate immune system in vivo

Selective killing of latently infected CD4+ T-cells by conditionally replicating viruses that detect HIV transcripts

Transmission of viruses through fine particles (PM2.5)

Structural studies of bacterial and archaeal extracellular electron transport components under near-native conditions

Genomic rearrangements and the origins of immunity

Principal Investigator

Alexei Aravin


William Clemons


Michael Elowitz


Grant Jensen

Jared Leadbetter

Victoria Orphan and

Michael Roukes

Rob Phillips



Jacqueline Barton

Ian Booth

Long Cai

Michael Elowitz and

Judith Campbell

Woodward Fischer

Michael Hoffmann


Grant Jensen

Sarkis Mazmanian

Douglas Rees


Frances Arnold

Long Cai

Viviana Gradinaru

Elaine Hsiao

Rustem Ismagilov and

Jared Leadbetter

Jonas Peters

Mikhail Shapiro


Paul Sternberg and

Long Cai

David Tirrell




William Clemons


Shana Goffredi


Rustem Ismagilov and Long Cai

Grant Jensen

Jared Leadbetter


Sarkis Mazmanian

Dianne Newman

Victoria Orphan


David Tirrell


Bjorkman


Hoffmann

Jensen


Phillips

Student

Michael Abrams

Tahmineh Khazaei

Sushant Sundaresh

Lewis Ward

Sean Mullin

Sofia Quinodoz

Yapeng Su

Kyle Metcalfe

Meaghan Sullivan

Chanel Valiente

Gray Chadwick

April Jauhal

Anders Knight

Sujung Lim

Usha Lingappa

Xinyan Liu

Lucas Andrade Meirelles

Andrew Patterson

Elena Perry

Malaney Young

Bill Ling

Elliot Mackrell

Lealia Xiong

Division

Biology and Biological Engineering

Biology and Biological Engineering

Biology and Biological Engineering

Geological and Planetary Sciences

Geological and Planetary Sciences

Biology and Biological Engineering

Chemistry and Chemical Engineering

Geological and Planetary Sciences

Biochemistry and Molecular Biophysics

Geological and Planetary Sciences

Geological and Planetary Science

Biology and Biological Engineering

Biology and Biological Engineering

Geological and Planetary Science

Geological and Planetary Science

Chemistry and Chemical Engineering

Biology and Biological Engineering

Biology and Biological Engineering

Biology and Biological Engineering

Chemistry and Chemical Engineering

Chemistry and Chemical Engineering

Chemistry and Chemical Engineering

Medical Engineering

Year

2012

2012

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2013

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2014

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2015

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2016

Lecture

“Innovation by Evolution: Expanding the Enzyme Universe”

Professor Frances Arnold

“Nitrification Revisited with Single Cell Tools”

Professor Michael Wagner

“Collective Functionality in Bacterial Groups”

Professor Martin Ackermann

“Cooperation and Competition in Microbes: From Model Systems to the Microbiome”

Professor Kevin Foster


CEMI stands for the “Center for Environmental Microbial Interactions”, and was launched in 2012 with support from the Weston Havens Foundation to promote high quality interdisciplinary work in microbiology.

Travel Grants

Microbial Diversity Course Scholarships

Year

2014

2015

2015

2015

2016

2016

Student/Postdoc

Jena Johnson

Brett Babin

Kat Dawson

Shannon Stone

Sam Ho

Tanvi Ratani

Division

Geological and Planetary Sciences

Chemistry and Chemical Engineering

Geological and Planetary Sciences

Chemistry and Chemical Engineering

Chemistry and Chemical Engineering

Chemistry and Chemical Engineering

Year

2015

2016

Student

Yunji Wu

Lucas Andrade Meirelles

Division

Biology and Biological Engineering

Biology and Biological Engineering

Facilities Training Grants

Year

2016

2016

2016

2016

Student/Postdoc

Megan Bergkessel

Sean Mullin

Tanvi Ratani

Elise Tookmanian

Division

Biology and Biological Engineering Geological and Planetary Sciences

Chemistry and Chemical Engineering

Chemistry and Chemical Engineering

Winter Lectures

Topic

A Bioinformatics Workshop was held Sept 16 through Sept 20, 2013 on campus. Instructors: Titus Brown and Rob Knight.

A Scientific Presentation Skills Workshop was held June 24 through August 19, 2014 on campus to help students and postdocs with public speaking and scientific presentation skills.

Year

2015


2015


2016


2016

Year

2013


2014