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Genomics and Cell Biology: January 2008


Dear Colleague, The National Science Foundation's Assembling the Tree of Life (AToL) solicitation has recently been renewed and updated (see the program solicitation, NSF 08-515; http://www.nsf.gov/publications/pub_summ.jsp?ods_key=nsf08515). As in the past, the AToL competition will support creative and innovative research to resolve evolutionary relationships for large groups of organisms. The program also supports research on theory and methods and tool development for these large scale phylogenetic investigations. With this letter we wish to draw your attention to several new and/or enhanced areas of interest. Proposals in the following areas are especially encouraged:

Astrobiology December 2007, 7(6): 819-823

http://www.liebertonline.com/doi/pdfplus/10.1089/ast.2007.0207

A key challenge in Astrobiology is to comprehend life and its interaction with the environment at a level sufficiently fundamental to embrace the alternative biochemistries that may be encountered in a search for life elsewhere (Baross et al., 2007).

Astrobiology December 2007, 7(6): 1006-1022

http://www.liebertonline.com/doi/pdfplus/10.1089/ast.2007.0156

Europa is a prime target for astrobiology. The presence of a global subsurface liquid water ocean and a composition likely to contain a suite of biogenic elements make it a compelling world in the search for a second origin of life. Critical to these factors, however, may be the availability of energy for biological processes on Europa.

Astrobiology December 2007, 7(6): 971-986

http://www.liebertonline.com/doi/pdfplus/10.1089/ast.2006.0096

Dissolved H2 concentrations up to the mM range and H2 levels up to 9-58% by volume in the free gas phase are reported for groundwaters at sites in the Precambrian shields of Canada and Finland. Along with previously reported dissolved H2 concentrations up to 7.4 mM for groundwaters from the Witwatersrand Basin, South Africa, these findings indicate that deep Precambrian Shield fracture waters contain some of the highest levels of dissolved H2 ever reported and represent a potentially important energy-rich environment for subsurface microbial life. The

Astrobiology December 2007, 7(6): 951-970

http://www.liebertonline.com/doi/pdfplus/10.1089/ast.2007.0150


Radiolysis of water may provide a continuous flux of an electron donor (molecular hydrogen) to subsurface microbial communities. We assessed the significance of this process in anoxic marine sediments by comparing calculated radiolytic H2 production rates to estimates of net (organic-fueled) respiration at several Ocean Drilling Program (ODP) Leg 201 sites. Radiolytic H2 yield calculations are based on abundances of radioactive elements (uranium, thorium, and potassium), porosity, grain density, and a model of water radiolysis. Net respiration estimates are based on fluxes of dissolved electron acceptors and their products. Comparison of radiolytic H2 yields and respiration at multiple sites suggests that radiolysis gains importance as an electron donor source as net respiration and organic carbon content decrease.

Astrobiology December 2007, 7(6): 933-950

http://www.liebertonline.com/doi/pdfplus/10.1089/ast.2006.0119

Numerical models are employed to investigate sources of chemical energy for autotrophic microbial metabolism that develop during mixing of oxidized seawater with strongly reduced fluids discharged from ultramafic-hosted hydrothermal systems on the seafloor. Hydrothermal fluids in these systems are highly enriched in H2 and CH4 as a result of alteration of ultramafic rocks (serpentinization) in the subsurface. Based on the availability of chemical energy sources, inferences are made about the likely metabolic diversity, relative abundance, and spatial distribution of microorganisms within ultramafic-hosted systems.

Astrobiology December 2007, 7(6): 891-904

http://www.liebertonline.com/doi/pdfplus/10.1089/ast.2006.0118

The common thread of energy release suggests that diverse microbial metabolic processes can be compared through thermodynamic analyses. The resulting energy and power requirements can provide quantitative constraints on habitability. Because previous thermodynamic analyses have focused on the minimum amount of energy needed for the growth of a microorganism or community, the focus of this study is to gain a fuller understanding of the microbial response to highly habitable conditions.

Astrobiology December 2007, 7(6): 873-890

http://www.liebertonline.com/doi/pdfplus/10.1089/ast.2007.0127

Formate, a simple organic acid known to support chemotrophic hyperthermophiles, is found in hot springs of varying temperature and pH. However, it is not yet known how metabolic strategies that use formate could contribute to primary productivity in hydrothermal ecosystems. In an effort to provide a quantitative framework for assessing the role of formate metabolism, concentration data for dissolved formate and many other solutes in samples from Yellowstone hot springs were used, together with data for coexisting gas compositions, to evaluate the overall Gibbs energy for many reactions involving formate oxidation or reduction.