C-DEBI Newsletter – March 1, 2019
This newsletter is also accessible via our website.


Publications & Press

Applied and Environmental Microbiology
Growth Kinetics, Carbon Isotope Fractionation, and Gene Expression in the Hyperthermophile Methanocaldococcus jannaschii during Hydrogen-Limited Growth and Interspecies Hydrogen Transfer - NEW!
Begüm D. Topçuoğlu, Cem Meydan, Tran B. Nguyen, Susan Q. Lang*, James F. Holden
*C-DEBI Contribution 465

Hyperthermophilic methanogens are often H2 limited in hot subseafloor environments and their survival may be due in part to physiological adaptations to low H2 conditions and interspecies H2 transfer. The hyperthermophilic methanogen Methanocaldococcus jannaschii was grown in monoculture at high (80-83 μM) and low (15-27 μM) aqueous H2 concentrations and in co-culture with the hyperthermophilic H2 producer Thermococcus paralvinellae. The purpose was to measure changes in growth and CH4 production kinetics, CH4 fractionation, and gene expression in M. jannaschii with changes in H2 flux. Growth and cell-specific CH4 production rates of M. jannaschii decreased with decreasing H2 availability and decreased further in co-culture. However, cell yield (cells produced per mole of CH4 produced) increased six-fold when M. jannaschii was grown in co-culture relative to monoculture. Relative to high H2concentrations, isotopic fractionation of CO2 to CH4 (ϵCO2-CH4) was 16‰ larger for cultures grown at low H2 concentrations and 45‰ and 56‰ larger for M. jannaschii growth in co-culture on maltose and formate, respectively. Gene expression analyses showed H2-dependent methylene-tetrahydromethanopterin (H4MPT) dehydrogenase expression decreased and coenzyme F420-dependent methylene-H4MPT dehydrogenase expression increased with decreasing H2 availability and in co-culture growth. In co-culture, gene expression decreased for membrane-bound ATP synthase and hydrogenase. The results suggest that H2 availability significantly affects the CH4 and biomass production and CH4 fractionation by hyperthermophilic methanogens in their native habitats.

Have an upcoming manuscript about the deep subseafloor biosphere and want to increase your press coverage? NSF's Office of Legislative and Public Affairs is looking to coordinate press releases between your home institution and the NSF to coincide with the date of publication. Please contact us as soon as your publication is accepted!

NSF-UNOLS: EOS article on Strategies for Conducting 21st Century Oceanographic Research - NEW!
The UNOLS Logistics Working Group would like to announce the an EoS article entitled “Strategies for Conducting 21st Century Oceanographic Research.” Planning for cruises in/out of foreign ports and applying for marine research clearances takes a lot of time and effort. The UNOLS Logistics Working Group, comprised of scientists, operators and funding agency representatives, reviewed vessel policies and sticking points around working in foreign ports and obtaining marine science research (MSR) clearances.  The EoS article builds from the committee’s white paper on “Proposing, Planning, and Executing Logistics involved in Oceanographic Field Operations in Foreign Waters and Ports and its appendix in an effort to further awareness of the issues, responsibilities and key topics in planning for these complex cruises. If you will be working in/out of a foreign port or applying for an MSR clearance, we encourage you to read the article and pass it along to anyone else who this might impact.


Meetings & Activities

C-DEBI: Nominations Now Open For The 2019 Networked Speaker Series - NEW!
C-DEBI seeks nominations for three speakers for the 2019 program. C-DEBI is continuing the Networked Speaker Series (begun in Fall 2011) as a means to enhance communication and the exchange of ideas among our spatially distributed community. Potential speakers can be nominated by colleagues, mentors, or those mentored by C-DEBI participants; they can also self nominate. Selected C-DEBI Networked Speakers will make a presentation online, using video conferencing tools, with assistance from the C-DEBI main office at USC. Nominated C-DEBI Networked Speakers should be capable of combining compelling visual materials with the ability to communicate effectively to a broad audience. We are particularly enthusiastic about giving young researchers a chance to present work to the C-DEBI community. Being selected to be a C-DEBI Networked Speaker is an honor.

AbSciCon 2019: Session on "Lessons from Earth Analogs to Inform the Search for Life in the Universe"
Abstracts are due March 6, 2019.

16th SoCal Geobiology Symposium @ CalTech, April 6, 2019 - UDPATED!
The deadline to be considered for an for abstract and poster presentations is March 8, 2019.

Goldschmidt: Student Grants Available - NEW!
The Geochemical Society is offering grants to qualifying students to attend the 2019 Goldschmidt Conference, the world’s largest meeting devoted to geochemistry and related fields. These grants are available to students who meet any one of these criteria: 1) Undergraduate or graduate students who are US citizens or permanent residents and who self-identify as members of underrepresented groups in the science and engineering student population, as designated by the NSF, in this case African Americans, Hispanics, Native Americans, and Pacific Islanders; 2) Undergraduate or graduate students from underrepresented institutions, including Baccalaureate Colleges, M1, M2, M3 universities, tribal colleges or community colleges; 3) Graduate students or postdoctoral scholars working at universities or institutions in the U.S. and  its territories on subjects related to planetary science (e.g., planetary geology, cosmochemistry, astrobiology). All applications must be completed by March 15, 2019.

Goldschmidt: Session 09c: Biogeochemical Cycling in Changing Glacial Habitats and Downstream Ecosystems
Abstract submission opens January 15, 2019, and closes March 29, 2019.

Bigelow: Fourth Microbial Single Cell Genomics Workshop - NEW!
This workshop will be held in Boothbay Harbor, Maine, on September 22-26, 2019. Workshop goals are to stimulate progress in single cell genomics (SCG) through the exchange of breakthroughs in research applications and method development, with a focus on microorganisms and the prediction of cell’s phenome.  During this four-day workshop, we aim to create an opportunity for effective, creative interactions among principal investigators, postdocs and students who utilize microbial SCG in research and/or develop SCG technology, building on the success of our prior SCG workshops that were held in 20072010 and 2015. To ensure the best experience by workshop participants and due to logistical constraints, the number of participants will be limited to 90. Application deadline: March 31, 2019.

2nd Geobiology Society Conference, June 9-13, 2019, Banff, Canada
Please register to confirm your attendance by April 19, 2019.

IODP Workshop: IBM Arc System & Analogs
Workshop participation is open to U.S. and international researchers and the deadline to apply is May 1, 2019.

Ongoing Activities:


Education & Outreach

RGNO 2019 in Namibia: Biogeochemical Oceanography in Upwelling Ecosystems
Applications are due March 10, 2019.

C-DEBI: Community College Research Internship for Scientific Engagement (CC-RISE)
CC-RISE is an eight-week, paid, summer research internship program for community college students run by the Center for Dark Energy Biosphere Investigations. Students will gain firsthand exposure to the scientific process by working in a faculty-led research lab at the Woods Hole Oceanographic Institution in Woods Hole, MA. In addition to research, students will participate in activities focusing on how to transition from a two-year college to a university and information on graduate school. At the end of the program, students will present their results to an audience of peers and mentors. Applications are due March 29, 2019.

IODP-USSSP: U.S. Travel Support for Petrophysics Summer School
The deadline to apply for travel support and for the course is April 22, 2019.

IODP-USSSP: Apply to host an Ocean Discovery Lecturer
For the 2018-19 academic year, an exciting lineup of distinguished lecturers is available to speak at your institution, including C-DEBI researchers Ginny Edgcomb and Brandi Kiel Reese. Application deadline to host an Ocean Discovery Lecturer: May 17, 2019.


Proposal Calls

AGU: Submit a nomination for the Taira Prize
Deadline to nominate: March 15, 2019.

NSF-UNOLS: Invitation to Participate in AXIAL aboard the R/V Marcus Langseth - NEW!
We are opening a call for the selection of current M.Sc. or Ph.D. students along with early career scientists to participate in the NSF funded project AXIAL aboard the R/V Marcus Langseth during the summer of 2019. The 33 day research cruise will allow participation in all facets of ship operation, including deployment of scientific instrumentation, keeping watch during data collection, initial onboard data processing, an onboard reading and discussion group and workshops for mapping and seismic processing. We encourage a diverse group of participants including women and demographics underrepresented in the geoscience community. Applications due April 1, 2019.

IODP-USSSP: Apply to Sail on Expedition 388: Equatorial Atlantic Gateway
The deadline to apply is April 1, 2019.

NSF: Opportunities for Promoting Understanding through Synthesis (OPUS)
Full proposal deadline: August 5, 2019.

NSF: Biological Oceanography
Full proposal deadline date: August 15, 2019.

NSF: Chemical Oceanography
Full proposal deadline date: August 15, 2019.

NSF: Physical Oceanography
Full proposal deadline date: August 15, 2019.

NSF: Accelerating Research through International Network-to-Network Collaborations (AccelNet)
Letter of intent due date: October 30, 2019.

NSF: Research Traineeship (NRT) Program
Next letter of intent window: November 25, 2019 – December 6, 2019.

Rolling Calls:



UCSD: Assistant Researcher in Marine Aquaculture / Marine Omics - NEW!
The Scripps Institution of Oceanography (SIO) at the University of California San Diego invites applications for a full-time Researcher position to be funded largely by extramural research grants and contracts in any of two areas: 1) Marine aquaculture research including micro and macroalgae, shellfish, or finfish and may include the basic biology of aquaculture species with application for enhanced productivity; 2) Marine “omics” research including applications of genomics, transcriptomics, proteomics and metabolomics to address fundamental questions in ocean biosciences and issues related to human health and the oceans. The Researcher series at SIO parallels the Professor series in terms of expectations for research and service but carries no teaching requirements. Researchers receive nine-month appointments with 25% salary support from institutional sources. Externally funded research programs are expected to provide the remaining salary support, including an opportunity for summer salary. Researchers at SIO often obtain lecturer appointments in the SIO department, which provides a mechanism to serve as a graduate student advisor. For full consideration, please apply by the April 1, 2019.

UNH: Research Faculty - NEW!
The University of New Hampshire (UNH) School of Marine Science and Ocean Engineering (SMSOE) of the Institute for the Study of Earth, Oceans, and Space (EOS) invites applications at the rank of Associate or Full Research Professor in the broad area of Marine Science. The successful applicant can expect to interact with faculty from the life sciences, ocean engineering, Earth sciences, and oceanography as well as the social sciences and humanities to address critical coastal and marine science problems in new and coordinated ways. The successful candidate will have a strong track record of research demonstrating outstanding potential for establishing his or her own independent research program and to raise his/her salary from external grants, be a proven programmatic and organizational leader, and a distinguished scientist with international connections and diverse perspectives. While primarily a research appointment, graduate level teaching and research interaction with diverse students is encouraged.

MSU: Assistant/Associate Professor of Environmental Microbiology

Princeton University: Assistant Professor

U Toronto: Postdoctoral Positions in Fluid-Rock Interactions and Deep Subsurface Life

TAMU: Instructional Assistant Professor

Don’t forget to email me with any items you'd like to share in future newsletters! We will also broadcast this information on our social media outlets, Twitter and Facebook. You are what makes our deep biosphere community!


Matthew Janicak
Data Manager
Center for Dark Energy Biosphere Investigations (C-DEBI)
University of Southern California
3616 Trousdale Pkwy, AHF 209, Los Angeles, CA 90089-0371
Phone: 708-691-9563, Fax: 213-740-2437

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