Monday, February 4, 2013

Chapter outline: Life at High Temperature


Proposed title:  Life at High Temperature    Chapter no.: _______

Author(s):       Brian P. Hedlund

                        Greg Fullmer Associate Professor of Life Sciences

School of Life Sciences, University of Nevada Las Vegas

                        89154 Las Vegas, NV, USA

                        Phone:  702-895-0809

Fax: 702-895-3956       

                        E-mail: brian.hedlund@unlv.edu

 

                        Jeremy A. Dodsworth

School of Life Sciences, University of Nevada Las Vegas

                        89154 Las Vegas, NV, USA

                        Phone:  702-895-0809

Fax: 702-895-3956       

                        E-mail: jeremy.dodsworth@unlv.edu

 

                        Chuanlun Zhang

Department of Marine Sciences, University of Georgia

166 Marine Sciences Building

Athens, GA 30602-3636

                        Phone:  (706) 542-3034

                        FAX Number: (706) 542-5888

                        archaea.zhang@gmail.com

 

Proposed topics

1) Diversity of high temperature environments.

- Continental (liquid water and vapor-condensation systems; volcanically active areas, tectonically driven systems, influence of climate and hydrologic setting, deep subsurface).

- Marine (on-axis, off-axis systems). - Other systems (briefly: coal piles, compost, industrial cooling and heating, subsurface).

2) Definitions, upper temperature limits of domains, and polyextremophiles.

- Hyperthermophiles and thermophiles - distinguishing growth from survival. - Upper temperature limits of domains.

- Polyextremophiles and their habitats - thermoacidophiles, thermophilic piezophiles.

3) Diversity of extremely and moderately thermophilic microorganisms: Archaea, Bacteria, and Eukarya.

      - Phylogenetic diversity - transition to specific thermophilic lineages around 80°C.

      - Physiological diversity.

4) Modes of adaptation of microorganisms to life at high temperature.

      - Nucleic acids (positive supercoiling, GC content in nontranscribed RNAs)

- Lipids (membrane-spanning lipids, cyclization, ether  and ester linkages)

      - Proteins

      - Adaptations to instability of small molecules

      - Cytoplasm (compatible solutes)

5) Effect of high temperature on microbial community diversity and structure.

      - Increase in temperature leads to loss of diversity, simplification of communities.

      - Quantitative relationships between high temperature and microbial diversity.

      - Loss of diversity translates into loss of ecosystem functions.

6) Effect of temperature on ecosystem functioning and biogeochemical cycles.

      - Photosynthetic/chemosynthetic transition.

      - Carbon cycle. Distinguishing features of the high temperature cycle.

      - Nitrogen cycle. Distinguishing features of the high temperature cycle.

7) Recent developments and future directions.

      - Impact of genomics approaches (e.g. “dark matter” lineages)

      - Need for more in situ measurements (from biomarkers to activities)

      - Need for more dynamic studies (from snapshots to movies)

  

Chapter Highlights

The following concepts will be conveyed in this chapter:

1. The high temperature biome is extensive and diverse. It is inhabited by a physiologically and phylogenetically diverse group of microorganisms. Above ~80°C the microbial community is composed entirely of thermophilic phylum- and class-level lineages.

2. A variety of molecular adaptations to high temperature exist, including adaptations to protect macromolecules (nucleic acids, lipids, and proteins), to decrease molecular motion in the cytoplasm, and to address the instability of small molecules at high temperature.

3. High temperature leads to a loss of diversity, which leads to loss of ecosystem function, including a key transition from photosynthetic communities to chemosynthetic communities. Temperature impacts all biogeochemical cycles in ways that are currently poorly understood.

4. Current and future advancements include the discovery of the function of major, uncultivated lineages, so-called “biological dark matter,” and an increased focus on the effect of high temperature on ecosystem function.

Chapter outline: Microbial life in extreme low-biomass environments–a genetic approach


Proposed title:  Microbial life in extreme low-biomass environments – a genetic approach

Chapter no.: _________

 

Author(s):                      Venkateswaran, K., M.T. La Duc, P. Vaishampayan, and J.A. Spry

                                         Jet Propulsion Lab, California Institute of Technology

                                         M/S: 89-2; Biotechnology and Planetary Protection

                                         4800, Oakgrove Dr., Pasadena, CA 91109

Correspondence:         kjvenkat@jpl.nasa.gov; Tel: (818) 393-1481; Fax: (818) 393-4176

 

Proposed topics


1.      ATP as a biomarker of viable microorganisms in clean-room facilities.



4.      Differential recovery of phylogenetically disparate microbes from spacecraft-qualified metal surfaces.

B.     Cultivable and problematic microbes of spacecraft and associated surfaces

5.      Microbial characterization of the Mars Odyssey spacecraft and its encapsulation facility.


7.      Recurrent isolation of extremotolerant bacteria from the clean room where Phoenix spacecraft components were assembled.

8.      Extreme spore UV resistance of Bacillus pumilus isolates obtained from an ultraclean spacecraft assembly facility.

9.      Recurrent isolation of hydrogen peroxide-resistant spores of Bacillus pumilus from a spacecraft assembly facility.


10.   Survival of spacecraft-associated microorganisms under simulated martian UV irradiation.



13.   Rapid inactivation of seven Bacillus spp. under simulated Mars UV irradiation.

14.   Paradoxical DNA repair and peroxide resistance gene conservation in Bacillus pumilus SAFR-032.


15.   Molecular microbial community structure of the Regenerative Enclosed Life Support Module Simulator air system.

16.   Impact of assembly, testing, and launch operations on the airborne bacterial diversity within a spacecraft assembly facility clean-room.



19.   Diversity of anaerobic microbes in spacecraft assembly clean rooms.

20.   Archaeal diversity analysis of spacecraft assembly clean rooms.

21.   Comprehensive Census of Bacteria in Clean Rooms by Using DNA Microarray and Cloning Methods.

22.   Comparison of Innovative Molecular Approaches and Standard Spore Assays for Assessment of Surface Cleanliness.

23.   High-density 16S microarray and clone library-based microbial community composition of the Phoenix spacecraft assembly clean room.

24.   Pyrosequencing-derived bacterial, archaeal, and fungal diversity of spacecraft hardware destined for Mars.


 

Chapter Highlights

The following concepts will be conveyed in this chapter:

       I.          Effectiveness of sample collection methods and efficacy of sample processing in measuring molecular microbial community of low biomass surfaces

     II.          Are molecular methods comprehensive enough to measure microbial diversity?

    III.          Are clean surfaces selectively enriching subset of microbial population?