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and leaving the system Physical and chemical properties of the compounds acted upon and produced as metabolites by microbial processes may not be amenable to mass balance strategies) In Section 64, the term bottle effects is mentioned (A) What do you think bottle effects are In answering, consider the detailed physical and chemical conditions that microorganisms experience at the scale of micrometers (B) If you were a free-living, planktonic bacterium in a lake and you were moved into a glass bottle, what physical, chemical, nutritional, and ecological changes might be imposed upon you (A) In devising a sampling scheme for a microbiological study (see Section 6.



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5), when would it be absolutely essential to use sterile sampling tools to place the sample into sterile containers (B) Can you envision one or more situations in which aseptic sampling techniques would be unnecessary Does the capture x store analyze scheme in Figure 64 make sense to you If so, why If not, why not At the end of the text in Section 65, a methane-rich site is mentioned How would you distinguish between microbiologically created methane and methane of geologic origin (from natural gas) To answer this question, consider information provided in all prior chapters especially 2 (Section 21 and Box 22) and Section 68 Include arguments using both analytical chemistry procedures and physiological considerations of the habitat Section 67 advances the idea that a microorganism in low abundance might be physiologically and ecologically important.

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(A) Can you explain this idea (B) Do active microorganisms necessarily have high growth yields In preparing an answer, consider information provided in 3 especially the thermodynamic compass used to identify processes that may have low free-energy yields (C) Find one or more electron donor electron acceptor reaction pairs (eg, Figure 39 and Tables 37, 38) that you consider to be good candidates for processes carried out by microorganisms in ecosystems that meet both of the following criteria: (i) small microbial populations; and (ii) large uxes of substrate turnover What are the processes you have chosen In Figure 67, one experimental scheme converts rRNA (initially present as intracellular ribosomes) to cDNA prior to cloning and sequencing.

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Explain why investigators would choose this reverse transcriptase-based step rather than an experimental approach that uses rRNA genes (DNA) that encode the rRNA for PCR ampli cation, cloning, and sequencing Section 67 mentions the possibility of nding rRNA genes in reagent-only treatments In this regard, control treatments in experimental designs are crucial It would be tragic to mistake microorganisms in the PCR and cloning reagents for those in the habitat you are sampling If you were analyzing rRNA genes from microorganisms collected from a low-biomass habitat, such as air in a hospital, what experimental controls would help you have con dence in the data you produce To answer this question, assume that 100 L volumes of hospital air are sampled using 01 m pore-size membrane lters housed in a canister Boxes 62 and 63 describe lipid biomarkers and 16S rRNA ngerprinting procedures, respectively.

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