The authors gratefully acknowledge the field and lab assistance provided by James Smit and Kurt Thompson. Funding for original studies for which this protocol was developed was provided by the Spring Lake-Lake Board2,13,18,19; the Michigan Department of Environmental Quality4; and Jim Duncan, Dave Farhat, and the President&#8217;s Office at Grand Valley State University17.

1. Field Sampling
<ol>
	<li>Conduct sampling once during each ice-free season (where applicable) for 1-2 years, if possible (i.e.&#160;3 times/year in a north temperate climate). If time and/or funds prohibit seasonal sampling, conduct sampling once per year during mid-to-late summer.</li>
	<li>Select sediment collection sites to cover different geographic regions within the lake. Choosing locations close to historical water quality and/or sediment sampling sites, when available, is often desirable to take advantage of historical data. Otherwise, attempt to select sites that represent different sediment types in the lake.</li>
	<li>Conduct water quality sampling prior to sediment core collection.
	<ol>
		<li>At a minimum, measure water depth and vertical profiles of water temperature and dissolved oxygen. Near-bottom measurements should be taken as close to sediment surface as possible, without disturbing the sediment.</li>
		<li>Collect any other water quality data and samples that are desired to fulfill the specific goals of the study. Examples include vertical profiles of pH, conductivity, and turbidity; Secchi depth; photosynthetically active radiation (PAR) profiles; chlorophyll a; soluble reactive phosphorus (SRP); total phosphorus (TP); and nitrogen species.</li>
	</ol>
	</li>
	<li>At each sampling location, fill a 10&#160;L carboy with water collected 1 m above the sediment surface using a Van Dorn or Niskin bottle. This will be used in the initial set up of sediment cores in the lab and for refilling cores after sampling during incubation. Place the carboy in a cooler with ice.</li>
	<li>Collect 6 sediment cores per site using a piston corer2,20.
	<ol>
		<li>Refer to Fisher&#160;et al.20&#160;for specific instructions regarding construction of the coring device. Briefly, the coring device consists of a graduated 0.6 m long polycarbonate core tube (7 cm i.d.), a polyvinyl chloride (PVC) attachment assembly for coupling to aluminum drive rods, a piston constructed of two rubber stoppers and an eye bolt, a plastic-coated piston cable with a swivel clip, and aluminum drive rods. Assemble the coring device according to the following steps:
		<ol>
			<li>Thread the swivel clip end of the piston cable through the top of the PVC attachment assembly. Orient a core tube with bolt holes facing upward and extend the cable through the length of the core tube. Clip the piston cable to the eye bolt of the piston stopper.</li>
			<li>Attach the core tube to the PVC attachment assembly using a wire lock hitch pin. Pull the piston cable to advance the piston 20 cm from the bottom of the core tube to maintain a water layer on top of the sediment surface during core collection.</li>
			<li>Attach an aluminum drive rod to the other end of the PVC attachment assembly using a wire lock hitch pin. Lower coring device vertically into the water, adding additional sections of aluminum drive rod as needed.</li>
		</ol>
		</li>
		<li>Position the corer vertically at the sediment-water interface and push downward, with the piston cable remaining stationary. To accomplish this, pull the piston cable taut once the corer is in place at the sediment-water interface, attach vice grips to cable, step on the cable to the inside of the vice grips, and then push downward.</li>
		<li>Bring core to the surface and seal with a rubber stopper prior to breaking the water surface. Secure bottom stopper with duct tape.</li>
		<li>Bolt the piston to the top of the core tube to keep it stationary during transit. Place the core tube in a vertical rack and maintain at ambient near-bottom lake temperature, using ice if necessary.</li>
	</ol>
	</li>
</ol>
2. Laboratory Incubation
<ol>
	<li>Upon return from the field, adjust cores to contain the desired depth of sediment and overlying water column. Excess sediment can be carefully let out the bottom of the core tube by removing the bottom stopper; add water from the carboy collected at the corresponding site, if needed. Commonly-used sediment and water column depths are 20 cm of sediment with a 25 cm overlying water column2,4,13,17-19, but these amounts can be modified as desired.</li>
	<li>Place sediment core tubes into a darkened environmental growth chamber, with the temperature maintained to match ambient bottom water temperatures measured in the field.</li>
	<li>Expose the cores to redox treatments. For the oxic treatment, bubble the water column of 3 cores/site with air. Bubble the water column of the remaining three cores per site with N2 (with ~350 ppm CO2 to buffer pH) for the anoxic treatment. Ensure a slow and consistent bubble rate that is nondisruptive to the sediment surface.</li>
	<li>On day 1 of core incubation, filter each 10&#160;L carboy containing near-bottom water collected from each site in the field. Using a peristaltic pump and filter cartridge housing, filter water first through a 1&#160;&#956;m filter, followed by a 0.2&#160;&#956;m filter. Store filtered water at 4 &#176;C for the duration of the core incubation.</li>
	<li>Sample cores for P release rate over the duration of the incubation period2,3. Because this is a redox-sensitive experiment, take precautions to maintain redox treatment conditions whenever possible.
	<ol>
		<li>With a syringe, remove a 40&#160;ml&#160;water sample through the sampling port of each sediment core on days 0 (i.e.&#160;at the time cores are placed in the growth chamber), 1, 2, 4, 6, 8, 12, 20, 24, and 28 of core incubation. (Note: if changes over very short time frames are desired, the sampling regime can be modified to sample at hr&#160;1, 2, 4, 8, etc. However, the system is often still equilibrating through the first 12 hr, so P release dynamics can be quite variable at the start of incubations.)</li>
		<li>Immediately after removal, dispense a 20&#160;ml&#160;subsample into a scintillation vial and refrigerate for analysis of TP. Filter the other 20&#160;ml&#160;subsample through a 0.45&#160;&#956;m membrane filter and into a scintillation vial and freeze for analysis of SRP.</li>
		<li>Replace the 40&#160;ml&#160;subsample with an equal volume of filtered water (see step 2.4) from the corresponding site.</li>
	</ol>
	</li>
</ol>
3. P Release Rate Calculation
<ol>
	<li>Calculate flux (release rate) based on the change in water column TP or SRP using the following equation2: 
	 
	Prr = (Ct - C0) &#215; V / A 
	 
	where Prr is the net P release (positive values) or retention (negative values) rate per unit surface area of sediment (mg P/m2/d), Ct is the TP or SRP concentration in the water column at time t, C0 is the TP or SRP concentration at time 0, V is the volume of water in the water column of the core tube, and A is the planar surface area of the sediment cores. Calculate P release rate using the linear portion of the concentration vs. time curve to give the maximum apparent release rate4,13,18,19. To avoid potential short-term bias, choose nonconsecutive sampling dates for Ct and C018,19.</li>
</ol>
4. Internal P Load Calculation
<ol>
	<li>Calculate annual P flux.
	<ol>
		<li>For each season during which sampling occurred, multiply anoxic and oxic flux individually by the number of days in that season. Sum the seasonal values to yield annual anoxic and oxic flux (mg/m2/year). If multiple sites in the same lake were sampled, this calculation can be performed either separately for each site or using the mean flux values for all sites (see Section&#160;4.2.2).</li>
		<li>P release from sediments is generally very low during winter due to low water temperatures. If sampling was not conducted during winter, assume that P flux was 0 for that season14,15.</li>
		<li>Because the majority of internal P release occurs during summer, annual internal P flux can be coarsely estimated from summer measurements alone in the absence of seasonal data2,15,17. For this approach, calculate the P flux according to Section&#160;4.1.1 and assume 0 flux for all seasons except summer. Recognize that this will be a conservative estimate of annual P release.</li>
		<li>If available, dissolved oxygen data may be used to refine the annual P flux calculation2,4. Such data may reveal that a lake experiences hypoxia or anoxia for a certain percentage of the year, or during specific seasons. In those cases, use anoxic and oxic flux according to the appropriate proportion or season and sum the values to calculate annual internal P flux.
		<ol>
			<li>For example, if hypoxia or anoxia was measured only during summer, calculate Section 4.1.1 using anoxic flux for summer and oxic flux for the remaining seasons. Sum the values to obtain annual internal P flux. Similarly, if routine dissolved oxygen monitoring data indicate that the lake experiences hypoxia or anoxia 35% of the year, multiply annual anoxic flux from Section 4.1.1 by 0.35 and annual oxic flux from Section 4.1.1 by 0.65 and sum the values to calculate annual internal P flux.</li>
		</ol>
		</li>
		<li>Polymictic lakes pose a particular challenge to internal P load calculation, due to their frequent mixing and spatial and temporal variability in redox condition14. N&#252;rnberg et al.16 developed a model to calculate the number of anoxic days a polymictic lake may experience during a season or year. The active sediment release area and time (AA), which represents the length of time (days/season) that an area similar to the lake surface area is actively releasing P, can be calculated as follows:&#160; 
		 
		AA = -36.2 + 50.2 log (Pseason) + 0.762 z/A0.5 
		 
		where P is the average water column TP concentration during a given season, z is mean depth, and A is lake surface area. To calculate annual internal P flux, multiply AA by anoxic flux and the number of oxic days by oxic flux for each season, and then sum all values.</li>
	</ol>
	</li>
	<li>Scale up internal P flux to the entire lake area.
	<ol>
		<li>Multiply the annual P flux from step 4.1 by the entire lake surface area to calculate annual internal P load. Unless annual P flux was calculated according to &#160;Sections 4.1.4 or 4.1.5, use the anoxic annual flux to calculate annual internal P load. Otherwise, use the flux calculated in Sections&#160;4.1.4 or 4.1.5.</li>
		<li>If multiple sites in the same lake were sampled, the lake can be divided into geographic zones associated with each site. Multiply the annual anoxic P flux (or annual flux from Sections&#160;4.1.4 or 4.1.5) for each site by the surface area of the zone, then sum the values to obtain annual internal P load for the entire lake4,17. Alternatively, the mean annual P flux of all sites can be used in Section 4.2.1.</li>
		<li>Detailed dissolved oxygen data may indicate that specific areas of the lake experience hypoxic or anoxic conditions (e.g.&#160;deep areas), while other areas remain oxic year round. If available, use this information to refine the flux &#215; area calculation (Steinman et al.,&#160;in prep). Multiply the anoxic surface area by the annual anoxic flux and multiply the oxic surface area by the annual oxic flux, and sum the two values to calculate annual internal P load.</li>
	</ol>
	</li>
</ol>

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	<li>Schindler, D. W. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=The+dilemma+of+controlling+cultural+eutrophication+of+lakes.">The dilemma of controlling cultural eutrophication of lakes.</a> Proc. Royal Soc. B. 279, 4322-4333 (2012).</li><li>Steinman, A. D., Rediske, R., Reddy, K. R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=The+reduction+of+internal+phosphorus+loading+using+alum+in+Spring+Lake.">The reduction of internal phosphorus loading using alum in Spring Lake.</a> Michigan. J. Env. Qual. 33, 2040-2048 (2004).</li><li>Moore, P. A., Reddy, K. R., Fisher, M. M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Phosphorus+flux+between+sediment+and+overlying+water+in+Lake+Okeechobee,+Florida:+spatial+and+temporal+variations.">Phosphorus flux between sediment and overlying water in Lake Okeechobee, Florida: spatial and temporal variations.</a> J. Env. Qual. 27, 1428-1439 (1998).</li><li>Steinman, A. 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P., Jeppesen, E. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Role+of+sediment+and+internal+loading+of+phosphorus+in+shallow+lakes.">Role of sediment and internal loading of phosphorus in shallow lakes.</a> Hydrobiologia. 506-509, 135-145 (2003).</li><li>Selig, U. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Particle+size-related+phosphate+binding+and+P-release+at+the+sediment-water+interface+in+a+shallow+German+lake.">Particle size-related phosphate binding and P-release at the sediment-water interface in a shallow German lake.</a> Hydrobiologia. 492, 107-118 (2003).</li><li>Steinman, A. D., Nemeth, L., Nemeth, E., Rediske, R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Factors+influencing+internal+P+loading+in+a+western+Michigan,+drowned+river-mouth+lake.">Factors influencing internal P loading in a western Michigan, drowned river-mouth lake.</a> J. N. Am. Benthol. Soc. 25, 304-312 (2006).</li><li>N&#252;rnberg, G. K. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Assessing+internal+phosphorus+load&#8212;problems+to+be+solved.">Assessing internal phosphorus load&#8212;problems to be solved.</a> Lake Reservoir Manag. 25, 419-432 (2009).</li><li>N&#252;rnberg, G. K., LaZerte, B. D., Loh, P. S., Molot, L. A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Quantification+of+internal+phosphorus+load+in+a+large,+partially+polymictic+and+mesotrophic+Lake+Simcoe,+Ontario.">Quantification of internal phosphorus load in a large, partially polymictic and mesotrophic Lake Simcoe, Ontario.</a> J. Great Lakes Res. 39, 271-279 (2013).</li><li>N&#252;rnberg, G. K., Tarvainen, M., Ventell&#228;, A. -. M., Sarvala, J. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Internal+phosphorus+load+estimation+during+biomanipulation+in+a+large+polymictic+and+mesotrophic+lake.">Internal phosphorus load estimation during biomanipulation in a large polymictic and mesotrophic lake.</a> Inland Waters. 2, 147-132 (2012).</li><li>Steinman, A. D., Ogdahl, M., Luttenton, M., Miranda, F. R., Bernard, L. M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> An analysis of internal phosphorus loading in White Lake Michigan. In: Lake Pollution Research Progress. , 311-325 (2008).</li><li>Steinman, A. D., Ogdahl, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Ecological+effects+after+an+alum+treatment+in+Spring+Lake+Michigan.">Ecological effects after an alum treatment in Spring Lake Michigan.</a> J. Env. Qual. 37, 22-29 (2008).</li><li>Steinman, A. D., Ogdahl, M. E. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Macroinvertebrate+response+and+internal+phosphorus+loading+in+a+Michigan+Lake+after+alum+treatment.">Macroinvertebrate response and internal phosphorus loading in a Michigan Lake after alum treatment.</a> J. Env. Qual. 41, 1540-1548 (2012).</li><li>Fisher, M. M., Brenner, M., Reddy, K. R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=A+simple,+inexpensive+piston+corer+for+collecting+undisturbed+sediment/water+interface+profiles.">A simple, inexpensive piston corer for collecting undisturbed sediment/water interface profiles.</a> J. Paleolimnol. 7, 157-161 (1992).</li><li>Carpenter, S. R., Bolgrien, D., Lathrop, R. C., Stow, C. A., Reed, T., Wilson, M. 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The authors have nothing to disclose.

Nutrient loading to lakes can result in both environmental and economic impairments21-23; therefore, it is crucial that society understands the nature of the nutrient sources and how to manage them. Costly attempts to reduce nutrient loading may not improve water quality if the appropriate contributing source (i.e.&#160;lake sediments or watershed inputs) is not targeted for management action, thereby resulting in setbacks in lake restoration and frustration on the part of stakeholders. Particularly in shallow eutrophic lakes, quantification of internal phosphorus load is a critical step in identifying a management strategy to improve water quality conditions. Even when sediments are implicated as a major source of nutrients, reductions in external P load must be included in any lake management strategy for alleviating eutrophication, since external inputs of P ultimately accumulate in the sediments and fuel future internal loading24,25.
Although other approaches exist to estimate internal P load, experimental determination of P release rates is a direct method that can be adjusted to answer a variety of management and research questions. Laboratory incubations of sediment cores collected from Spring Lake, Michigan, were used to determine the potential effectiveness of an alum treatment2 and the most efficient application concentration13. As a result of the findings from these laboratory-based studies, the stakeholders developed confidence that the alum treatment could control P release in Spring Lake sediments. Consequently, they approved a 10-year&#160;assessment to fund an alum treatment; subsequent sediment core incubations revealed that the treatment was effective at reducing sediment P flux 1 year18 and 5 years19 following treatment. Sediment core incubations have also been used to evaluate the effects of sediment resuspension13 and bioturbation (G. Nogaro and A. Harris, unpublished data) on P release.
Several additional sediment analyses can be performed in conjunction with core incubations to provide information that is useful in interpreting sediment P release results. The top 5 or 10 cm of sediment can be extruded from cores for analysis of sediment TP, porewater SRP, sequential P fractionation, and metals4,18,19. An example of sequential P fractionation26 that can be useful in internal loading studies involves determining the amount of P bound to 1) aluminum (Al-P) or iron (Fe-P), which represents a redox insensitive (Al-P) and a redox-sensitive (Fe-P) mineral association that can become soluble under anoxic conditions, and 2) calcium (Ca-P) or magnesium (Mg-P), which are both stable mineral associations. Further, sediment Fe:P ratios can be calculated to provide insight on the potential P-binding capacity of sediments. Iron-rich sediments that remain oxidized have been shown to release very little P when Fe:P ratios are above 15 (by weight)27. These additional sediment analyses can be performed on cores following internal load incubation4,18,19, or on replicate cores taken at the time of internal load core collection but not used for release rate measurements.
Despite the benefits of experimental determination of sediment P flux, the approach is not without limitations. A number of assumptions must often be made that can add uncertainty to the results:
<ul>
	<li>One assumption is that release rates from the sediment cores are representative of conditions in the study lake. To minimize the impact of this assumption, sampling strategies should be designed to represent as much of the spatial and temporal variability as possible in sediment P release. Sampling sites should cover as much geographic range as possible within a lake to capture spatial variation in sediment characteristics2. If available, bathymetric maps can be used to select sites that are representative of the range of bottom depths in the lake. Other considerations for capturing spatial variation include the location of major tributary inputs and the presence of distinct lake basins. When possible, laboratory incubations should be conducted during each ice-free season and over multiple years to capture temporal variation in release rates.</li>
	<li>A second assumption is that the incubation conditions are representative of natural conditions. A constant anoxic condition creates an optimal situation for the release of P, which may not naturally occur in the study lake. Thus, anoxic treatments may overestimate sediment P release; therefore, it may be best to think of release rates measured in anoxic treatments as maximum potential rates.</li>
	<li>In order to calculate annual internal P load, assumptions about the timing, duration, and spatial extent of hypolimnetic anoxia must be made. For example, in strongly stratified lakes with relatively consistent water depth and confirmed hypolimnetic anoxia, some studies have assumed that the entire lake area is anoxic during stratified periods for the purpose of annual internal P load estimation2,4. However, this may result in an overestimation of load due to oxic sediments in shallow littoral areas4. Thus, a comprehensive dissolved oxygen monitoring strategy that captures diel, seasonal, and spatial variability in redox condition is highly recommended for accurate annual internal load estimation.</li>
	<li>Finally, laboratory incubations may introduce experimental artifacts due to the inability to completely simulate natural conditions. For example, because the sediments are enclosed in core tubes, water exchange through permeable sediments is precluded; however, it is possible to design flow-through core tubes that mitigate this issue28. Other artifacts include the inability to mimic major mixing events or wind-wave action, which could disrupt sediment integrity in natural systems.</li>
</ul>
Given that the sediment core incubation approach can be used to generate reasonable internal P load estimates in as little as one year (although multiple years of data provide more robust information), it is a valuable tool for informing lake management decisions. When used to develop lake management or restoration plans, it can help ensure wise use of financial resources. In lakes where internal P load management has already occurred, sediment core incubations can verify the efficacy of treatment and be used to modify the trajectory of management, if warranted.

As a growing number of lakes worldwide suffer from cultural eutrophication, determination of the causes of water quality degradation is becoming increasingly important for lake management and restoration. Phosphorus (P) loading to lakes is generally implicated in eutrophication, as it is most often the nutrient limiting algal growth1. Historically, quantification of P loading to lakes focused on external sources, or P originating in the watershed via point and nonpoint sources. However, internal loading from lake sediments can account for a large portion, if not the majority, of the total P load in eutrophic lakes2-5. Thus, even substantial reductions in external loading to lakes can fail to result in water quality improvement due to the overriding effect of P release from sediments5-8. Because of the ecological and societal implications of P loading, including the cost and difficulty of P control, it is critical that P loads be accurately identified prior to enacting a management strategy.
At least two different mechanisms are responsible for phosphorus release from sediments. 1) During periods of anoxia or hypoxia, reducing conditions can result in the desorption of phosphate from iron oxyhydroxides at the sediment-water interface, causing diffusion of dissolved phosphate from the sediments into the water column9-11. 2) Disturbance of the sediment surface, through wind-induced resuspension and bioturbation, can result in the release of P into the water column by either desorption of P from resuspended sediment particles or release of dissolved P from the sediment pore water to the water column, respectively11-13.
Three principal approaches are available for quantifying internal P loading to lakes14,15. (1) In situ measurements of changes in hypolimnetic total phosphorus (TP) over time can be used when monitoring data are available. Internal load estimates based on in situ measurements suffer from high variability associated with the inherent spatial and temporal variability of environmental data and can be affected by inadequate monitoring frequency14. (2) Mass balance can be used to estimate internal loading, when complete P budgets can be constructed. However, it is rare that sufficient data are available on P inputs and exports to construct a complete P budget16. (3) Experimentally-determined sediment P release rates can be used, in combination with information on areal extent and duration of P release (i.e.&#160;anoxic period), to calculate internal P load. This is a direct method of internal P load quantification, although it too has limitations (see below).
Because management decisions often must be made on compressed time scales due to funding restrictions or societal pressures, experimental determination of internal P load can have greater utility for lake management and restoration since it requires less time and data than the in situ and mass balance approaches. Laboratory incubations of sediment cores, combined with monitoring of external loads, have been used to determine the relative contributions of internal and external P loads, with the goal of guiding management decisions to optimize nutrient source control2,4,17. In two Michigan lakes with extensive shoreline development and high percentages of impervious surface (&#62;25%) in the sub-basins directly adjacent to the lake, internal P load was estimated to account for up to 80% of the total P load, prompting recommendations to focus management efforts on reducing sediment P release2,4. In contrast, experimental studies of sediment from a less developed lake in the same region showed that internal loading composed only 7% of the total P load, prompting a recommendation to focus P management strategies in the watershed17. Sediment core experiments also have been used in a Michigan lake to determine the potential effectiveness of aluminum sulfate (alum) treatment to reduce sediment P release rates2, the most efficient alum dosing concentration and the effects of sediment resuspension13, and the efficacy of an in situ alum treatment 1 year18 and 5 years19 following treatment. Experimental determination of internal P load is an effective approach to providing answers to key management questions in eutrophic lakes.

<table border="0" cellpadding="0" cellspacing="0" width="1118">
	<colgroup>
		<col />
		<col />
		<col />
		<col />
	</colgroup>
	<tbody>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Multiparameter sonde</td>
			<td style="width:219px;">YSI</td>
			<td style="width:95px;">YSI 6600</td>
			<td style="width:167px;">The key parameters of interest are temperature and dissolved oxygen, although other measurements may be desired depending on the goals of the study. The other major manufacturer of multiparameter sondes is Hach (Hydrolab).&#160;</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Niskin bottle</td>
			<td style="width:219px;">General Oceanics</td>
			<td style="width:95px;">101005</td>
			<td>A Van Dorn bottle can also be used.</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Carboys, 10 L&#160;</td>
			<td style="width:219px;">Nalgene</td>
			<td>DS2213-0020</td>
			<td>Available from many laboratory supply companies, including Fisher Scientific and VWR.</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Piston corer</td>
			<td style="width:219px;">N/A</td>
			<td style="width:95px;">N/A</td>
			<td>Details on construction materials given in Fisher et al. 1992</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Vice grips</td>
			<td style="width:219px;">N/A</td>
			<td style="width:95px;">N/A</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Duct tape</td>
			<td style="width:219px;">N/A</td>
			<td style="width:95px;">N/A</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Vertical rack for holding core tubes</td>
			<td style="width:219px;">N/A</td>
			<td style="width:95px;">N/A</td>
			<td>Custom fabricated on-site.</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Environmental growth chamber</td>
			<td style="width:219px;">Powers Scientific, Inc.</td>
			<td style="width:95px;">DS70SD</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Compressed air with regulator</td>
			<td style="width:219px;">N/A</td>
			<td style="width:95px;">N/A</td>
			<td>Use lab air supply or purchase from local gas supply company.</td>
		</tr>
		<tr height="25">
			<td height="25" style="height:25px;width:639px;">Buffered N2 gas with regulator</td>
			<td style="width:219px;">N/A</td>
			<td style="width:95px;">N/A</td>
			<td>Purchase from local gas supply company.&#160;</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;">Parker Parflex Series E (instrument grade) polyethylene tubing; 1/4&#34; o.d., 0.04&#34; wall, .170&#34; i.d.</td>
			<td style="width:219px;">Parker</td>
			<td style="width:95px;">E-43-B-0100</td>
			<td>Tubing (from gas to chamber)</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">PEEK Capillary tubing; 1/16&#34; o.d., 1/32&#34; i.d.</td>
			<td style="width:219px;">Fisher Scientific</td>
			<td style="width:95px;">3050412</td>
			<td>Tubing (from manifold to cores)</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Union tee</td>
			<td style="width:219px;">Parker</td>
			<td style="width:95px;">164C-4</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Union tee nut</td>
			<td style="width:219px;">Parker</td>
			<td style="width:95px;">61C-4</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Nylon tubing; 1/4&#34; o.d., 3/16&#34; i.d.</td>
			<td style="width:219px;">US Plastics</td>
			<td style="width:95px;">58042</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Ferrule, front and back; 1/4&#34;</td>
			<td style="width:219px;">Swagelock</td>
			<td style="width:95px;">B-400-Set</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Brass nut; 1/4&#34;</td>
			<td style="width:219px;">Swagelock</td>
			<td style="width:95px;">B-402-1</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Brass medium-flow meterings valve; 1/4&#34;</td>
			<td style="width:219px;">Swagelock</td>
			<td style="width:95px;">B-4MG</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Once-piece short finger tight fittings; 1/16&#34;</td>
			<td style="width:219px;">Alltech</td>
			<td style="width:95px;">32070</td>
			<td>Half of the sampling port</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Female 10-32 to female luer; 1/4 &#34;</td>
			<td style="width:219px;">Alltech</td>
			<td style="width:95px;">20132</td>
			<td>Half of the sampling port</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Ferrule, front and back; 1/16&#34;</td>
			<td style="width:219px;">Swagelock</td>
			<td style="width:95px;">B-100-Set</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Brass nut fittings; 1/16&#34;</td>
			<td style="width:219px;">Swagelock</td>
			<td style="width:95px;">B-102-1</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Tube fitting reducer; 1/16&#34; x 1/4&#34;</td>
			<td style="width:219px;">Swagelock</td>
			<td style="width:95px;">B-100-R-4</td>
			<td></td>
		</tr>
		<tr height="22">
			<td height="22" style="height:23px;width:639px;">PTFE tubing; 1/16&#34; o.d., 0.040&#34; i.d.</td>
			<td style="width:219px;">Grace Davison Discovery Sciences</td>
			<td style="width:95px;">2106982</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Low-pressure PTFE tubing; 1/8&#34; o.d., 0.1&#34; i.d.</td>
			<td style="width:219px;">Fisher Scientific</td>
			<td style="width:95px;">AT3134</td>
			<td>Tubing from sampling port into core</td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;">AirTite all-plastic Norm-Ject syringes, 50mL (60mL) luer slip (eccentric), Sterile</td>
			<td style="width:219px;">Fisher Scientific</td>
			<td>14-817-35</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;">Wheaton HDPE liquid scintillation vials, 20 mL, Poly-Seal cone liner</td>
			<td style="width:219px;">Fisher Scientific</td>
			<td>03-341-72D</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;">Nylon Syringe Filter; 30mm diameter, 0.45 mm</td>
			<td style="width:219px;">Fisher Scientific</td>
			<td style="width:95px;">03-391-1A</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Masterflex peristaltic pump, model 755490</td>
			<td>Cole Parmer</td>
			<td>A-77910-20</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Pall Filterite filter housing, model T911257000</td>
			<td style="width:219px;">Pall Corporation</td>
			<td style="width:95px;">SCO 10UP</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Graver QMC 1-10NPCS filter; 10&#34;, 1.0 mm</td>
			<td>Flowtech Corp</td>
			<td style="width:95px;">N/A</td>
			<td></td>
		</tr>
		<tr height="21">
			<td height="21" style="height:21px;width:639px;">Graver Watertec 0.2-10NPCS filter; 10&#34;, 0.2 mm</td>
			<td>Flowtech Corp</td>
			<td style="width:95px;">N/A</td>
			<td></td>
		</tr>
	</tbody>
</table>

laboratory-determined phosphorus flux from lake sediments as a measure of internal phosphorus loading

Eutrophication is a water quality issue in lakes worldwide, and there is a critical need to identify and control nutrient sources. Internal phosphorus (P) loading from lake sediments can account for a substantial portion of the total P load in eutrophic, and some mesotrophic, lakes. Laboratory determination of P release rates from sediment cores is one approach for determining the role of internal P loading and guiding management decisions. Two principal alternatives to experimental determination of sediment P release exist for estimating internal load: in situ measurements of changes in hypolimnetic P over time and P mass balance. The experimental approach using laboratory-based sediment incubations to quantify internal P load is a direct method, making it a valuable tool for lake management and restoration.
Laboratory incubations of sediment cores can help determine the relative importance of internal vs. external P loads, as well as be used to answer a variety of lake management and research questions. We illustrate the use of sediment core incubations to assess the effectiveness of an aluminum sulfate (alum) treatment for reducing sediment P release. Other research questions that can be investigated using this approach include the effects of sediment resuspension and bioturbation on P release.
The approach also has limitations. Assumptions must be made with respect to: extrapolating results from sediment cores to the entire lake; deciding over what time periods to measure nutrient release; and addressing possible core tube artifacts. A comprehensive dissolved oxygen monitoring strategy to assess temporal and spatial redox status in the lake provides greater confidence in annual P loads estimated from sediment core incubations.

Internal P release was measured from sediment cores collected in Mona Lake, Michigan, to identify the relative contribution of internal versus external P loads4. Four sites were sampled over three seasons to estimate annual internal P load, accounting for spatial variation in P flux. Sediment cores were incubated for 20-28 days under anoxic and oxic conditions, and the overlying water column was sampled for SRP and TP concentrations at regular intervals during the incubation period. The anoxic treatment triggered SRP and TP release from the sediments; however, we are presenting only the TP flux results for illustrative purposes. TP concentrations were highest during summer in anoxic treatments, and spatial variability in TP release was evident during all seasons (Figure 1). Mean internal TP flux was less than 1.4 mg P/m2/day in all oxic cores; negative flux values at 3 of the 4 sites during fall indicated that oxic sediments were acting as a sink rather than a source of P during that season4 (Table 1). TP release rates were considerably higher in anoxic cores, with flux as high as 15.56 mg P/m2/day in the summer and as low as 0.80 mg P/m2/day in the spring4 (Table 1). These flux values were used to calculate seasonal internal P flux based on dissolved oxygen conditions measured at the time of sediment core collection4. Seasonal internal P load was calculated by scaling up the flux at each site to the surface area of the corresponding geographic zone4; seasonal values were summed to estimate annual internal P load, assuming 0 flux during winter. Annual internal P load was estimated to be 3.4 metric tons, with the majority of the load occurring during summer (Table 2). Comparing these results with concurrent external P load estimates, it was estimated that the sediments in Mona Lake contribute between 9-82% of the total annual P load4 (Table 2).
A series of experiments was conducted in Spring Lake, Michigan, to determine 1) the potential effectiveness of aluminum sulfate (alum) treatment in reducing internal P loading2 and 2) the efficacy of an in situ alum treatment18,19. Laboratory experiments simulating a lake-wide application of alum demonstrated a dramatic decline in internal P release with treatment2 (Figure 2). Similar to the example above, we are presenting only TP release from these experiments as representative results. In anoxic cores without alum treatment (simulating natural summer conditions in Spring Lake sediments), mean TP concentrations in the overlying water column reached more than 1.2 mg/L (Figure 2). In contrast, anoxic cores dosed with alum had virtually no P release and concentrations were not different from either of the oxic treatments2 (Figure 2). A sediment core incubation conducted 1 year following lake-wide application of alum in Spring Lake revealed that the treatment was highly effective at reducing sediment P release, with release rates similar between anoxic and oxic treatments18 (Figure 3A). When the experiment was repeated 5 years following alum treatment, TP release remained substantially lower than pretreatment but was greater than that measured 1 year following treatment, suggesting a slight decline in alum efficacy19 (Figure 3B).
<img alt="Figure 1" fo:content-width="6in" fo:src="/files/ftp_upload/51617/51617fig1highres.jpg" src="/files/ftp_upload/51617/51617fig1.jpg" /> 
Figure 1. Total phosphorus (TP) concentrations (mg/L) measured during laboratory incubations of sediment cores collected from Mona Lake, Michigan, during spring (A), summer (B), and fall (C)4. TP was measured in the water overlying sediment cores from 4 lake sites over a 20- to 28-day incubation. The letter in the legend refers to redox state (A = anoxic treatment; O = oxic treatment); the number refers to replicate number (1-3). Note the different scales on the y-axes among seasons. <a href="https://www.jove.com/files/ftp_upload/51617/51617fig1highres.jpg" target="_blank">Click here to view larger image.</a>
<table border="0" cellpadding="0" cellspacing="0" fo:keep-together.within-page="always" width="329">
	<tbody>
		<tr>
			<td>Season</td>
			<td>Site</td>
			<td>Anoxic flux, 
			mg P/m2/day</td>
			<td>Oxic flux, 
			mg P/m2/day</td>
		</tr>
		<tr>
			<td rowspan="4">Spring</td>
			<td>1</td>
			<td>2.77 &#177; 1.53</td>
			<td>0.25 &#177; 0.01</td>
		</tr>
		<tr>
			<td>2</td>
			<td>2.82 &#177; 0.83</td>
			<td>0.26 &#177; 0.23</td>
		</tr>
		<tr>
			<td>3</td>
			<td>0.80 &#177; 0.07</td>
			<td>0.17 &#177; 0.07</td>
		</tr>
		<tr>
			<td>4</td>
			<td>1.15 &#177; 0.71</td>
			<td>0.12 &#177; 0.04</td>
		</tr>
		<tr>
			<td rowspan="4">Summer</td>
			<td>1</td>
			<td>7.06 &#177; 2.57</td>
			<td>0.46 &#177; 0.24</td>
		</tr>
		<tr>
			<td>2</td>
			<td>9.27 &#177; 5.99</td>
			<td>1.36 &#177; 0.73</td>
		</tr>
		<tr>
			<td>3</td>
			<td>15.56 &#177; 1.00</td>
			<td>0.90 &#177; 0.29</td>
		</tr>
		<tr>
			<td>4</td>
			<td>13.63 &#177; 1.82</td>
			<td>0.59 &#177; 0.41</td>
		</tr>
		<tr>
			<td rowspan="4">Fall</td>
			<td>1</td>
			<td>4.48 &#177; 1.56</td>
			<td>-0.66 &#177; 0.22</td>
		</tr>
		<tr>
			<td>2</td>
			<td>2.87 &#177; 0.97</td>
			<td>-1.14 &#177; 0.93</td>
		</tr>
		<tr>
			<td>3</td>
			<td>3.10 &#177; 4.08</td>
			<td>0.51 &#177; 0.13</td>
		</tr>
		<tr>
			<td>4</td>
			<td>6.46 &#177; 4.66</td>
			<td>-0.79 &#177; 0.23</td>
		</tr>
	</tbody>
</table>
Table 1. Mean (&#177;SD) maximum apparent TP flux (mg P/m2/day) in sediment cores collected from Mona Lake, Michigan, and incubated under anoxic and oxic conditions4. Flux was calculated from the change in TP concentrations over time, shown in Figure 1.
<table border="0" cellpadding="0" cellspacing="0" fo:keep-together.within-page="always" width="308">
	<tbody>
		<tr>
			<td>Season</td>
			<td>Internal P 
			Load, t</td>
			<td>External P 
			Load, t</td>
			<td>Internal Load 
			Contribution, %</td>
		</tr>
		<tr>
			<td>Spring</td>
			<td>0.055</td>
			<td>0.557</td>
			<td>9.0%</td>
		</tr>
		<tr>
			<td>Summer</td>
			<td>2.272</td>
			<td>0.862</td>
			<td>72.5%</td>
		</tr>
		<tr>
			<td>Fall</td>
			<td>1.127</td>
			<td>0.242</td>
			<td>82.3%</td>
		</tr>
		<tr>
			<td>Winter</td>
			<td>0.000</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>Annual</td>
			<td>3.454</td>
			<td></td>
			<td></td>
		</tr>
	</tbody>
</table>
Table 2. Annual and seasonal internal P load estimates (metric tons, t) for Mona Lake, Michigan, calculated based on maximum apparent TP flux4 (shown in Table 1). Seasonal internal P load estimates are compared to external P load estimates to determine the contribution of internal load to total P load.
<img alt="Figure 2" fo:content-width="5in" fo:src="/files/ftp_upload/51617/51617fig2highres.jpg" src="/files/ftp_upload/51617/51617fig2.jpg" /> 
Figure 2. Mean (&#177;SD) TP concentrations (mg/L) measured during laboratory incubations of sediment cores collected from Spring Lake, Michigan, and experimentally treated with aluminum sulfate (alum) under oxic and anoxic conditions2. TP was measured in the water column overlying sediment cores over a 20-day incubation period. This figure has been modified from Steinman et al.2 Reprinted by Permission, ASA, CSSA, SSSA. <a href="https://www.jove.com/files/ftp_upload/51617/51617fig2highres.jpg" target="_blank">Click here to view larger image.</a>
<img alt="Figure 3" fo:content-width="5in" fo:src="/files/ftp_upload/51617/51617fig3highres.jpg" src="/files/ftp_upload/51617/51617fig3.jpg" /> 
Figure 3. Mean (&#177;SD) TP concentrations (mg/L) measured during laboratory incubations of sediment cores collected from Spring Lake, Michigan 1 year after18 (A) and 5 years after19 (B) a lake-wide application of alum. Sediment cores were subjected to oxic and anoxic treatments and the overlying water column was sampled for TP concentration over a 22-day (A) to 25-day (B) incubation. This figure has been modified from Steinman et al.18; panel A and Steinman et al.19; panel B. Reprinted by Permission, ASA, CSSA, SSSA. <a href="https://www.jove.com/files/ftp_upload/51617/51617fig3highres.jpg" target="_blank">Click here to view larger image.</a>

Watch this Scientific Journal Video about Laboratory-determined Phosphorus Flux from Lake Sediments as a Measure of Internal Phosphorus Loading at JoVE.com

Laboratory-determined Phosphorus Flux from Lake Sediments as a Measure of Internal Phosphorus Loading

Lake eutrophication is a water quality issue worldwide, making the need to identify and control nutrient sources critical. Laboratory determination of phosphorus release rates from sediment cores is a valuable approach for determining the role of internal phosphorus loading and guiding management decisions.

Eutrophication is a water quality issue in lakes worldwide, and there is a critical need to identify and control nutrient sources. Internal phosphorus (P) ...

laboratory-determined-phosphorus-flux-from-lake-sediments-as-measure

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Video: Laboratory-determined Phosphorus Flux from Lake Sediments as a Measure of Internal Phosphorus Loading

Determination of Microbial Extracellular Enzyme Activity in Waters, Soils, and Sediments using High Throughput Microplate Assays

Much of the nutrient cycling and carbon processing in natural environments occurs through the activity of extracellular enzymes released by microorganisms. Thus, measurement of the activity of these extracellular enzymes can give insights into the rates of ecosystem level processes, such as organic matter decomposition or nitrogen and phosphorus mineralization. Assays of extracellular enzyme activity in environmental samples typically involve exposing the samples to artificial colorimetric or fluorometric substrates and tracking the rate of substrate hydrolysis. Here we describe microplate based methods for these procedures that allow the analysis of large numbers of samples within a short time frame. Samples are allowed to react with artificial substrates within 96-well microplates or deep well microplate blocks, and enzyme activity is subsequently determined by absorption or fluorescence of the resulting end product using a typical microplate reader or fluorometer. Such high throughput procedures not only facilitate comparisons between spatially separate sites or ecosystems, but also substantially reduce the cost of such assays by reducing overall reagent volumes needed per sample.

Microplate based procedures are described for the colorimetric or fluorometric analysis of extracellular enzyme activity. These procedures allow for the rapid assay of such activity in large numbers of environmental samples within a manageable time frame.

Much of the nutrient cycling and carbon  processing in natural environments occurs through the activity of extracellular  enzymes released by ...

Laboratory Estimation of Net Trophic Transfer Efficiencies of PCB Congeners to Lake Trout (Salvelinus namaycush) from Its Prey

A technique for laboratory estimation of net trophic transfer efficiency (&#947;) of polychlorinated biphenyl (PCB) congeners to piscivorous fish from their prey is described herein. During a 135-day laboratory experiment, we fed bloater (Coregonus hoyi) that had been caught in Lake Michigan to lake trout (Salvelinus namaycush) kept in eight laboratory tanks. Bloater is a natural prey for lake trout. In four of the tanks, a relatively high flow rate was used to ensure relatively high activity by the lake trout, whereas a low flow rate was used in the other four tanks, allowing for low lake trout activity. On a tank-by-tank basis, the amount of food eaten by the lake trout on each day of the experiment was recorded. Each lake trout was weighed at the start and end of the experiment. Four to nine lake trout from each of the eight tanks were sacrificed at the start of the experiment, and all 10 lake trout remaining in each of the tanks were euthanized at the end of the experiment. We determined concentrations of 75 PCB congeners in the lake trout at the start of the experiment, in the lake trout at the end of the experiment, and in bloaters fed to the lake trout during the experiment. Based on these measurements, &#947; was calculated for each of 75 PCB congeners in each of the eight tanks. Mean &#947; was calculated for each of the 75 PCB congeners for both active and inactive lake trout. Because the experiment was replicated in eight tanks, the standard error about mean &#947; could be estimated. Results from this type of experiment are useful in risk assessment models to predict future risk to humans and wildlife eating contaminated fish under various scenarios of environmental contamination.

Laboratory Estimation of Net Trophic Transfer Efficiencies of PCB Congeners to Lake Trout Salvelinus namaycush from Its Prey

A technique for laboratory estimation of net trophic transfer efficiency of polychlorinated biphenyl (PCB) congeners to piscivorous fish from their prey is presented. To maximize applicability of the laboratory results to the field, the piscivorous fish should be fed prey fish that are typically eaten in the field.

A technique for laboratory estimation of net trophic transfer efficiency (&#947;) of polychlorinated biphenyl (PCB) congeners to piscivorous fish from ...

Measurement of Greenhouse Gas Flux from Agricultural Soils Using Static Chambers

Measurement of greenhouse gas (GHG) fluxes between the soil and the atmosphere, in both managed and unmanaged ecosystems, is critical to understanding the biogeochemical drivers of climate change and to the development and evaluation of GHG mitigation strategies based on modulation of landscape management practices. The static chamber-based method described here is based on trapping gases emitted from the soil surface within a chamber and collecting samples from the chamber headspace at regular intervals for analysis by gas chromatography. Change in gas concentration over time is used to calculate flux. This method can be utilized to measure landscape-based flux of carbon dioxide, nitrous oxide, and methane, and to estimate differences between treatments or explore system dynamics over seasons or years. Infrastructure requirements are modest, but a comprehensive experimental design is essential. This method is easily deployed in the field, conforms to established guidelines, and produces data suitable to large-scale GHG emissions studies.

This article showcases the static chamber-based method for measurement of greenhouse gas flux from soil systems. With relatively modest infrastructure investments, measurements may be obtained from multiple treatments/locations and over timeframes ranging from hours to years.

Measurement of greenhouse gas (GHG) fluxes between the soil and the atmosphere, in both managed and unmanaged ecosystems, is critical to understanding the ...

Development of Sulfidogenic Sludge from Marine Sediments and Trichloroethylene Reduction in an Upflow Anaerobic Sludge Blanket Reactor

The importance of microbial sulfate reduction relies on the various applications that it offers in environmental biotechnology. Engineered sulfate reduction is used in industrial wastewater treatment to remove large concentrations of sulfate along with the chemical oxygen demand (COD) and heavy metals. The most common approach to the process is with anaerobic bioreactors in which sulfidogenic sludge is obtained through adaptation of predominantly methanogenic granular sludge to sulfidogenesis. This process may take a long time and does not always eliminate the competition for substrate due to the presence of methanogens in the sludge. In this work, we propose a novel approach to obtain sulfidogenic sludge in which hydrothermal vents sediments are the original source of microorganisms. The microbial community developed in the presence of sulfate and volatile fatty acids is wide enough to sustain sulfate reduction over a long period of time without exhibiting inhibition due to sulfide. 
This protocol describes the procedure to generate the sludge from the sediments in an upflow anaerobic sludge blanket (UASB) type of reactor. Furthermore, the protocol presents the procedure to demonstrate the capability of the sludge to remove by reductive dechlorination a model of a highly toxic organic pollutant such as trichloroethylene (TCE). The protocol is divided in three stages: (1) the formation of the sludge and the determination of its sulfate reducing activity in the UASB, (2) the experiment to remove the TCE by the sludge, and (3) the identification of microorganisms in the sludge after the TCE reduction. Although in this case the sediments were taken from a site located in Mexico, the generation of a sulfidogenic sludge by using this procedure may work if a different source of sediments is taken since marine sediments are a natural pool of microorganisms that may be enriched in sulfate reducing bacteria.

Microbial sulfate reduction is a process of great importance in environmental biotechnology. The success of the sulfidogenic reactors depends among other factors on the microbial composition of the sludge. Here, we present a protocol to develop sulfidogenic sludge from hydrothermal vents sediments in a UASB reactor for reductive dechlorination purposes.

The importance of microbial sulfate reduction relies on the various applications that it offers in environmental biotechnology. Engineered sulfate ...

Simultaneous DNA-RNA Extraction from Coastal Sediments and Quantification of 16S rRNA Genes and Transcripts by Real-time PCR

Real Time Polymerase Chain Reaction also known as quantitative PCR (q-PCR) is a widely used tool in microbial ecology to quantify gene abundances of taxonomic and functional groups in environmental samples. Used in combination with a reverse transcriptase reaction (RT-q-PCR), it can also be employed to quantify gene transcripts. q-PCR makes use of highly sensitive fluorescent detection chemistries that allow quantification of PCR amplicons during the exponential phase of the reaction. Therefore, the biases associated with &#39;end-point&#39; PCR detected in the plateau phase of the PCR reaction are avoided. A protocol to quantify bacterial 16S rRNA genes and transcripts from coastal sediments via real-time PCR is provided. First, a method for the co-extraction of DNA and RNA from coastal sediments, including the additional steps required for the preparation of DNA-free RNA, is outlined. Second, a step-by-step guide for the quantification of 16S rRNA genes and transcripts from the extracted nucleic acids via q-PCR and RT-q-PCR is outlined. This includes details for the construction of DNA and RNA standard curves. Key considerations for the use of RT-q-PCR assays in microbial ecology are included.

A protocol to quantify bacterial 16S rRNA genes and transcripts from coastal sediments via real-time PCR is provided. The methodology includes the co-extraction of DNA and RNA; preparation of DNA-free RNA; and 16S rRNA gene and transcript quantification via RT-q-PCR, including standard curve construction.

Real Time Polymerase Chain Reaction also known as quantitative PCR (q-PCR) is a widely used tool in microbial ecology to quantify gene abundances of ...

Experimental Protocol for Biodiesel Production with Isolation of Alkenones as Coproducts from Commercial Isochrysis Algal Biomass

The need to replace petroleum fuels with alternatives from renewable and more environmentally sustainable sources is of growing importance. Biomass-derived biofuels have gained considerable attention in this regard, however first generation biofuels from edible crops like corn ethanol or soybean biodiesel have generally fallen out of favor. There is thus great interest in the development of methods for the production of liquid fuels from domestic and superior non-edible sources. Here we describe a detailed procedure for the production of a purified biodiesel from the marine microalgae Isochrysis. Additionally, a unique suite of lipids known as polyunsaturated long-chain alkenones are isolated in parallel as potentially valuable coproducts to offset the cost of biodiesel production. Multi-kilogram quantities of Isochrysis are purchased from two commercial sources, one as a wet paste (80% water) that is first dried prior to processing, and the other a dry milled powder (95% dry). Lipids are extracted with hexanes in a Soxhlet apparatus to produce an algal oil (&#34;hexane algal oil&#34;) containing both traditional fats (i.e., triglycerides, 46-60% w/w) and alkenones (16-25% w/w). Saponification of the triglycerides in the algal oil allows for separation of the resulting free fatty acids (FFAs) from alkenone-containing neutral lipids. FFAs are then converted to biodiesel (i.e., fatty acid methyl esters, FAMEs) by acid-catalyzed esterification while alkenones are isolated and purified from the neutral lipids by crystallization. We demonstrate that biodiesel from both commercial Isochrysis biomasses have similar but not identical FAME profiles, characterized by elevated polyunsaturated fatty acid contents (approximately 40% w/w). Yields of biodiesel were consistently higher when starting from the Isochrysis wet paste (12% w/w vs. 7% w/w), which can be traced to lower amounts of hexane algal oil obtained from the powdered Isochrysis product.

Experimental Protocol for Biodiesel Production with Isolation of Alkenones as Coproducts from Commercial Isochrysis Algal Biomass

Detailed methods are presented for the production of biodiesel along with the co-isolation of alkenones as valuable coproducts from commercial Isochrysis microalgae.

The need to replace petroleum fuels with alternatives from renewable and more environmentally sustainable sources is of growing importance. ...

A Flow-through Exposure System for Evaluating Suspended Sediments Effects on Aquatic Life

This paper describes the Fish Larvae and Egg Exposure System (FLEES). The flow-through exposure system is used to investigate the effects of suspended sediment on various aquatic species and life stages in the laboratory by using pumps and automating delivery of sediment and water to simulate suspension of sediment. FLEES data are used to develop exposure-response curves between the effects on aquatic organisms and suspended sediment concentrations at the desired exposure duration. The effects data are used to evaluate management practices used to reduce the interactions between aquatic organisms and anthropogenic causes of suspended sediments. The FLEES is capable of generating total suspended solids (TSS) concentrations as low as 30 to as high as 800 mg/L, making this system an ideal choice for evaluating the effects of TSS resulting from many activities including simulating low ambient levels of TSS to evaluating sources of suspended sediments from dredging operations, vessel traffic, freshets, and storms.

A robust and flexible flow-through exposure system designed to maintain sediment in suspension is presented. The system is used to investigate the effects of suspended sediment on various aquatic species and life stages in the laboratory.

This paper describes the Fish Larvae and Egg Exposure System (FLEES). The flow-through exposure system is used to investigate the effects of suspended ...

Development of Metarhizium anisopliae as a Mycoinsecticide: From Isolation to Field Performance

A major concern when developing commercial mycoinsecticides is the kill speed compared to that of chemical insecticides. Therefore, isolation and screening for the selection of a fast-acting, highly virulent entomopathogenic fungus are important steps. Entomopathogenic fungi, such as Metarhizium, Beauveria, and Nomurea, which act by contact, are better suited than Bacillus thuringiensis or nucleopolyhedrosis virus (NPV), which must be ingested by the insect pest. In the present work, we isolated 68 Metarhizium strains from infected insects using a soil dilution and bait method. The isolates were identified by the amplification and sequencing of the ITS1-5.8S-ITS2 and 26S rDNA region. The most virulent strain of Metarhizium anisopliae was selected based on the median lethal concentration (LC50) and time (LT50) obtained in insect bioassays against III-instar larvae of Helicoverpa armigera. The mass production of spores by the selected strain was carried out with solid-state fermentation (SSF) using rice as a substrate for 14 days. Spores were extracted from the sporulated biomass using 0.1% tween-80, and different formulations of the spores were prepared. Field trials of the formulations for the control of an H. armigera infestation in pigeon peas were carried out by randomized block design. The infestation control levels obtained with oil and aqueous formulations (78.0% and 70.9%, respectively) were better than the 63.4% obtained with chemical pesticide.

Development of Metarhizium anisopliae as a Mycoinsecticide: From Isolation to Field Performance

Here, we report the different stages involved in the knowledge-based development of an effective mycoinsecticide, including the isolation, identification, screening, and selection of the "best-fit" entomopathogenic fungus, Metarhizium anisopliae, for the control of insect pests in agriculture.

A major concern when developing commercial mycoinsecticides is the kill speed compared to that of chemical insecticides. Therefore, isolation and ...

Preparation of Authigenic Pyrite from Methane-bearing Sediments for In Situ Sulfur Isotope Analysis Using SIMS

Different sulfur isotope compositions of authigenic pyrite typically result from the sulfate-driven anaerobic oxidation of methane (SO4-AOM) and organiclastic sulfate reduction (OSR) in marine sediments. However, unravelling the complex pyritization sequence is a challenge because of the coexistence of different sequentially formed pyrite phases. This manuscript describes a sample preparation procedure that enables the use of secondary ion mass spectroscopy (SIMS) to obtain in situ &#948;34S values of various pyrite generations. This allows researchers to constrain how SO4-AOM affects pyritization in methane-bearing sediments. SIMS analysis revealed an extreme range in &#948;34S values, spanning from -41.6 to +114.8&#8240;, which is much wider than the range of &#948;34S values obtained by the traditional bulk sulfur isotope analysis of the same samples. Pyrite in the shallow sediment mainly consists of 34S-depleted framboids, suggesting early diagenetic formation by OSR. Deeper in the sediment, more pyrite occurs as overgrowths and euhedral crystals, which display much higher SIMS &#948;34S values than the framboids. Such 34S-enriched pyrite is related to enhanced SO4-AOM at the sulfate-methane transition zone, postdating OSR. High-resolution in situ SIMS sulfur isotope analyses allow for the reconstruction of the pyritization processes, which cannot be resolved by bulk sulfur isotope analysis.

Preparation of Authigenic Pyrite from Methane-bearing Sediments for In Situ Sulfur Isotope Analysis Using SIMS

Analyses of the sulfur isotopic composition (&#948;34S) of pyrite from methane-bearing sediments have typically focused on bulk samples. Here, we applied secondary ion mass spectroscopy to analyze the &#948;34S values of various pyrite generations to understand the diagenetic history of pyritization.

Different sulfur isotope compositions of authigenic pyrite typically result from the sulfate-driven anaerobic oxidation of methane (SO4-AOM) and ...

Optimized Procedure for Determining the Adsorption of Phosphonates onto Granular Ferric Hydroxide using a Miniaturized Phosphorus Determination Method

This paper introduces a procedure to investigate the adsorption of phosphonates onto iron-containing filter materials, particularly granular ferric hydroxide (GFH), with little effort and high reliability. The phosphonate, e.g., nitrilotrimethylphosphonic acid (NTMP), is brought into contact with the GFH in a rotator in a solution buffered by an organic acid (e.g., acetic acid) or Good buffer (e.g., 2-(N-morpholino)ethanesulfonic acid) [MES] and N-cyclohexyl-2-hydroxyl-3-aminopropanesulfonic acid [CAPSO]) in a concentration of 10 mM for a specific time in 50 mL centrifuge tubes. Subsequently, after membrane filtration (0.45 &#181;m pore size), the total phosphorus (total P) concentration is measured using a specifically developed determination method (ISOmini). This method is a modification and simplification of the ISO 6878 method: a 4 mL sample is mixed with H2SO4 and K2S2O8 in a screw cap vial, heated to 148-150 &#176;C for 1 h and then mixed with NaOH, ascorbic acid and acidified molybdate with antimony(III) (final volume of 10 mL) to produce a blue complex. The color intensity, which is linearly proportional to the phosphorus concentration, is measured spectrophotometrically (880 nm). It is demonstrated that the buffer concentration used has no significant effect on the adsorption of phosphonate between pH 4 and 12. The buffers, therefore, do not compete with the phosphonate for adsorption sites. Furthermore, the relatively high concentration of the buffer requires a higher dosage concentration of oxidizing agent (K2S2O8) for digestion than that specified in ISO 6878, which, together with the NaOH dosage, is matched to each buffer. Despite the simplification, the ISOmini method does not lose any of its accuracy compared to the standardized method.

This paper introduces a procedure to investigate the adsorption of phosphonates onto iron-containing filter materials, particularly granular ferric hydroxide, with little effort and high reliability. In a buffered solution, the phosphonate is brought into contact with the adsorbent using a rotator and then analyzed via a miniaturized phosphorus determination method.

This paper introduces a procedure to investigate the adsorption of phosphonates onto iron-containing filter materials, particularly granular ferric ...