Ashley Campbell edited introduction.tex  about 10 years ago

Commit id: fcba67b7800e81e85ca46462db929e2a2f017acf

deletions | additions      

       

There are 2,300 Pg of carbon (C) stored in soils worldwide, excluding plant biomass, which accounts for \sim 80\% of the global terrestrial C pool \cite{Amundson_2001,IPCC 2000,IPCC 2007,elsen_Ayres_Wall_Bardgett_2011,Lal_2008,BATJES_1996}, http://rstb.royalsocietypublishing.org/content/363/1492/815.full). Current climate change models concur on atmospheric and ocean C predictions but not terrestrial (Friedlingstein 2006). The disagreeable predictive power between models for terrestrial ecosystems reflects how little we know about belowground C cycling dynamics. It is estimated that 80-90\% of the C cycling in soil is mediated by microorganisms (\cite{ColemanCrossley_1996}, Nannipieri & Badalucco 2003). Understanding microbial processing of nutrients in soils presents a special challenge due to the hetergeneous nature of soil ecosystems and our limitations in methodologies. Soils consist of an overwhelming biological, chemical, and physical complexity which affects microbial community composition, diversity, and structure (refs). Confounding factors such as physical protection/aggregation, moisture content, pH, temperature, frequency and type of land disturbance, soil history, mineralogy, N quality and availability, and litter quality have all been shown to affect the ability of the soil microbial community to access and metabolize C substrates \cite{Schlesinger_1977,dgett_Wall_Hattenschwiler_2010,Sollins_Homann_Caldwell_1996,Torn_Vitousek_Trumbore_2005,TRUMBORE_2006}. Furthermore, rates of metabolism are often measured without knowing the identity of the microbial species specifically involved in the cycling of the measured process \cite{ndi_Pietramellara_Renella_2003}. The importance of community diversity in maintaining ecosystem functioning remains uncertain (Allison & Martiny 2008, \cite{ndi_Pietramellara_Renella_2003}.   The first step in teasing out belowground C cycling dynamics is to identify microbial groups responsible for the measured process and understand the relationship between genetic diversity, community structure, and function (O’Donnell et al 2001). Stable-isotope probing (SIP) provides a unique opportunity to link microbial identity to activity (\cite{Chen_Murrell_2010}). Since its development, the technique SIP  has been utilized for identifying key microorganisms and functional genes in to expanded our knowledge of  a myriad of important biogeochemical processesincluding methane, cellulose, acetate  (Chen & Murrell 2011). SIP studies have expanded our knowledge of important biogeochemical processes, 2011),  yet, there remain limitations including insufficient resolution of identification by fingerprinting and cloning techniques and, to our knowledge, are usually conducted under the narrow scope of single substrate additions with few exceptions (Lueders et al 2004b, Chauhan et al 2009). SIP studies use single substrate experimental designs to minimize isotope signal dilution, however, it detracts from how microbes may experience that substrate naturally, calling into question its environmental and biological relevance.   The aim of this study is to track the path of C added to soil as a complex C mixture to provide insight into these dynamic systems. A previous study has shown that 13C labeled plant residues enable tracking of C through microbial pathways (Evershed et al 2006). Utilizing this technique with single 13C labeled substrates added as a complex C mixture will allow us to test how different C containing components cascade through discrete taxa within the  soil microbial communities. community.  Powerful techniques such as nucleic acid stable isotope probing (SIP) coupled with 454 pyrosequencing can then be used to parse out and identify these 13C labeled portions of the microbial community to reveal the community members that are responsible for the transformation of the labeled C. Coupling complex C additions additions to microcosm incubations with nucleic acid stable isotope probing (SIP) provides a means of looking into microbial community functions while minimizing other factors affecting the fate of C. This allows us to sift out the specific organisms or functional guilds that are responsible for the cycling of that specific C substrate. Differences in the degradation of labile C sources (ie. glucose, xylose, or sucrose) and complex C polymers (ie. cellulose or lignin) have been detected (Engelking et al 2007, Anderson and Domsch 1973, Stotzky and Norman 1961, Alden et al 2001, Nannipieri et al 2003). Nearly complete degradation of sucrose within five days has been observed, while degradation of cellulose takes between 15-25 days (Engelking et al 2007). Respiration from glucose-treated soils showed an initial increase in respiration at 2-6 hours followed by a second increase between 6-10 hours (Anderson and Domsch 1973, Stotzky and Norman 1961, Alden et al 2001, Nannipieri et al 2003).