This research was carried out at the Jet Propulsion Laboratory, California Institute of Technology, under a contract with NASA, supported by the NASA Astrobiology Institute Icy Worlds. Dr. Gabriel LeBlanc was supported in part by a Research Initiation Grant (2017-34) through the Oklahoma NASA EPSCoR Cooperative Agreement (NNX15AK42A). We would like to thank Heather Whitehead for assistance with the initial 3D printed condenser design, Kalind Carpenter for assistance with 3D printing, John-Paul Jones for helpful discussion on condenser vessels, Laura Rodriguez for help with temperature data analysis, and Erika Flores with laboratory assistance. Copyright 2020 California Institute of Technology.

1. Safety considerations
<ol>
	<li>Use laboratory protective equipment for personal protection including nitrile gloves, face goggles, lab coat, and proper shoes (no skin exposed).
	<ol>
		<li>When using syringes and needles, be careful not to puncture gloves or skin.</li>
		<li>Check the entire apparatus in the fume hood for leaks.</li>
		<li>Check the stability of glass vials and condenser on the stand before adding any chemical to the mixture.</li>
	</ol>
	</li>
	<li>Operate all thermal gradient experiments in fume to contain water spills.</li>
	<li>Use all sodium sulfide (Na2S&#8226;9H2O) in fume as it is hazardous to health.
	<ol>
		<li>Keep sodium sulfide in the fume hood, and place a balance inside the fume hood for weighing the sulfide amount.</li>
		<li>Always keep sulfide-containing solutions inside the fume hood as they release toxic H2S gas, and keep sulfide liquid, sharps, and solid waste containers in the fume hood.</li>
		<li>Do not mix any sulfide solution wastes with other known chemicals.</li>
	</ol>
	</li>
	<li>When using reactant Fe(II)Cl2&#8226;4H2O, consistently purge&#160;with N2/Ar as it oxidizes upon exposure to air. Keep solutions anoxic in the fume hood by placing N2/Ar gas in the headspace inside the fume hood. Secure with parafilm to prevent further oxidation.</li>
</ol>
2. Setup for injection experiments
<ol>
	<li>Clamp the 3D printed condenser injection on a stand in a fume hood, so that the small port hole is facing the bottom of the fume hood. Make sure the condenser is leveled within the clamp.</li>
	<li>Create glass &#34;injection vessels&#34; by cutting off 1 cm from the bottom of a 100 mL clear glass, crimp-top serum bottle (20 mm crimp seal closure type) using a glass cutter, and make sure that the vessel is open to the air from the bottom up.
	<ol>
		<li>Clean the vials in a 1 M HCl acid bath overnight, and then rinse with double-distilled water (ddH2O) before conducting a new experiment.</li>
		<li>Re-use glass unless cracked or broken, then dispose.</li>
	</ol>
	</li>
	<li>Prepare the injection vials (Figure 1).
	<ol>
		<li>Collect the following materials: a 20 mm septum, a 20 mm aluminum crimp seal, a 0.5-10 &#181;L plastic pipette tip, a 16 G syringe needle, and a crimper tool.</li>
		<li>Carefully puncture a hole in the center of the rubber septum, and then remove and discard the needle in a sharps waste container.</li>
		<li>Insert the pipette tip into the needle hole, into the side of the rubber septum that will face inside the crimp top of the vial. Push the pipette tip through the septum so that it pokes out slightly on the other side. 
		&#8203;NOTE: Do not push all the way through, as this will not give enough clearance to place the crimp seal with the crimper tool.</li>
		<li>Place the crimper onto the crimp-seal. Squeeze the crimper and seal the septum with the pipette tip onto the injection vessel to make it watertight. After sealing properly, push the pipette tip through the glass jar, so that it protrudes about 1.0&#34; from the glass.</li>
		<li>Place a clear, flexible, chemical-resistant tube of 1/16&#34; inner diameter on the pipette tip to get a watertight seal on the pipette tip. 
		NOTE: The tube should be long enough to reach the 16 G syringe on top of the syringe pump as the syringe will pump the hydrothermal fluid through this clear tubing into the ocean simulant.</li>
		<li>Place the injection vials in the 3D printed condenser in the fume hood, by snaking the tubing through the condenser port hole on the bottom. Make sure that the vial protrudes from the small port hole in the condenser. 
		NOTE: If multiple condensers are to be used, multiple vials can be set up at once and fed simultaneously by separate syringes.</li>
		<li>Check for any final leaks by inserting a 10 mL syringe filled with ddH2O and with a 16 G needle into the other end of the open tubing. Carefully insert the 16 G needle into the tubing so as not to puncture the tube. Slowly inject the ddH2O so that it moves up the tubing and into the bottom of the reaction vessel to ensure that the syringe/tube, tube/tip, and crimp seals are all watertight.</li>
		<li>Secure parafilm tightly over the cut-off top of the vial, and place a small piece of tape onto the top of the parafilm. Punch a small hole through the tape so as the O2 can gas out as N2/Ar is pumped in.</li>
		<li>Set up N2/Ar gas lines that will each feed into one of the injection vials from the cut-off top to make the glass vial anoxic before ocean simulant is poured in.</li>
		<li>Split the gas feed from a N2/Ar source into several tubes, so that there is one N2/Ar feed for each injection vial (if conducting multiple experiments).</li>
		<li>Place the syringe (connected to N2/Ar) by puncturing through the tape, hovering over the ocean solution in the vial. Be careful not to penetrate the ocean solution with the needle to avoid disruption of the chimney growth.</li>
	</ol>
	</li>
</ol>
3. Preparation of solutions for chemical garden growth
<ol>
	<li>Preparing the ocean simulant
	<ol>
		<li>Prepare 100 mL of solution for each experiment. 
		NOTE: In this example, use Table 1 for specific concentrations as the precipitating cations.</li>
		<li>Create anoxic solutions by first bubbling 100 mL of ddH2O with N2/Ar gas for ~15 min per 100 mL in an Erlenmeyer flask.</li>
		<li>Weigh out and add any of the ocean chemistry ingredients, stirring gently to dissolve (not vigorously so as to not introduce oxygen).</li>
		<li>After dissolving the reagents, immediately resume light bubbling of the ocean simulant with N2/Ar gas while preparing the hydrothermal injections.</li>
	</ol>
	</li>
	<li>Preparing hydrothermal fluid simulant (sodium sulfide preparation)
	<ol>
		<li>Choose one of the injection concentrations shown in Table 1, and prepare 10 mL of each concentration. Fill 10 mL syringes with the solutions. Replace the needle caps and set aside. 
		NOTE: Always keep sulfide-containing solutions and syringes in the fume hood.</li>
		<li>Weigh the required amount of sodium sulfide (Na2S&#8226;9H2O) in the fume hood only (50 mL of solution with ddH2O).
		<ol>
			<li>Fill a 50 mL centrifuge tube with ddH2O.</li>
			<li>Place the Na2S&#8226;9H2O in the 50 mL centrifuge tube, and seal it tightly in the fume hood.</li>
			<li>Shake the tube thoroughly in the fume hood until all sulfide particles are fully dissolved.</li>
			<li>Keep the solution anoxic in the fume hood using parafilm into which a 10 G needle injecting N2/Ar has been inserted.</li>
		</ol>
		</li>
	</ol>
	</li>
</ol>
4. Setting up the thermistor
<ol>
	<li>Place the thermistor in a stable position on a side bench as close to the fume hood as possible. Insert the USB side of an RS232 adapter cable into the computer USB port.</li>
	<li>Turn on the power for the thermistor. For directions on setting up cable resistors, see Thermistor procedure in the Supplementary Appendix 2.</li>
	<li>Turn on the thermistor software on the computer.
	<ol>
		<li>Scroll down to Communications Port. Select the first few communication ports, and click on the Connect button to the left for each port, until the thermistor connects to the software. 
		NOTE: The software will show the Reading Configuration bars in green. The sampling icon will keep flashing, showing that it is sampling the current temperature at frequent intervals. If neither of these signals are observed, choose other communication ports. If none of the communication ports work, a pop-up message is seen, stating Communications error or Unable to communicate.</li>
		<li>If Communications error pops up, close the program and restart. Re-check the ribbon cables, and make sure they are properly connected to the pins on the RS232 cable pinouts.</li>
	</ol>
	</li>
	<li>Once connected, make sure Output reads 100% in red bars.</li>
	<li>Once the thermistor is flashing frequent interval measurements, change the interval time to 60 s. In the Controller Options box, towards the bottom, clear out 1 s and change to 60 s. Click on the OK button.</li>
	<li>There will be an oval button next to the company logo&#160;labeled Auto-scale. Click that button to turn on auto-scale. Note the yellow line that will show the temperature readout.</li>
	<li>Inside the plot area, right-click to adjust the plot to your liking, such as scaling the x and y axes.</li>
	<li>Right click in the plot area, and click on export to Excel before a new reading starts every 5000 s or 83.33 min (depending on the recording interval chosen). Save the temperature and time data in the spreadsheet that has been automatically created by the program.</li>
	<li>Place the metal thermistor probe into the glass ocean vessel within the condenser. Make sure the probe is set off to the side of the glass as the thermistor probe hanging in the middle of the glass vial will interrupt chimney growth. Cover again with parafilm.</li>
</ol>
5. Setting up the ice bath
<ol>
	<li>Grab a larger plastic pan and a mid-size bucket. Fill the bucket with water up to half-way.</li>
	<li>Place the bucket inside the pan, and place ice inside the water until nearly full.</li>
	<li>Place the two plastic cut-off hoses onto either end of the water pump (Supplementary Appendix 3, Figure 1). Note that the vertical pump opening is where water will be poured in to begin priming, and the horizontal opening is where the water is ejected. Plug in the pump to a power socket, but leave the electric connectors open as they will power the pump when connected.</li>
	<li>Connect the horizontal plastic hose (Supplementary Appendix 3, Figure 2) to the higher condenser port, facing the right, ensuring that the hose is long enough to reach the ice bucket.</li>
	<li>Place another cut-off plastic hose to the left (lower) condenser port, ensuring that this hose also is long enough to reach ice water bath. Position this hose over the bucket of ice water into which the water will be ejected from the condenser.</li>
	<li>Pour cold water through the hose connected to the vertical opening of the pump. When the pump is full of water, reaching all the way to the condenser port, immerse the hose into the ice water bath, and immediately connect the electrical connectors. 
	NOTE: This may require two people.</li>
	<li>Prime the pump to start flowing water through condenser, fill the bucket with ice, and place a thermometer in the bucket to check the temperature. 
	NOTE: Water temperature should reach ~0 &#176;C. See control test in Supplementary Appendix 1 Figure 2.</li>
	<li>Keep adding more ice to maintain the water at a cold temperature, while removing&#160;some of the warmer water.</li>
</ol>
6. Prepping for injection
<ol>
	<li>Bring the ddH2O syringes (section 2.3) down next to the hydrothermal fluid injection syringes. Carefully slide the plastic injection tubing off the ddH2O syringe needle, and immediately transfer it directly onto one of the primary injection syringe needles. 
	NOTE: Do not puncture the wall of the tubing.</li>
	<li>Plug in the heater pad to heat the hydrothermal simulant to 70-80 &#176;C.&#160;(Warning: higher temperatures can warp or damage the plastic syringe.)</li>
	<li>Wrap the pad around the sulfide syringe, and firmly screw on two metal clamps around the pad (Supplementary Appendix 3, Figure 3).</li>
	<li>Once the clamps are secured in place, place them on the syringe pump, and secure the pump tightly (depends on the syringe pump of choice).</li>
	<li>Set the temperature on the control box to ~70 &#176;C by pressing on the up arrow key (Supplementary Appendix 3,&#160;Figure 5). Press set/start.</li>
	<li>Once the heated syringe(s) are locked in place on the syringe pump, set the syringe pump to inject at 1-2 mL/h.</li>
	<li>Check that ocean solutions are fully dissolved. If cloudy, stir until mostly dissolved.</li>
	<li>Titrate the ocean simulant to pH 5.5 to simulate Hadean ocean acidity30,31. Use 10 M HCl and add droplets slowly (under the N2/Ar feed) until the pH meter reads a stable 5.5. If it exceeds 5.5, use NaOH to bring the pH back to more basic levels using the same slow droplet method.</li>
	<li>Pour one or two ocean solutions in the prefabricated chimney vessels. Pour one ocean solution into the glass vial within the condenser and the other into the room-temperature vessel with no condenser (if conducting two experiments) (Figure 6). 
	NOTE: Do not move the temperature probe.</li>
	<li>Seal the top of the glass vials with parafilm. Replace the N2/Ar feed to the top of the headspace of the ocean simulant, taking care not to introduce the needle into the ocean simulant.</li>
	<li>Program the syringe pump to inject at 1-2 mL/h (calibrate for the size of the syringe being used, depending on type of syringe pump), but do not press Start.</li>
	<li>To prevent thermal loss from occurring through the length of the tubing inject the hot fluid rapidly to make immediate contact with the ocean reservoir. Then, let injection run at 1- 2 ml/h into the cold ocean. (See thermal test for syringe in Supplementary Appendix 1). Use waste beakers to catch any drips.</li>
	<li>Start the injection, and start recording the ocean temperature on the thermistor.</li>
</ol>
7. Monitoring the temperature and the experiment
NOTE: Once the water is circulating through the condenser, the thermistor temperature probe will begin to display the fall in temperature within the ocean. The goal is for the temperature to reach near 0 &#176;C. See Table 2 for the precise temperature (thermal) gradient settings.
<ol>
	<li>Save all temperature data by right-clicking on the plot area, and save as a .CSV file. 
	NOTE: The program will record up to 5000 s worth of temperature data and then start over.</li>
	<li>Keep adding ice into the bucket to maintain near-freezing temperatures, until the chimney has mostly developed, or at least until the syringe is nearly empty.</li>
	<li>Monitor the room-temperature chimney as well. Take frequent photographs throughout chimney growth for both chimneys.</li>
	<li>Once the chimney is complete, place a small ruler next to both chimneys, and then take and save images. 
	&#8203;NOTE: The entire process should run for ~ 6 h.</li>
</ol>
8. Ending the experiment
<ol>
	<li>Stop the syringe pump, then stop recording the temperature on the thermistor, and save the data in a spreadsheet.</li>
	<li>Turn off the N2/Ar flow, and remove the lines and the parafilm from the injection vessels.</li>
	<li>If needed, sample the ocean solution or precipitate for further analysis. To carefully remove the reservoir solution without disturbing the precipitate, use a 25 mL pipette to carefully pipette off several aliquots of the reservoir solution, and discard the solution in a waste beaker.</li>
	<li>Carefully drain the vial within the condenser into a waste beaker. Remove the tubing from the syringe, and let the ocean solution drain into the beaker in the fume hood. Do the same for the vial with no condenser.</li>
	<li>Remove the vessels, one at a time, from the clamp, and use ddH2O to rinse out the pieces of precipitate into a waste beaker.</li>
	<li>Remove the tubing and the syringes from the syringe pump. Empty the syringes and any extra injection fluid into the waste transfer beaker, and dispose of the syringes in a sulfide sharps container kept in the fume hood.</li>
	<li>Remove the tubing from the experiment vial and dispose of it in a solid waste bag. Uncrimp the seal and dispose of the septum, seal, and pipette tip.</li>
	<li>Rinse out the glass experiment vial, and soak it overnight in a 1 M HCl acid bath. 
	NOTE: Glassware that has been in contact with sodium sulfide will release toxic H2S gas when placed in acid. Hence, keep all acid baths inside the fume hood.</li>
</ol>

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M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Growth+history+of+hydrothermal+black+smoker+chimneys.">Growth history of hydrothermal black smoker chimneys.</a> Nature. 301 (5902), 695-698 (1983).</li><li>Ishii, T., Kawaichi, S., Nakagawa, H., Hashimoto, K., Nakamura, R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=From+chemolithoautotrophs+to+electrolithoautotrophs:+CO2+fixation+by+Fe+(II)-oxidizing+bacteria+coupled+with+direct+uptake+of+electrons+from+solid+electron+sources.">From chemolithoautotrophs to electrolithoautotrophs: CO2 fixation by Fe (II)-oxidizing bacteria coupled with direct uptake of electrons from solid electron sources.</a> Frontiers in Microbiology. 6, 994 (2015).</li><li>Barge, L. M., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Pyrophosphate+synthesis+in+iron+mineral+films+and+membranes+simulating+prebiotic+submarine+hydrothermal+precipitates.">Pyrophosphate synthesis in iron mineral films and membranes simulating prebiotic submarine hydrothermal precipitates.</a> Geochimica et Cosmochimica Acta. 128, 1-2 (2014).</li><li>Barge, L. M., White, 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=Experimentally+testing+hydrothermal+vent+origin+of+life+on+Enceladus+and+other+icy/ocean+worlds.">Experimentally testing hydrothermal vent origin of life on Enceladus and other icy/ocean worlds.</a> Astrobiology. 17 (9), 820-833 (2017).</li><li>Barge, L. M., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Chemical+gardens+as+flow-through+reactors+simulating+natural+hydrothermal+systems.">Chemical gardens as flow-through reactors simulating natural hydrothermal systems.</a> Journal of Visualized Experiments. 105, e53015 (2015).</li><li>Morse, J. W., Mackenzie, F. T. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Hadean+ocean+carbonate+geochemistry.">Hadean ocean carbonate geochemistry.</a> Aquatic Geochemistry. 4 (3-4), 301-319 (1998).</li><li>Russell, M. J., Arndt, N. T. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Geodynamic+and+metabolic+cycles+in+the+Hadean.">Geodynamic and metabolic cycles in the Hadean.</a> Biogeosciences. 2 (1), 97-111 (2005).</li><li>Price, R. E., Giovannelli, D. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=A+Review+of+the+geochemistry+and+microbiology+of+marine+shallow-water+hydrothermal+vents.">A Review of the geochemistry and microbiology of marine shallow-water hydrothermal vents.</a> Reference Module in Earth Systems and Environmental Science. , (2017).</li><li>Herschy, B., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=An+origin-of-life+reactor+to+simulate+alkaline+hydrothermal+vents.">An origin-of-life reactor to simulate alkaline hydrothermal vents.</a> Journal of Molecular Evolution. 79 (5-6), 213-227 (2014).</li><li>Barge, L. M., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Characterization+of+iron-phosphate-silicate+chemical+garden+structures.">Characterization of iron-phosphate-silicate chemical garden structures.</a> Langmuir. 28 (8), 3714-3721 (2012).</li><li>Barge, L. M., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=From+chemical+gardens+to+chemobrionics.">From chemical gardens to chemobrionics.</a> Chemical Reviews. 115 (16), 8652-8703 (2015).</li></ol>

The authors have nothing to disclose.

Effect of thermal gradients on simulated chimney growth: This experimental apparatus yielded several variations in chimney morphologies that were due to several experimental parameters. Chimneys of iron sulfide and iron hydroxide formed tall upright structures at room temperature, but formed more tenuous, stringy precipitates or flat mounds in the thermal gradient experiments. This was consistent with the findings of Herschy et al. where wispy, non-erect chimney precipitates were formed from a hydrothermal fluid heated to 70-80 &#176;C and injected into room-temperature ocean simulant33. There are various possible explanations for this: convective heat transfer can cause more natural buoyant forces (along with the forced pumping of the injection) to make the precipitate flow rapidly towards the top of the ocean vessel as it is forming. Alternatively, heating the syringe fluid makes the hydrothermal simulant less dense and thus more prone to rise vertically than to stabilize on top of the injection point. It is possible that this effect could be mitigated by changing the syringe injection rate to slower rates to allow the growth of a more stable structure. White et al. examined iron sulfide chimney growth with the hydrothermal simulant injected at extremely slow rates (0.08 mL/h), and although the chimney took days to coalesce, it was structurally stable13. As Herschy et al. used peristaltic pumps at injection rates of 10-120 mL/h, which is several orders of magnitude faster than the rates used in our thermal gradient experiments, it is not surprising that they also produced string-like chimney structures33.
Higher concentrations of precipitating reactants in the ocean and vent solutions can also yield more robust chimneys in thermal gradients. Higher chemical concentrations of precipitating ions (sulfide or hydroxide) in the hydrothermal fluid or ocean simulant can lead to higher overall precipitate mass, thus creating a stronger structure. As Herschy et al. and White et al. used lower concentrations of sulfide in the hydrothermal fluid (10 mM), their structures were smaller than the ones produced in this work using higher (20-50 mM) sulfide concentrations. Additionally, some studies of iron sulfide chimney growth have also included silica in the hydrothermal fluid along with the sodium sulfide, which can help produce more robust chimneys3,13,33. Silica chemical garden structures have also been used to simulate aspects of hydrothermal chimney growth34, and these tend to produce very robust structures that can be removed from the tube/vial for physical analysis. However, the effects of temperature gradients on silica injection structures are not known and will be an area of further study.
Considerations for future chimney simulation experiments: The 3D printed condenser created in this study to cool the ocean vessel acted like a jacketed reaction vessel, but with some practical improvements: 1) the open top allowed sampling of the chimney and maintaining the anoxic ocean headspace; 2) the 3D printed part&#160;conferred easy reproducibility; 3) as the designs can be digitally edited, the apparatus can be quickly modified and re-printed if desired; and 4) the use of inexpensive materials made each condenser more cost-effective than the actual glass-jacketed reaction vessels. These 3D printed condensers are a flexible and easily shared experimental apparatus that could be a useful way to standardize platforms for simulated hydrothermal chimney experiments across different research groups, allowing better comparison of samples and data. Files of the condenser can be sent to colleagues to print on their own for their educational or scientific purposes (see Supplemental 3D printing file of the condenser used in this work). This inexpensive setup could also be used as an undergraduate laboratory experiment for chemical gardens or chemobrionics29,35.
In conclusion, this work describes a novel experimental apparatus using 3D printing to facilitate the growth of simulated hydrothermal chimneys in temperature gradient environments. The 3D printed condenser is able to cool the ocean simulant to near-freezing temperatures, similar to the seawater near seafloor hydrothermal systems. Meanwhile, a heated syringe was used to simulate the high-temperature hydrothermal fluid injecting into this cold ocean. The morphologies and structures of iron sulfide and iron hydroxide chimneys were affected by the thermal gradient: when both the ocean and the hydrothermal fluid simulants were at room temperature, the chimneys formed vertically oriented structures, but when the hydrothermal fluid was heated and the ocean was cooled, the formation of robust chimney structures was inhibited. For accurately simulating prebiotic reactions in such chimney systems with thermal gradients analogous to those of natural systems, it will be necessary to carefully control parameters such as injection rate and chemical composition of both vent and ocean simulants. The custom and inexpensive 3D printed condenser created for this study is similar in function to a jacketed reaction vessel and can be easily modified and distributed electronically to various research and educational groups for use in many types of chemobrionic experiments.

Hydrothermal chimneys are self-organizing chemical garden precipitates generated from geochemical disequilibria within deep-sea vent environments as heated, hydrothermally altered fluid seeps into a colder ocean. In an early Earth scenario, it has been proposed that the chimneys formed at ancient alkaline vents, and that transecting ambient pH/redox/chemical gradients could have driven reactions toward the emergence of metabolism1,2,3,4,5,6. Hydrothermal vents have also been postulated to exist on other planets including the ocean worlds, Europa and Enceladus7,8,9,10. Various experiments have been conducted to simulate aspects of proposed prebiotic hydrothermal chimney chemistry including precipitation of catalytic iron sulfide minerals that could reduce CO211,12, gradient-driven organic synthesis13,14,15, and incorporation of organics into chimney structures16. In creating experimental setups to mimic hydrothermal vents, whether on Earth or on other worlds, it is essential to consider the geochemical gradients and the open, far-from-equilibrium nature of the system to produce realistic simulations.
In addition to pH, redox, and chemical gradients, hydrothermal vents also impose a thermal gradient across the chimney membrane/wall due to the feed of heated vent fluid into a cold seafloor environment. Cold seafloor ocean temperatures can vary as a function of depth, solar penetration, and salinity; average seafloor ocean depths at vent sites (mostly at mid-ocean ridges) are in the range of 0-4 &#176;C17. Depending on the type of vent, the thermal gradient between ocean and vent fluid can vary dramatically-from the milder gradients of alkaline vents, such as Lost City18,19 or the Strytan Hydrothermal Field where the vent fluid is 40-90 &#176;C20,21, to the deep seafloor black smokers where the vent fluid can reach several hundred degrees Celsius22,23,24,25. From an origin-of-life perspective, simulation of thermal gradients in hydrothermal systems is significant as they could affect the mineralogy and chemical reactivity of chimney precipitates3,13 and/or could affect habitability as hydrothermal chimneys host microbes that take up electrons directly from mineral surfaces26. In a gradient across the chimney wall, a range of temperature conditions would be present over a short distance, and the chimney wall would represent a combination of minerals and reactions characteristic of all these thermal regimes.
Laboratory-grown hydrothermal chimneys in thermal gradients were simulated to explore the effects of the cold ocean and hot hydrothermal fluid on this potential prebiotic environment. Generally, because growing simulated hydrothermal chimneys via an injection method with a heated interior and cold exterior presents practical challenges, the most accessible chimney experiments are those done at ambient pressure (therefore not requiring costly and complicated reactors). Previous attempts at lab-grown chimneys in a thermal gradient have not able to produce both a hot/warm hydrothermal fluid and a cold ocean. In an effort to keep the entire chimney at high temperature for long durations to form reactive minerals that can drive organic reactions, some studies heated the whole experiment (ocean and hydrothermal fluid) to ~70 &#176;C using either a heating jacket or a hot bath13,14. Another type of chimney precipitate formation experiment, in a &#34;fuel cell&#34; apparatus, formed the chimney wall simulant on a flat membrane template; these experiments have also been heated in bulk by submerging the fuel cell gradient apparatus in a hot water bath27,28. Previous studies have formed simulated hydrothermal chimneys from hot hydrothermal fluids (heated to ~70 &#176;C using various methods) injected into a room-temperature ocean3,12; however, a cold ocean has not been attempted.
This work advances methods for prebiotic chimney growth laboratory simulations4 to create a realistic thermal gradient from a cold (0-5 &#176;C) ocean to a heated hydrothermal fluid in which to synthesize chimney materials and test properties of interest. To date, there have been no prebiotic chimney experiments successfully conducted with a realistic temperature gradient for alkaline vents: with the interior vent solution held at ~70 &#176;C and the exterior ocean solution chilled to ~5 &#176;C. Furthermore, in the few heated chimney experiments that have been conducted, the experimental setup is complex and can be costly. Chemical garden experiments have great potential to yield insights about the processes that may have taken place in hydrothermal vents on the early Earth. Hence, the ability to quickly set up multiple variations of a chimney experiment is advantageous, as is the ability to have a simple apparatus that is inexpensive, non-fragile, easily modified, and ideal for students to work with. Presented here is a novel apparatus (Figure 1) designed to facilitate growth of a simulated hydrothermal chimney while maintaining and monitoring a realistic thermal gradient between the cold ocean and heated hydrothermal fluid simulant. This experimental apparatus is similar in design to a jacket reactor, but is a three-dimensional (3D) printed condenser that can be easily produced by any research group interested in conducting similar experiments (see Supplementary&#160;printable file). Using this 3D printed condenser, thermal gradient chimney experiments were conducted to test the utility of this apparatus for maintaining robust temperature gradients and to test the effects of temperature gradients on chimney structure and morphology.

<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always">
	<tbody>
		<tr>
			<td>3/8-Inch Clear Vinyl Tubing</td>
			<td>Watts</td>
			<td>SVIG10&#160;</td>
			<td>Cut to desired length for experiment</td>
		</tr>
		<tr>
			<td>40-pin Male to Female Wire Jumper Multicolored Ribbon Cables</td>
			<td>EDGELEC</td>
			<td>ED-DP_L30_Mix_120pcs</td>
			<td>These wires will require stripping of plastic ends and carefully removing one of the 2 plastic casings</td>
		</tr>
		<tr>
			<td>Aluminum seals</td>
			<td>Fisher</td>
			<td>0337523C</td>
			<td>Thermo Scientific National Headspace 20 mm Crimp Seals</td>
		</tr>
		<tr>
			<td>Ferric chloride hexahydrate</td>
			<td>Fisher</td>
			<td>I88-100&#160;</td>
			<td>Ferric&#160;Chloride&#160;Hexahydrate&#160;(Lumps/Certified ACS)</td>
		</tr>
		<tr>
			<td>Ferrous chloride tetrahydrate</td>
			<td>Fisher</td>
			<td>I90500</td>
			<td>Ferrous Chloride Tetrahydrate (Crystalline/Certified)</td>
		</tr>
		<tr>
			<td>Gear Hose Clamps</td>
			<td>Glarks</td>
			<td>40Pcs</td>
			<td></td>
		</tr>
		<tr>
			<td>Gray butyl stoppers</td>
			<td>Fisher</td>
			<td>0337522AA</td>
			<td>Thermo Scientific National 20 mm Septa for Headspace Vials</td>
		</tr>
		<tr>
			<td>Pipette tips</td>
			<td>VWR</td>
			<td>53511-682</td>
			<td>pipette tips 0.5-10 microliters</td>
		</tr>
		<tr>
			<td>Serum bottles</td>
			<td>Sigma-Aldrich</td>
			<td>33110-U</td>
			<td>Vials, crimp top, serum bottle, size 100 mL, clear glass, outer diameter x height 51.7 mm x 94.5 mm. For these experiments, the bottom of the serum bottle should be cut off.</td>
		</tr>
		<tr>
			<td>Sodium hydroxide</td>
			<td>Sigma-Aldrich</td>
			<td>S5881</td>
			<td>reagent grade, &#8805;98%, pellets (anhydrous)</td>
		</tr>
		<tr>
			<td>Sodium sulfide nonahydrate</td>
			<td>Fisher</td>
			<td>S425212</td>
			<td>Sodium Sulfide Nonahydrate (Crystalline/Certified ACS).&#160; Store at -20 &#176;C. Only open in a glove box or fume hood. Releases toxic H2S gas; all sulfide-containing solutions must be kept in a glove box or fume hood.</td>
		</tr>
		<tr>
			<td>syringe heater&#160;</td>
			<td>Syringepump.com</td>
			<td>HEATER-KIT-5SP&#160;</td>
			<td>Clamp gear hose clamps around heating blanket</td>
		</tr>
		<tr>
			<td>Syringe needles (16 gauge)</td>
			<td>Fisher</td>
			<td>14-826-18B</td>
			<td>BD General Use and PrecisionGlide Hypodermic Needles, 16 G x 1.5 in. (38 mm)</td>
		</tr>
		<tr>
			<td>Syringe Pump</td>
			<td>Syringepump.com</td>
			<td>NE-4000</td>
			<td>Dual or multiple channel, depending on desired number of simultaneous experiments</td>
		</tr>
		<tr>
			<td>Syringes (10 mL)</td>
			<td>Fisher</td>
			<td>14-823-16E</td>
			<td>BD Syringe with Luer-Lok Tips (Without Needle)</td>
		</tr>
		<tr>
			<td>Tubing</td>
			<td>Cole Parmer</td>
			<td>EW-06407-71</td>
			<td>Tygon Lab Tubing, Non-DEHP, 1/16&#34; internal diameter X 1/8&#34; outer diameter</td>
		</tr>
		<tr>
			<td>Water Circulation Pump&#160;</td>
			<td>Bayite&#160;</td>
			<td>BYT-7A015&#160;</td>
			<td>May need two people to help prime pump</td>
		</tr>
	</tbody>
</table>

simulation of early earth hydrothermal chimneys in a thermal gradient environment

Deep sea hydrothermal vents are self-organizing precipitates generated from geochemical disequilibria and have been proposed as a possible setting for the emergence of life. The growth of hydrothermal chimneys in a thermal gradient environment within an early Earth vent system was successfully simulated by using different hydrothermal simulants, such as sodium sulfide, which were injected into an early Earth ocean simulant containing dissolved ferrous iron. Moreover, an apparatus was developed to sufficiently cool the ocean simulant to near 0 &#176;C in a condenser vessel immersed in a cold water bath while injecting a sulfide solution at hot to room temperatures, effectively creating an artificial chimney structure in a temperature gradient environment over a period of a few hours. Such experiments with different chemistries and variable temperature&#160;gradients resulted in a variety of morphologies in the chimney structure. The use of ocean and hydrothermal fluid simulants at room temperature resulted in vertical chimneys, whereas the combination of a hot hydrothermal fluid and cold ocean simulant inhibited the formation of robust chimney structures. The customizable 3D printed condenser created for this study acts as a jacketed reaction vessel that can be easily modified and used by different researchers. It will allow the careful control of injection rate and chemical composition of vent and ocean simulants, which should help accurately simulate prebiotic reactions in chimney systems with thermal gradients similar to those of natural systems.

As in previous studies1,2,13,29; once the hydrothermal fluid simulant reached the ocean vial, a mineral precipitate structure began to form that grew thicker and taller for the duration of the injection. The iron sulfide chimneys were delicate structures that were not very robust and were easily disaggregated if the ocean vial or injection was physically disturbed. This is consistent with results from previous studies3. The chemical concentration of the sulfide solution also played a vital role in the morphology of the sulfide chimneys. More concentrated solutions of sulfide allowed for taller and sturdy mineral precipitates, as shown in Figure 5, whereas lower concentrations of sulfide solutions produced weak chimney structures. In some cases, no structure was formed, only a liquid sulfide-mineral &#34;soup&#34; was created, that would eventually settle out as a sediment (Figure 3D). This occurred in both thermal and non-thermal gradient conditions.
In thermal gradient chimney experiments with iron sulfide, solid chimney structures generally did not coalesce as well as they did at room temperature. Figure 3E-H shows the morphology of an iron sulfide chimney grown between a cold ocean and room-temperature hydrothermal fluid. The chimneys in the temperature gradient were string-like and tenuous in nature, whereas non-thermal gradient results (Figure 3A-D) show more semi-permanent structures. The same was true when the hydrothermal fluid was heated (Figure 4). The exception was at higher sulfide and iron concentrations (Figure 5) where a solid iron sulfide chimney was formed between a room-temperature hydrothermal solution and cold ocean simulant.
The effect of a thermal gradient on the growth of iron hydroxide chimneys was also tested. The results showed patterns that were similar to those of the iron sulfide chimney: while the room-temperature iron hydroxide experiment resulted in a more robust chimney precipitate, the thermal gradient experiment between the warm hydrothermal fluid and the cold ocean resulted in a smaller mound of chimney material that did not coalesce vertically (Figure 6). In contrast to the tall upright structures of iron hydroxide chimneys observed in previous work (in room-temperature experiments)29, our thermal gradient experiment showed a different morphology.
<img alt="Figure 1" class="xfigimg" src="/files/ftp_upload/61789/61789fig01.jpg" /> 
Figure 1: Thermal gradient chimney apparatus.&#160;<a href="https://www.jove.com/files/ftp_upload/61789/61789fig01large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 2" class="xfigimg" src="/files/ftp_upload/61789/61789fig02.jpg" /> 
Figure 2:&#160;3D printed condenser. (A) Schematic of a 3D printed condenser showing&#160;condenser dimensions. (B) Placement of a glass ocean vessel inside the condenser to cool the ocean simulant. <a href="https://www.jove.com/files/ftp_upload/61789/61789fig02large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 3" class="xfigimg" src="/files/ftp_upload/61789/61789fig03.jpg" /> 
Figure 3: A variety of thermal and non-thermal gradient chimneys. (A-D) Non-thermal gradient control experiment from room-temperature hydrothermal fluid (HTF) to room-temperature ocean simulant. (A) 10 mM Na2S&#8226;9H2O HTF and 20mM FeCl2&#183;4H2O ocean simulant. (B) 20 mM Na2S&#8226;9H2O HTF and 10 mM FeCl2&#183;4H2O ocean simulant. (C) 20 mM Na2S&#8226;9H2O HTF and 20mM FeCl2&#183;4H2O ocean simulant. (D) 20 mM Na2S&#8226;9H2O HTF and 20mM FeCl2&#183;4H2O ocean simulant. (E-H) Thermal gradient chimney experiment from room-temperature HTF simulant to a cold ocean reservoir (~5-10 &#176;C). (E)&#160;20 mM Na2S&#8226;9H2O HTF and 10 mM FeCl2&#183;4H2O ocean simulant. (F) 10 mM Na2S&#8226;9H2O HTF and 20 mM FeCl2&#183;4H2O ocean simulant. (G) 20 mM Na2S&#8226;9H2O HTF and 10 mM FeCl2&#183;4H2O ocean simulant. (H) 10 mM Na2S&#8226;9H2O HTF and 20 mM FeCl2&#183;4H2O ocean simulant. <a href="https://www.jove.com/files/ftp_upload/61789/61789fig03large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 4" class="xfigimg" src="/files/ftp_upload/61789/61789fig04.jpg" /> 
Figure 4: Thermal gradient experiment. Experiment performed with warm (~35-40 &#176;C) 20 mM Na2S&#8226;9H2O solution injected into a cold (~5-10 &#176;C) 20 mM FeCl2&#183;4H2O ocean simulant, producing small chimney strands. <a href="https://www.jove.com/files/ftp_upload/61789/61789fig04large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 5" class="xfigimg" src="/files/ftp_upload/61789/61789fig05.jpg" /> 
Figure 5: Effect of concentration of ocean simulant on chimneys. Higher concentrations (~50 mM Na2S&#8226;9H2O, 10 mM FeCl2&#183;4H2O, and 200 mM NaCl) of anoxic ocean simulants produced more structurally robust, taller chimneys. Room-temperature sulfide solution was injected into 2-10 &#176;C ocean simulant. <a href="https://www.jove.com/files/ftp_upload/61789/61789fig05large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 6" class="xfigimg" src="/files/ftp_upload/61789/61789fig06.jpg" /> 
Figure 6: Simultaneous growth of thermal and non-thermal gradient chimneys. (A) 100 mM FeCl2&#183;4H2O + 100 mM FeCl3&#183;6H2O ocean solution with a 200 mM NaOH hydrothermal fluid (HTF) fluid simulant at room temperature. (B) Thermal gradient experiment with the same concentrations with warm HTF at ~35-50 &#176;C into cold ocean simulant at ~5-10 &#176;C. <a href="https://www.jove.com/files/ftp_upload/61789/61789fig06large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always">
	<tbody>
		<tr>
			<td>Hydrothermal Fluid Chemistry (Injection)</td>
			<td>Ocean Chemistry (Reservoir)</td>
		</tr>
		<tr>
			<td>50 mM Na2S</td>
			<td>10 mM FeCl2&#183;4H2O + 200 mM NaCl or NaHCO3</td>
		</tr>
		<tr>
			<td>20 mM Na2S</td>
			<td>10 mM FeCl2&#183;4H2O + 200 mM NaCl or NaHCO3</td>
		</tr>
		<tr>
			<td>10 mM Na2S</td>
			<td>20 mM FeCl2&#183;4H2O + 200 mM NaCl or NaHCO3</td>
		</tr>
		<tr>
			<td>200 mM NaOH</td>
			<td>100 mM FeCl2&#183;4H2O +&#160; 100 mM FeCl3&#183;6H2O</td>
		</tr>
	</tbody>
</table>
Table 1:&#160;Concentration matrix for both simulated ocean and hydrothermal fluid injection solutions.
<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always">
	<tbody>
		<tr>
			<td>HTF&#160;&#176;C</td>
			<td colspan="2" style="text-align:center">Ocean Simulant Temperatures&#160;&#176;C</td>
		</tr>
		<tr>
			<td>~23</td>
			<td>~23</td>
			<td>5-10</td>
		</tr>
		<tr>
			<td>~35-50&#160;</td>
			<td>~23</td>
			<td>5-10</td>
		</tr>
	</tbody>
</table>
Table 2:&#160;Thermal gradient experimental matrix. The hydrothermal fluid (HTF) temperature refers to the temperature of the fluid in the syringe; the actual temperature at the inlet to the ocean vial was between 20 and 35 degrees lower than the temperature within the syringe (~70 &#176;C) (see Supplementary Appendix 1, Figure 3, and Figure 4).
Supplementary printable file.&#160;<a href="https://www.jove.com/files/ftp_upload/61789/Condenser for JPL smaller circle.STL" target="_blank">Please click here to download this file.</a>
Supplementary Appendix 1.&#160;<a href="https://www.jove.com/files/ftp_upload/61789/App1 Temperature-tests.docx" target="_blank">Please click here to download this file.</a>
Supplementary Appendix 2.&#160;<a href="https://www.jove.com/files/ftp_upload/61789/App2 Thermistor-setup.docx" target="_blank">Please click here to download this file.</a>
Supplementary Appendix 3.&#160;<a href="https://www.jove.com/files/ftp_upload/61789/App3 Other supplies.docx" target="_blank">Please click here to download this file.</a>

Watch this Scientific Journal Video about Simulation of Early Earth Hydrothermal Chimneys in a Thermal Gradient Environment at JoVE.com

Simulation of Early Earth Hydrothermal Chimneys in a Thermal Gradient Environment

The goal of this protocol is to form simulated hydrothermal chimneys via chemical garden injection experiments and introduce a thermal gradient across the inorganic precipitate membrane, using a 3D printable condenser that can be reproduced for educational purposes.

Deep sea hydrothermal vents are self-organizing precipitates generated from geochemical disequilibria and have been proposed as a possible setting for the ...

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3.2K Views.  California Institute of Technology. The goal of this protocol is to form simulated hydrothermal chimneys via chemical garden injection experiments and introduce a thermal gradient across the inorganic precipitate membrane, using a 3D printable condenser that can be reproduced for educational purposes.

Video: Simulation of Early Earth Hydrothermal Chimneys in a Thermal Gradient Environment

Optimize Flue Gas Settings to Promote Microalgae Growth in Photobioreactors via Computer Simulations

Flue gas from power plants can promote algal cultivation and reduce greenhouse gas emissions1. Microalgae not only capture solar energy more efficiently than plants3, but also synthesize advanced biofuels2-4. Generally, atmospheric CO2 is not a sufficient source for supporting maximal algal growth5. On the other hand, the high concentrations of CO2 in industrial exhaust gases have adverse effects on algal physiology. Consequently, both cultivation conditions (such as nutrients and light) and the control of the flue gas flow into the photo-bioreactors are important to develop an efficient &ldquo;flue gas to algae&rdquo; system. Researchers have proposed different photobioreactor configurations4,6 and cultivation strategies7,8 with flue gas. Here, we present a protocol that demonstrates how to use models to predict the microalgal growth in response to flue gas settings. We perform both experimental illustration and model simulations to determine the favorable conditions for algal growth with flue gas. We develop a Monod-based model coupled with mass transfer and light intensity equations to simulate the microalgal growth in a homogenous photo-bioreactor. The model simulation compares algal growth and flue gas consumptions under different flue-gas settings. The model illustrates: 1) how algal growth is influenced by different volumetric mass transfer coefficients of CO2; 2) how we can find optimal CO2 concentration for algal growth via the dynamic optimization approach (DOA); 3) how we can design a rectangular on-off flue gas pulse to promote algal biomass growth and to reduce the usage of flue gas. On the experimental side, we present a protocol for growing Chlorella under the flue gas (generated by natural gas combustion). The experimental results qualitatively validate the model predictions that the high frequency flue gas pulses can significantly improve algal cultivation.

Flue gas from power plants is a cheap CO2 source for algal growth. We have built prototype &#34;flue gas to algal cultivation&#34; systems and described how to scale up the algal cultivation process. We have demonstrated the use of a mass-transfer bio-reaction model to simulate and to design the optimal operation of flue gas for the growth of Chlorella sp. in algal photo-bioreactors.

Flue gas from power plants can promote algal cultivation and reduce greenhouse gas emissions1. Microalgae not only capture solar energy more efficiently ...

A Protocol for Conducting Rainfall Simulation to Study Soil Runoff

Rainfall is a driving force for the transport of environmental contaminants from agricultural soils to surficial water bodies via surface runoff. The objective of this study was to characterize the effects of antecedent soil moisture content on the fate and transport of surface applied commercial urea, a common form of nitrogen (N) fertilizer, following a rainfall event that occurs within 24&#160;hr&#160;after fertilizer application. Although urea is assumed to be readily hydrolyzed to ammonium and therefore not often available for transport, recent studies suggest that urea can be transported from agricultural soils to coastal waters where it is implicated in harmful algal blooms. A rainfall simulator was used to apply a consistent rate of uniform rainfall across packed soil boxes that had been prewetted to different soil moisture contents. By controlling rainfall and soil physical characteristics, the effects of antecedent soil moisture on urea loss were isolated. Wetter soils exhibited shorter time from rainfall initiation to runoff initiation, greater total volume of runoff, higher urea concentrations in runoff, and greater mass loadings of urea in runoff. These results also demonstrate the importance of controlling for antecedent soil moisture content in studies designed to isolate other variables, such as soil physical or chemical characteristics, slope, soil cover, management, or rainfall characteristics. Because rainfall simulators are designed to deliver raindrops of similar size and velocity as natural rainfall, studies conducted under a standardized protocol can yield valuable data that, in turn, can be used to develop models for predicting the fate and transport of pollutants in runoff.

A rainfall simulator was used to apply a consistent rate of uniform rainfall to packed soil boxes in a study of the fate and transport of urea, a nonpoint source environmental contaminant. Under uniform soil and rainfall conditions, antecedent soil moisture content exerted strong control over urea loss in surface runoff.

Rainfall is a driving force for the transport of environmental contaminants from agricultural soils to surficial water bodies via surface runoff. The ...

Evaluation of Integrated Anaerobic Digestion and Hydrothermal Carbonization for Bioenergy Production

Lignocellulosic biomass is one of the most abundant yet underutilized renewable energy resources. Both anaerobic digestion (AD) and hydrothermal carbonization (HTC) are promising technologies for bioenergy production from biomass in terms of biogas and HTC biochar, respectively. In this study, the combination of AD and HTC is proposed to increase overall bioenergy production. Wheat straw was anaerobically digested in a novel upflow anaerobic solid state reactor (UASS) in both mesophilic (37 &#176;C) and thermophilic (55 &#176;C) conditions. Wet digested from thermophilic AD was hydrothermally carbonized at 230 &#176;C for 6 hr for HTC biochar production. At thermophilic temperature, the UASS system yields an average of 165 LCH4/kgVS&#160;(VS: volatile solids) and 121 L CH4/kgVS&#160;at mesophilic AD over the continuous operation of 200 days. Meanwhile, 43.4 g of HTC biochar with 29.6 MJ/kgdry_biochar was obtained from HTC of 1 kg digestate (dry basis) from mesophilic AD. The combination of AD and HTC, in this particular set of experiment yield 13.2 MJ of energy per 1 kg of dry wheat straw, which is at least 20% higher than HTC alone and 60.2% higher than AD only.

A novel Upflow Anaerobic Solid State (UASS) reactor was used for biogas production from fibrous feedstock. Digestate from UASS reactor was hydrothermally carbonized into HTC biochar in a pressurized batch reactor. The integration of the two bioenergy concepts was applied in this study to increase overall bioenergy production.

Lignocellulosic biomass is one of the most abundant yet underutilized renewable energy resources. Both anaerobic digestion (AD) and hydrothermal ...

A CO2 Concentration Gradient Facility for Testing CO2 Enrichment and Soil Effects on Grassland Ecosystem Function

Continuing increases in atmospheric carbon dioxide concentrations (CA) mandate techniques for examining impacts on terrestrial ecosystems. Most experiments examine only two or a few levels of CA concentration and a single soil type, but if CA can be varied as a gradient from subambient to superambient concentrations on multiple soils, we can discern whether past ecosystem responses may continue linearly in the future and whether responses may vary across the landscape. The Lysimeter Carbon Dioxide Gradient Facility applies a 250 to 500 &#181;l L-1 CA gradient to Blackland prairie plant communities established on lysimeters containing clay, silty clay, and sandy soils. The gradient is created as photosynthesis by vegetation enclosed in in temperature-controlled chambers progressively depletes carbon dioxide from air flowing directionally through the chambers. Maintaining proper air flow rate, adequate photosynthetic capacity, and temperature control are critical to overcome the main limitations of the system, which are declining photosynthetic rates and increased water stress during summer. The facility is an economical alternative to other techniques of CA enrichment, successfully discerns the shape of ecosystem responses to subambient to superambient CA enrichment, and can be adapted to test for interactions of carbon dioxide with other greenhouse gases such as methane or ozone.

A CO2 Concentration Gradient Facility for Testing CO2 Enrichment and Soil Effects on Grassland Ecosystem Function

The Lysimeter Carbon Dioxide Gradient Facility creates a 250 to 500 &#181;l L-1 linear carbon dioxide gradient in temperature-controlled chambers housing grassland plant communities on clay, silty clay, and sandy soil monoliths. The facility is used to determine how past and future carbon dioxide levels affect grassland carbon cycling.

Continuing increases in atmospheric carbon dioxide concentrations (CA) mandate techniques for examining impacts on terrestrial ecosystems. Most ...

Kinematic History of a Salient-recess Junction Explored through a Combined Approach of Field Data and Analog Sandbox Modeling

Within fold-thrust belts, the junctions between salients and recesses may hold critical clues to the overall kinematic history. The deformation history within these junctions is best preserved in areas where thrust sheets extend from a salient through an adjacent recess. We examine one such junction within the Sevier fold-thrust belt (western United States) along the Leamington transverse zone, northern Utah. Deformation within this junction took place by faulting and cataclastic flow. Here, we describe a protocol that examines these fault patterns to better understand the kinematic history of the field area. Fault data is supplemented by analog sandbox experiments. This study suggests that, in detail, deformation within the overlying thrust sheet may not directly reflect the underlying basement structure. We demonstrate that this combined field-experimental approach is easy, accessible, and may provide more details to the deformation preserved in the crust than other more expensive methods, such as computer modeling. In addition, the sandbox model may help to explain why and how these details formed. This method can be applied throughout fold-thrust belts, where upper-crustal rocks are well preserved. In addition, it can be modified to study any part of the upper crust that has been deformed via elastico-frictional mechanisms. Finally, this combined approach may provide more details as to how fold-thrust belts maintain critical-taper and serve as potential targets for natural resource exploration.

Kinematic histories of fold-thrust belts are typically based on careful examinations of high-grade metamorphic rocks within a salient. We provide a novel method of understanding fold-thrust belts by examining salient-recess junctions. We analyze the oft-ignored upper crustal rocks using a combined approach of detailed fault analysis with experimental sandbox modeling.

Within fold-thrust belts, the junctions between salients and recesses may hold critical clues to the overall kinematic history. The deformation history ...

Extraction and Analysis of Microbial Phospholipid Fatty Acids in Soils

Phospholipid fatty acids (PLFAs) are key components of microbial cell membranes. The analysis of PLFAs extracted from soils can provide information about the overall structure of terrestrial microbial communities. PLFA profiling has been extensively used in a range of ecosystems as a biological index of overall soil quality, and as a quantitative indicator of soil response to land management and other environmental stressors.
The standard method presented here outlines four key steps: 1. lipid extraction from soil samples with a single-phase chloroform mixture, 2. fractionation using solid phase extraction columns to isolate phospholipids from other extracted lipids, 3. methanolysis of phospholipids to produce fatty acid methyl esters (FAMEs), and 4. FAME analysis by capillary gas chromatography using a flame ionization detector (GC-FID). Two standards are used, including 1,2-dinonadecanoyl-sn-glycero-3-phosphocholine (PC(19:0/19:0)) to assess the overall recovery of the extraction method, and methyl decanoate (MeC10:0) as an internal standard (ISTD) for the GC analysis.

Phospholipid fatty acids provide information about the structure of soil microbial communities. We present methods for extraction from soil samples with a single-phase chloroform mixture, fractionation of extracted lipids using solid phase extraction columns, and methanolysis to produce fatty acid methyl esters, which are analyzed by capillary gas chromatography.

Phospholipid fatty acids (PLFAs) are key components of microbial cell membranes. The analysis of PLFAs extracted from soils can provide information about ...

Use of a Filter Cartridge for Filtration of Water Samples and Extraction of Environmental DNA

Recent studies demonstrated the use of environmental DNA (eDNA) from fishes to be appropriate as a non-invasive monitoring tool. Most of these studies employed disk fiber filters to collect eDNA from water samples, although a number of microbial studies in aquatic environments have employed filter cartridges, because the cartridge has the advantage of accommodating large water volumes and of overall ease of use. Here we provide a protocol for filtration of water samples using the filter cartridge and extraction of eDNA from the filter without having to cut open the housing. The main portions of this protocol consists of 1) filtration of water samples (water volumes &#8804;4 L or &gt;4 L); (2) extraction of DNA on the filter using a roller shaker placed in a preheated incubator; and (3) purification of DNA using a commercial kit. With the use of this and previously-used protocols, we perform metabarcoding analysis of eDNA taken from a huge aquarium tank (7,500 m3) with known species composition, and show the number of detected species per library from the two protocols as the representative results. This protocol has been developed for metabarcoding eDNA from fishes, but is also applicable to eDNA from other organisms.

We describe a protocol for filtration of water samples with a filter cartridge and extraction of environmental DNA (eDNA) without having to cut open the housing to remove the filter. This protocol is developed for metabarcoding eDNA from fishes, but is also applicable to eDNA from other organisms.

Recent studies demonstrated the use of environmental DNA (eDNA) from fishes to be appropriate as a non-invasive monitoring tool. Most of these studies ...

Production and Measurement of Organic Particulate Matter in a Flow Tube Reactor

Organic particulate matter (PM) is increasingly recognized as important to the Earth's climate system as well as public health in urban regions, and the production of synthetic PM for laboratory studies have become a widespread necessity. Herein, experimental protocols demonstrate approaches to produce aerosolized organic PM by &#945;-pinene ozonolysis in a flow tube reactor. Methods are described for measuring the size distributions and morphology of the aerosol particles. The video demonstrates basic operations of the flow tube reactor and related instrumentation. The first part of the video shows the procedure for preparing gas-phase reactants, ozonolysis, and production of organic PM. The second part of the video shows the procedures for determining the properties of the produced particle population. The particle number-diameter distributions show different stages of particle growth, namely condensation, coagulation, or a combination of both, depending on reaction conditions. The particle morphology is characterized by an aerosol particle mass analyzer (APM) and a scanning electron microscope (SEM). The results confirm the existence of non-spherical particles that have grown from coagulation for specific reaction conditions. The experimental results also indicate that the flow tube reactor can be used to study the physical and chemical properties of organic PM for relatively high concentrations and short time frames.

This paper describes the operation procedure for the flow tube reactor and related data collection. It shows the protocols for setting the experiments, recording data and generating the number-diameter distribution as well as the particle mass information, which gives useful information about chemical and physical properties of the organic aerosols.

Organic particulate matter (PM) is increasingly recognized as important to the Earth's climate system as well as public health in urban regions, and the ...

Data Processing Methods for 3D Seismic Imaging of Subsurface Volcanoes: Applications to the Tarim Flood Basalt

The morphology and structure of plumbing systems can provide key information on the eruption rate and style of basalt lava fields. The most powerful way to study subsurface geo-bodies is to use industrial 3D&#160;reflection seismological imaging. However, strategies to image subsurface volcanoes are very different from that of oil and gas reservoirs. In this study, we process seismic data cubes from the Northern Tarim Basin, China, to illustrate how to visualize sills through opacity rendering techniques and how to image the conduits by time-slicing. In the first case, we isolated probes by the seismic horizons marking the contacts between sills and encasing strata, applying opacity rendering techniques to extract sills from the seismic cube. The resulting detailed sill morphology shows that the flow direction is from the dome center to the rim. In the second seismic cube, we use time-slices to image the conduits, which corresponds to marked discontinuities within the encasing rocks. A set of time-slices obtained at different depths show that the Tarim flood basalts erupted from central volcanoes, fed by separate pipe-like conduits.

Three-dimensional (3D) reflection seismology is a powerful method for imaging subsurface volcanoes. By using industrial 3D seismological data from the Tarim Basin, we illustrate how to extract the sills and the conduits of subsurface volcanoes from seismic data cubes.

The morphology and structure of plumbing systems can provide key information on the eruption rate and style of basalt lava fields. The most powerful way ...

Determination of the Settling Rate of Clay/Cyanobacterial Floccules

The mechanisms underpinning the deposition of fine-grained, organic-rich sediments are still largely debated. Specifically, the impact of the interaction of clay particles with reactive, planktonic cyanobacterial cells to the sedimentary record is under studied. This interaction is a potentially major contributor to shale depositional models. Within a lab setting, the flocculation and sedimentation rates of these materials can be examined and measured in a controlled environment. Here, we detail a protocol for measuring the sedimentation rate of cyanobacterial/clay mixtures. This methodology is demonstrated through the description of two sample experiments: the first uses kaolin (a dehydrated form of kaolinite) and Synechococcus sp. PCC 7002 (a marine coccoid cyanobacteria), and the second uses kaolin and Synechocystis sp. PCC 6803 (a freshwater coccoid cyanobacteria). Cyanobacterial cultures are mixed with varying amounts of clay within a specially designed tank apparatus optimized to allow continuous, real-time video and photographic recording. The sampling procedures are detailed as well as a post-collection protocol for precise measurement of chlorophyll a from which the concentration of cyanobacterial cells remaining in suspension can be determined. Through experimental replication, a profile is constructed that displays sedimentation rate.

The interaction and sedimentation of the clay and bacterial cells within the marine realm, observed in natural environments, can be best investigated in a controlled lab environment. Here, we describe a detailed protocol, which outlines a novel method for measuring the sedimentation rate of clay and cyanobacterial floccules.

The mechanisms underpinning the deposition of fine-grained, organic-rich sediments are still largely debated. Specifically, the impact of the interaction ...