We want to thank Xiaolan Ye, as this protocol was developed as a result of an observation she originally made. We thank all the past and present members of the Petrascheck Lab for their help with the development and optimization of this protocol. This work was funded by R21 AG080376 (to M.P.). Some strains were provided by the CGC, which is funded by the NIH Office of Research Infrastructure Programs (P40 OD010440).

<img alt="Figure 1" class="xfigimg" src="/files/ftp_upload/66422/66422fig01.jpg" /> 
Figure 1: Schematic of the bacterial clearance assay.&#160;Graphical outline of the main sections of the protocol (Top-to-bottom): Preparing bacteria, synchronizing the worm population, seeding in 96-well plates, sterilizing worms, adding drugs, measuring OD600&#160;on day 1 and day 4. A detailed description of these specific steps is indicated to the left of each depiction. Abbreviations: OD = optical density; FUdR = fluorodeoxyuridine.&#160;<a href="https://www.jove.com/files/ftp_upload/66422/66422fig01large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
1. Bacteria preparation
NOTE: This section details the preparation of the feeding bacteria used in this assay. The specific E. coli strain used in the assay is called OP50. OP50 is the most widely used strain to feed C. elegans. The OP50 strain used is Carbenicillin/Ampicillin-resistant, which prevents cross-contamination of the worm culture with other bacteria9.
<ol>
	<li>Prepare the OP50 4-5 days in advance, and x-ray irradiate a day prior to usage. Ensure that all materials encountering OP50 are sterile29,30.</li>
	<li>Day -8: Wednesday (week 1):
	<ol>
		<li>Prepare the preinoculum by inoculating 5 mL of LB with 100 &#181;g/mL Ampicillin and 0.1 &#181;g/mL Amphotericin B, and a single OP50 colony and incubate for approximately 6 h at 37 &#176;C in a bacterial shaker. Inoculate early to allow sufficient growth for the culture to become cloudy.</li>
		<li>Once the culture is cloudy, dilute the preinoculum culture of OP50 by 1:2,000 in 250 mL of TB containing 100 &#181;g/mL Ampicillin. Incubate the culture overnight in a bacterial shaker for 17-19 h at 37 &#176;C. 
		NOTE: The culture should not be allowed to grow longer than 19 h.</li>
	</ol>
	</li>
	<li>Day -7: Thursday (week 1)
	<ol>
		<li>After the 17-19 h incubation, transfer the OP50 liquid culture into a sterile centrifugation tube and centrifuge&#160;for 15 min at 3,100 &#215; g in a tabletop centrifuge at 4&#160;&#176;C.</li>
		<li>Discard the supernatant, resuspend the OP50 pellet with sterile water, and re-centrifuge. Repeat this wash 2x.</li>
		<li>After the second wash, discard the supernatant, resuspend the OP50 pellet in sterile water to a volume of 50 mL and transfer it to a preweighed 50 mL conical tube. Pellet the OP50 by centrifugation for 20 min at 3,100 &#215; g in a tabletop centrifuge at 4&#160;&#176;C.</li>
		<li>After the third wash, carefully remove all the remaining supernatant, ensuring no water remains in the tube. Calculate the weight of the pellet by subtracting the weight of the empty centrifugation tube from the weight of the centrifugation tube with the pellet. 
		NOTE: Pellet weights typically range from 3-3.5 g.</li>
		<li>Thoroughly resuspend the OP50 pellet in the S-complete buffer to a concentration of 100 mg/ mL, ensuring no clumps are present.</li>
		<li>Ensure that the concentration of OP50 at 100 mg/mL corresponds to 2 &#215; 1010 bacteria/mL. If the relationship between the optical density and the number of bacteria per mL is known, determine the bacterial concentration per mL spectrophotometrically. If necessary, use S-complete buffer to adjust the concentration of the OP50 feeding solution to 2 &#215; 1010 bacteria/mL.</li>
		<li>Test the OP50 on an agar plate to determine if it has been contaminated.</li>
		<li>Store the OP50 suspended in S-complete buffer at 4 &#176;C.</li>
	</ol>
	</li>
</ol>

<ol start="4">
	<li>Day -3: Monday (week 2)
	<ol>
		<li>Kill the bacteria via X-ray irradiation to prevent bacterial growth during the assay.</li>
	</ol>
	</li>
</ol>
2. Synchronous worm culture preparation
NOTE: This section discusses the preparation of a synchronous worm population. All materials that come into contact with the worm populations are sterile. All plates are kept at 20 &#176;C unless otherwise noted.
<ol>
	<li>Day -6: Friday (week 1), 4:00 p.m.
	<ol>
		<li>Transfer the animals to a fresh plate.
		<ol>
			<li>Take an NGM plate on which most of the worm population consists of starved L1 larvae. 
			NOTE: A mixed population will also produce results. Using L1 worms that have been starved for a long time may affect the feeding behavior in the current or future generations, as starvation can leave epigenetic marks for at least three generations.</li>
			<li>Wash the worms off with no more than 1 mL of sterile water. Aliquot ~300 &#181;L of the washed-off worm population onto NGM plates seeded with concentrated OP50 (~300 mg/mL). Allow the plates to dry under either a plate drier or a Bunsen burner. Incubate the plates at 20&#176;C until much of the population contains gravid adults (Monday). 
			NOTE: This time frame is optimized for a wild-type N2 worm population and may vary from strain to strain. Worms with development delays should be taken into account and be chunked earlier and/or seeded earlier so that all strains tested will reach adulthood simultaneously.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>Day -3: Monday (week 2) 10:00 a.m.
	<ol>
		<li>Establishing a synchronous population 
		CAUTION! Bleach is corrosive to skin and eyes. Handling it requires gloves and safety glasses.
		<ol>
			<li>Collect worms by washing them off the plate with up to 10 mL of sterile water. Transfer this worm/water solution into a 15 mL conical tube.</li>
			<li>Wash the worms by gravity sink on the bench top for approximately 4 min (conversely, wash by centrifugation for 2 min in a tabletop centrifuge at 310 &#215; g.</li>
			<li>Discard the supernatant through aspiration using a small tip and add up to 15 mL of sterile water. Repeat 3x.</li>
			<li>Remove the supernatant and add 5 mL of a freshly prepared bleach/NaOH solution (1.8 mL of household bleach, 0.5 mL of 10 N NaOH, 7.7&#160;mL of dH2O).</li>
			<li>Incubate for 5 min at room temperature or until the worms break open. Vortex gently every minute for at least 10 s. Monitor the progress under the dissecting microscope. 
			NOTE: The time necessary to break open the worms may vary from strain to strain. Leaving the worms in the bleach solution for too long may result in nonviable eggs.</li>
			<li>Add M9 buffer to neutralize the reaction once all the adults break open or dissolve (final volume to be 15 mL) and centrifuge for 2 min at 1,300&#160;&#215;&#160;g.</li>
			<li>Wash the eggs 3x with 13 mL of M9 buffer.</li>
			<li>Wash the eggs once with 10 mL of S-complete buffer by centrifuging for 2 min at 1,300 &#215; g.</li>
			<li>Aspirate the supernatant, add 10 mL of S-complete, and transfer the suspension to a fresh 15 mL conical tube. Gently rotate the tube at room temperature overnight on a nutator or similar device.</li>
			<li>Optional: If adult carcasses are present after final centrifugation in S-complete buffer, filter the worm solution through a 40 &#181;m cell strainer.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>Day -2: Tuesday (week 2), 1:00 p.m.
	<ol>
		<li>Seeding the animals into plates
		<ol>
			<li>Using a dissecting scope, check if the worms have hatched. Determine the concentration of worms in the S-complete buffer by counting the worm population in 10 &#181;L drops using a dissecting scope; count 5-10 drops for each sample. If the concentration of worms in each 10 &#181;L drop exceeds 30 worms per drop, dilute the total stock with S-complete to a lower worm density per drop to facilitate counting.</li>
			<li>Seed the liquid worm mixture into each well of a 96-well plate at a volume of 120 &#181;L as follows (final concentrations): 60 worms/mL in S-complete, 50 &#181;g/mL Carbenicillin, 0.1 &#181;g/mL Amphotericin, and 6 mg/mL of OP50 prepared in section 1. 
			NOTE: The total volume to be prepared depends on the number of plates (~12 mL per 96-well plate). There should be 6-12 worms in each well. Alternatively, a large particle flow cytometry, such as the COPAS FP by Union Biometrica, can be used to precisely sort 10 worms into each well (See crowding effect section).</li>
			<li>Also include a no-worms liquid mixture: 50 &#181;g/mL of Carbenicillin, 0.1 &#181;g/mL Amphotericin, and 6 mg/mL of OP50 prepared in section 1.</li>
			<li>Put 120 &#181;L of the no-worms mixture into row H of the 96-well plate, which is used to determine the selflysis&#160;values, as mentioned earlier. Put 120 &#181;L per well of the mixture with worms in rows A-G. 
			NOTE: Ensure the worms are kept in suspension during pipetting (see Figure 2A, B). We use clear 96-well plates with a flat bottom. Our plate layout divides the plate to produce 4 or 6 conditions in which each pair of columns will be a different drug treatment or worm strain, and the bottom row will serve as a &#34;no worm&#34; control (Figure 2A, B).</li>
			<li>To avoid contamination and evaporation, seal the plate with a tape sealer. Incubate the plates for approximately 65 h at 20 &#176;C until the animals become L4 worms.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>Day 0: Thursday (week 2) before noon.
	<ol>
		<li>Sterilization of the worm population through the addition of Fluorodeoxyuridine (FUdR).
		<ol>
			<li>Add 30 &#181;L of a 0.6 mM FUdR stock solution to sterilize the animals in each well. Reseal the plate using tape sealers and shake the plates for 20 min on a microtiter plate shaker at 800 rpm. Return plates to the 20 &#176;C incubator. 
			NOTE: In this step, the final OP50 concentration is reduced from 6 mg/mL to 5 mg/mL (1 &#215; 109 bacteria/mL), and each well has a final volume of 150 &#181;L. It is crucial to add FUdR to the L4 stage before the animals reach adulthood.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>Day 1: Friday (week 2)
	<ol>
		<li>Add drugs to the culture.
		<ol>
			<li>By 9:00 a.m., confirm that most animals are gravid and each well contains several eggs. If necessary, add any drugs to the desired concentration (see the discussion).</li>
			<li>After adding the drug, seal the plates with tape sealer and shake the plates for 20 min at 800 rpm on a plate shaker. 
			NOTE: The shaking ensures that all bacterial clumps are dissolved without touching the sealer. Both bacterial clumps or liquid on the sealer will distort the OD600 reading. If liquid drops are on the sealer, briefly spin it for 10-20&#160;s at 310 &#215; g. Shake again on the shaker for 5&#160;min and measure.</li>
			<li>After 20 min of shaking on the microtiter plate shaker, remove the lid and the seal and measure the OD600 in a plate reader; this is the Day 1 OD600 measurement. Seal and return plates to a 20 &#176;C incubator. 
			NOTE: Because bacteria settle quickly, the reading should occur within 10 min after shaking the plates.</li>
			<li>Use an inverted microscope to check the population of worms for signs of contamination or toxicity if a drug has been added. Return the plates to the 20 &#176;C incubator.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>Day 4: Monday (week 3)
	<ol>
		<li>Take the Day 4 OD600 reading.
		<ol>
			<li>Repeat the reading procedure from Day 1 (step 2.5.1.3) to get the Day 4 OD600 value. Before the OD600 measurement, shake the plates for 20 min at 800 rpm on the microtiter plate shaker.</li>
			<li>On an inverted microscope, with ideally a 2x objective, count the population of worms in each well and record it in a spreadsheet. Return the plates to the 20 &#176;C incubator after counting. 
			NOTE: See a sample of our scoring sheet provided in&#160;Supplemental Material.</li>
			<li>After the Day 4 reading, the food intake measurements are complete. If required, keep these plates for lifespan analysis. 
			NOTE: This protocol is compatible with Solis and Petrascheck31.</li>
		</ol>
		</li>
	</ol>
	</li>
</ol>

3. Analysis of food intake data
<img alt="Figure 2" class="xfigimg" src="/files/ftp_upload/66422/66422fig2_v1.jpg" /> 
Figure 2: Design and analysis.&#160;(A, B) Possible plate designs for 4 and 6 conditions with the &#34;no worm&#34; control wells in row H. These wells are necessary to determine the&#160;selflysis&#160;rate. In each plate, always include an N2 untreated control population as a reference. (C) Sample data collected in the provided spreadsheet with the number of worms (green box), the two OD600&#160;measures on days 1 and 4 (orange boxes), the&#160;selflysis&#160;values (blue box), and the evaluation using formula (2) ((OD600&#160;-selflysis)/X0) in the red box. The specific example shown here uses the plate design shown in (B). Abbreviations: OD = optical density; X0 = number of worms per well.&#160;<a href="https://www.jove.com/files/ftp_upload/66422/66422fig2large_v1.jpg" style="font-size: 14px;" target="_blank">Please click here to view a larger version of this figure.</a>
NOTE: This section describes how the food intake data from section 2 of this protocol are analyzed. The first values to be calculated are the selflysis control values. Bacteria lyse over time in liquid, even in the absence of worms. This selflysis value can also be affected by many chemicals and needs to be controlled as it is relatively large compared to a worm&#39;s food intake. As described in step 2.3.1.4 and shown in the plate layout in Figure 2A, B, row H contains the same solution, excluding the worms. In our plate setup shown in Figure 2B, there are 14 wells per condition with two respective selflysis&#160;control wells (row H, &#34;no worms&#34;).
<ol>
	<li>Calculate the selflysis control values for the no-worms control wells in each condition using equation ( 1). For each replicate group of wells, ensure there are at least two no-worm control wells, as mentioned in step 2.3.1.4. Use the mean from all the no-worms control wells for the selflysis value for a replicate group. 
	Selfysis = mean(OD600 Day 1 - OD600 Day 4)&#160; &#160;&#160;(1) 
	NOTE: For the plate setup shown in Figure 2B, we would calculate six selflysis values, one for each of the six groups, by calculating the mean of the two selflysis&#160;control wells in row H.</li>
	<li>Calculate the food intake per worm using equation 
	<img alt="Equation 1" src="/files/ftp_upload/66422/66422equation2v2.jpg" />&#160; &#160;&#160; (2). 
	NOTE: Formula used in the spreadsheet (red box, Figure 2C) with X0 being the number of worms per well.</li>
	<li>After the food intake per worm is determined for each well, calculate the averages and standard deviation for the entire condition. 
	NOTE: For the plate setup shown in Figure 2B, 14 replicate wells per condition are sufficient for statistical comparisons.</li>
	<li>Normalize each condition to its respective N2 untreated control population. Indicate the change in feeding as a fold change or percentage of N2 feeding. 
	NOTE: Normalization is done because the absolute values of OD600/X0 from equation (2) can vary between experiments conducted on different days.</li>
</ol>

High-Throughput Assay to Measure Caenorhabditis elegans Food Intake and Lifespan

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J., Yang, Y., Clark, C., Petrascheck, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Proteostasis+is+differentially+modulated+by+inhibition+of+translation+initiation+or+elongation.">Proteostasis is differentially modulated by inhibition of translation initiation or elongation.</a> Elife. 12, e76465 (2023).</li><li>Perez-Gomez, A., 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=A+phenotypic+caenorhabditis+elegans+screen+identifies+a+selective+suppressor+of+antipsychotic-induced+hyperphagia.">A phenotypic caenorhabditis elegans screen identifies a selective suppressor of antipsychotic-induced hyperphagia.</a> Nat Commun. 9 (1), 5272 (2018).</li><li>Zapata, R. C., Zhang, D., Chaudry, B., Osborn, O. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Self-administration+of+drugs+in+mouse+models+of+feeding+and+obesity.">Self-administration of drugs in mouse models of feeding and obesity.</a> J Vis Exp. (172), 62775 (2021).</li><li>Zapata, R. C., 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=Targeting+clic1+for+the+treatment+of+obesity:+A+novel+therapeutic+strategy+to+reduce+food+intake+and+body+weight.">Targeting clic1 for the treatment of obesity: A novel therapeutic strategy to reduce food intake and body weight.</a> Mol Metab. 76, 101794 (2023).</li><li>Stuhr, N. L., Curran, S. P. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Bacterial+diets+differentially+alter+lifespan+and+healthspan+trajectories+in+C.">Bacterial diets differentially alter lifespan and healthspan trajectories in C.</a> elegans. Commun Biol. 3 (1), 653 (2020).</li><li>Stuhr, N. L., Curran, S. P. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Different+methods+of+killing+bacteria+diets+differentially+influence+Caenorhabditis+elegans+physiology.">Different methods of killing bacteria diets differentially influence Caenorhabditis elegans physiology.</a> MicroPubl Biol. 2023, (2023).</li><li>Solis, G. M., Petrascheck, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Measuring+caenorhabditis+elegans+life+span+in+96+well+microtiter+plates.">Measuring caenorhabditis elegans life span in 96 well microtiter plates.</a> J Vis Exp. (49), (2011).</li><li>Wofford, M. R., King, D. S., Harrell, T. K. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Drug-induced+metabolic+syndrome.">Drug-induced metabolic syndrome.</a> J Clin Hypertens (Greenwich). 8 (2), 114-119 (2006).</li></ol>

The authors have no conflicts of interest to declare.

The protocol presented measures bacterial clearance as a readout for C. elegans food intake in 96-well microtiter plates. The dose-response curves in the representative results section show that the assay quantitatively measures food intake, a notion that was independently confirmed using isotope-labeled bacteria11. Using this assay, we successfully tested FDA-approved drugs such as antipsychotics with known human metabolic side effects and showed that these drugs increased feeding in C. elegans10,26. The assay is useful to study the genetics or pharmacology of feeding and adds a new tool for C. elegans research to study metabolism. This assay provides a low-cost method to study feeding in a scalable and time-friendly manner, which is not possible in most other organisms. Our work on FDA-approved drugs shows that many side effects seen in human patients are also observed in C. elegans, revealing evolutionary conservation24,26,32.
The assay is limited by the concentration of bacteria that can be measured within the linear range of the OD600 measurement. As a result, the number of worms and the range of bacterial concentrations that can be assayed are limited. Too many worms will affect OD600 by consuming the bacteria too quickly, hence &#34;eating&#34; the bacterial concentration out of the linear OD600. In our experience, variability in bacterial preparation is the critical parameter that causes results to vary from one experiment to another. We have unsuccessfully tried to freeze large batches of bacteria or to use lyophilized bacteria. In these cases, either the selflysis rate became too high, or the bacteria were of a quality that slowed down C. elegans development. However, our tests have not been exhaustive, and this problem may be solvable.
In general, the selflysis rate of the bacteria is the most challenging to control, and it can cause considerable variability. We found that some drugs can increase the selflysis&#160;rate to levels that the assay could not reliably determine food intake. Because the selflysis rate increases over time in the assay, we have not measured food intake beyond day 5 of adulthood. By that age, the bacteria are ~10 days in culture. To measure food intake past day 5 of adulthood, the old bacteria must be washed off and replaced with fresh ones.
The presented assay is an extension of our 96-well microtiter plates-based lifespan assay31. This combination enables measuring lifespan and food intake in the same population. While the bacterial clearance assay presented here does not allow the determination of food intake over the whole life of C. elegans due to bacterial selflysis, it provides solid data for the first four days of adulthood, the time with the highest food intake. Especially for small molecule drug discovery, controlling for food intake is essential. In summary, we anticipate that the assay presented will be useful to the C. elegans community and expand the toolset to study metabolism or control it in the context of aging and lifespan studies.
Planning: 
Before planning to measure food intake, a few considerations must be made.
Killing the bacteria:
We kill bacteria by irradiation with X-rays in a 50 mL conical tube (900 Gray for 4 h set at 160.0 kV and 25.0 mA). We use the RS2000 by Rad Source for the irradiation. Depending on the equipment, the specific time and radiation dose may vary from facility to facility. The complete killing of the bacteria needs to be determined by plating the bacteria after irradiation to detect survivors by growth. It is essential to kill all the bacteria to prevent growth during the assay, as this will cause an underestimation of feeding or even negative feeding values. Importantly, the bacteria must be killed so that C. elegans will still eat them. In our experience, there are three ways to kill large quantities of bacteria reliably: (i) Irradiation by X-rays,(ii) by &#947;-rays, and (iii) the addition of formaldehyde29,30. The selflysis rates between these three methods are comparable, with an 8% coefficient of variation between the selflysis rates for the experiments shown in Figure 3B. Methods that did not reliably work in our hands were UV irradiation, antibiotic cocktails, heat inactivation, and sodium azide. These methods either fail to completely kill the bacteria (UV and antibiotics), produce bacteria that C. elegans does not eat (heat), or change food intake (sodium azide).
Number of replicates: 
In our experience, the fold changes in feeding are generally small compared to the observed variation. Thus, measuring changes in food intake requires several replicate wells. Figure 2A,B show 96-well plates designed for four or six different conditions, with 21 or 14 replicate wells and two selflysis control wells without worms. Given the large variability and the relatively small changes to be expected, 0.5-2.5 fold-changes in feeding tend to be the lower and upper limits. We recommend 14 to 21 replicate wells for each condition and at least two selflysis control wells, described next. These replicates are enough to generate quantitative dose-response curves for drugs that change feeding11,26.
Selflysis controls: 
OD600 measures the number of particles in a solution, mostly independent of particle size. However, dead bacteria will lyse, losing their particle nature. We call this selflysis, which happens independently in the presence of worms and lowers the OD600 measurements without the worms eating. Selflysis happens during the assay and needs to be independently measured in at least two wells per condition. These wells receive the same treatment as the others within the same condition, except they do not contain any worms. We found that many drugs can also alter the selflysis&#160;rate. Thus, each condition needs independent selflysis control wells with their respective concentration. Figure 2 shows a plate setup for four or six conditions with all the selflysis control wells at the bottom of the plate in row H.
N2 reference population: 
We also noted that the absolute amount of bacteria consumed can fluctuate between experiments, most likely related to the quality of the bacteria. Despite our best efforts to prepare them exactly the same way each time, there are fluctuations. For example, bacteria can be harvested while in a dividing state during the logarithmic growth phase and, therefore, be much larger in size than bacteria harvested in the stationary phase. Hence, these simple differences in bacterial size can lead to changes in the number of bacteria consumed and different OD600 values since the OD600 measurements do not distinguish between sizes. For this reason, we always include one population of untreated N2 control animals that serve as a reference value, either set to 1 or 100%, to determine if the experimental groups eat more or less than the N2 control. This practice allows comparisons between experiments, even if the OD600 values vary.
Time intervals: 
Using OD600 values to measure food intake requires the bacterial concentration to decline measurably. Because the culture volume is much larger than the worms, they must eat a significant amount of bacteria to make a detectable difference. Staying in the linear range for OD600 values requires the bacterial concentration to stay between ~1 mg/mL and 10 mg/mL so that a considerable amount of bacteria must disappear to detect it. Worms eat the most from late L4 to day 4 of adulthood because of egg production. Thus, this interval is ideal. Shorter intervals like 24 h can be measured11, but that is considerably more difficult and needs ~40 wells per condition. Another option to measure the food intake of larvae is to double the number of animals per well. However, the problem with this approach is that too many worms will start to affect the OD600 readings when they grow up.
Stock solutions for drugs to be tested: 
If drugs such as serotonin are tested for their ability to modulate feeding, consider the following when preparing stock solutions. We generally prepare a 50x stock for water-soluble drugs and add 3 &#181;L to each well (1:50), but other stock concentrations (100x, 300x) also work. However, if the drugs are diluted in solvents other than water (e.g., DMSO), the final concentration should not exceed 0.5%. Solvents quickly become harmful to C. elegans. Thus, stock solutions of drugs dissolved in organic solvents such as DMSO must be 300x or higher.
Scoring live and dead worms: 
The determination of live and dead animals is based on the worm&#39;s movement. Strong light, especially blue light, is used because it causes the animals to move. Furthermore, scoring the number of animals per well will reveal if there are excess deaths. Excess deaths can occur with toxic substances or high concentrations (&#62;0.5%) of several solvents, including DMSO. Generally, there should be less than 1:100 (1%) dead animals. Plates can be shaken for 30 s at 800 rpm on the microtiter plate shaker if the food has settled and the population becomes hard to count. Ignore wells with males or more than 16 worms (see problems).
Potential problems:
Inadequate shaking: 
In a liquid medium, bacteria can easily clump together and settle at the bottom of the wells. In our experience, shaking for less than 20 min may fail to break up bacterial clumps and resuspend them, causing inaccurate OD600 measurements. OD600 measurements in the presence of bacterial clumps will underestimate the bacterial concentration. Excessive shaker settings may cause the liquid to be stuck to the sealer. Once the sealer is removed for the OD600 reading, the liquid stuck to the sealer will result in a lower OD600 reading. If there is liquid on the sealer, quickly spin the plate at a low speed (500-1,000 rpm) and shake again for 5 min. Further, make sure, as stated for the readings on Day 1 and Day 4, to read within 10 min of shaking the plates to avoid the bacteria from settling down.
Different absolute food intake values between experiments: 
Despite our best efforts to standardize the bacterial preparations, they often differ in ways that affect food intake in worms. For example, due to their dividing state, bacteria differ in size based on whether it was harvested in the logarithmic growth or stationary phase, with the logarithmic bacteria being larger. Due to OD600 measurements not distinguishing between sizes, the differences in bacterial size due to the phase in which the bacteria was harvested may lead to the apparent differences observed in the basal food intake between bacterial preparations. The best way to compare between experiments is to always include an untreated N2 control population and normalize the results to this N2 population.
Crowding effects: 
The bacterial concentration in this protocol is enough to keep the OD600 in the linear range for 2-16 worms per well for ~72&#160;h. Depending on the drug of interest, a well containing more than 16 worms may deplete the bacterial concentration before the second measurement. We also found that wells with one animal tend to be unreliable. The lysis factor outweighs what a single worm eats. Hence, minor errors in determining the lysis factor disproportionally affect wells with fewer worms.
We recommend excluding wells from statistical analyses if one of the conditions below is met. There are males in the well (we have no data comparing food intake between males and hermaphrodites); there are less than 2 worms in the well or more than 16 worms in the well; worms are dead upon the second reading; or if there are progeny in the wells because the FUdR failed. FUdR is heat-sensitive and gets inactivated even by temperatures as low as 37 &#176;C. Always defrost FUdR in room-temperature water.
Negative food intake values:
The food intake values are occasionally negative, suggesting more food on Day 4 than on Day 1. Negative food intake values may indicate one of the following factors: a high selflysis rate, possibly caused by a drug added acting on the bacteria, or negative food intake values, which may suggest that the well is contaminated and something other than worms is growing. Selflysis rates also increase as the bacteria get older; therefore, we recommend using bacteria no longer than a week old. A drug that precipitates over time has been added, affecting the OD600 value. Insufficient shaking on Day 1 may lead to a lower OD600 reading due to bacterial clumps. The worms underwent hypoxic stress. This occurs when the surface-to-air ratio is not enough to allow oxygen exchange. Use the specific 96-well plate in materials and do not exceed 150 &#181;L (120 &#181;L + 30 &#181;L of FUdR) per well. The distance between the surface of the well and the bottom where the worms live determines the oxygen concentration.
Limitations:
This assay is limited to liquid culture. Feeding behaviors observed in solid plates, such as moving on and off food lawns, cannot be assessed with the assay.

Caenorhabditis elegans has been extensively used in aging research. &#160;It has been a powerful model to study the genetics underlying metabolism-mediated longevity induced by dietary restriction, reduced mitochondrial activity, or reduced insulin signaling.1,2,3,4,5,6,7. However, measuring feeding in the context of longevity has been proven difficult for C. elegans due to the small size of the animal3,8,9,10,11,12,13,14,15.
Feeding is a fundamental biological behavior required for survival, and its tight regulation lies at the core of maintaining metabolic health, reproduction, and aging. Feeding behavior is controlled by multiple signaling pathways in both the nervous system and periphery and, thus, can only be studied in vivo16,17,18,19. Feeding represents the first of three pillars: (i) energy intake, (ii) energy storage, and (iii) energy expenditure that govern an organism&#39;s energy homeostasis. Feeding in C. elegans has been chiefly investigated by measuring the pharyngeal pumping, as defined by the rate of contractions of the pharynx. This approach has provided crucial insights into C. elegans&#39; feeding behavior3,4,8,12,13,20,21; however, pharyngeal pumping, especially measured over short intervals of minutes, is not necessarily correlated with food intake.
Food intake is not only determined by the pharyngeal pumping rate but also by parameters such as duration and frequency of feeding bouts and the density of food bacteria. An animal may have a very high pharyngeal pumping, but the length of its feeding bouts may be shorter, offsetting the increased rate. Another confounding factor is the efficiency by which pumping may or may not ingest and grind up bacteria. An extreme example of uncoupling food intake from pharyngeal pumping is the addition of serotonin without any food (bacteria) present. In the presence of exogenous serotonin, animals pump at a high rate, but without bacteria present, the high pumping rate does not lead to food intake2,6,13,22,23.
The bacterial clearance method presented here measures the food intake of worm populations in individual wells as the decline of bacterial concentrations over time (Figure&#160;1). This approach is similar to those used in other species where the disappearance of food represents a measure of food intake10,11,24,25,26,27,28. In the original publication, we validated this method of measuring food intake by feeding C. elegans with 15N isotope-labeled bacteria11. Subsequent measures by mass spectrometry showed that measuring the disappearance of bacteria correlated strongly with the occurrence of isotope labeling, revealing the actual uptake of the bacteria into the animal11. Thus, we are confident that the bacterial clearance assay represents food intake in most circumstances. The assay&#39;s purpose is not to replace the pharyngeal pumping assay but to add to the toolbox of assays to study feeding and metabolism in C. elegans and how it relates to aging and longevity.

<table><tbody><tr><td>Amphotericin B</td><td>RPI</td><td>A40030-0.1</td><td>solvent: EtOH</td></tr><tr><td>Ampicillin</td><td>Fisher Scientific</td><td>BP176025</td><td>solvent: water</td></tr><tr><td>Bacto Peptone</td><td>BD Biosciences</td><td>211677</td><td>use to make NGM plates</td></tr><tr><td>Carbenicillin</td><td>Fisher Scientific</td><td>46-100-RG</td><td>solvent: water</td></tr><tr><td>Cell strainer</td><td>Fisher Scientific</td><td>22363547</td><td>40 &amp;micro;m to remove adults</td></tr><tr><td>Cholesterol&amp;nbsp;</td><td>MP Biomedicals</td><td>02101380-CF</td><td>5 mg/mL stock</td></tr><tr><td>Difco, Agar, Bacteriological</td><td>BD Biosciences</td><td>214510</td><td>use to make NGM plates</td></tr><tr><td>Fluorodeoxyuridine</td><td>Sigma Aldrich</td><td>F0503</td><td>to sterilize worms on L4</td></tr><tr><td>Luria Broth</td><td>RPI</td><td>L24045-1000.0</td><td>open capsule, mix with 1 L of water, autoclave</td></tr><tr><td>M9 Buffer&amp;nbsp;</td><td>Laboratory Prepared</td><td></td><td>Store in sterile conditions at room temperature&lt;br/&gt; To prepare 1 L:&lt;br/&gt; &amp;nbsp;15 g Na&lt;sub&gt;2&lt;/sub&gt;HPO&lt;sub&gt;4&lt;/sub&gt;*12H&lt;sub&gt;2&lt;/sub&gt;O (FW: 358)&lt;br/&gt; 3 g KH&lt;sub&gt;2&lt;/sub&gt;PO4 (FW: 136)&lt;br/&gt; &amp;nbsp;5 g NaCl (FW: 58), 0.25 g MgSO&lt;sub&gt;4&lt;/sub&gt;*7H&lt;sub&gt;2&lt;/sub&gt;O (FW: 246)&lt;br/&gt; &amp;nbsp;autoclave</td></tr><tr><td>Microplate Sealer</td><td>Fisher Scientific</td><td>236707</td><td></td></tr><tr><td>OP50</td><td>Caenorhabditis Genetics Center</td><td></td><td></td></tr><tr><td>Plate 96-well&amp;nbsp;</td><td>Falcon</td><td>351172</td><td></td></tr><tr><td>Plate reader</td><td>Tecan</td><td>30016056</td><td>use 600 nm filter lens</td></tr><tr><td>Potassium Citrate, 1 M , pH 6</td><td>Laboratory Prepared</td><td></td><td>Store in sterile conditions at room temperature&lt;br/&gt; To prepare 1 L:&lt;br/&gt; 268.8 g Potassium citrate tribasic monohydrate (FW: 324)&lt;br/&gt; 26.3 g citric acid monohydrate (FW: 210)&lt;br/&gt; 900 mL of dH2O&lt;br/&gt; pH to 6 using 5 M KOH&lt;br/&gt; autoclave&amp;nbsp;</td></tr><tr><td>Potassium Phosphate, 1 M , pH 6&amp;nbsp;</td><td>Laboratory Prepared</td><td></td><td>Store in sterile conditions at room temperature&lt;br/&gt; To prepare 1 L:&lt;br/&gt; 136 g KH&lt;sub&gt;2&lt;/sub&gt;PO4 (FW: 136)&lt;br/&gt; 900 mL dH&lt;sub&gt;2&lt;/sub&gt;O&lt;br/&gt; &amp;nbsp;pH to 6 using 5 M KOH&lt;br/&gt; autoclave</td></tr><tr><td>S-Basal</td><td>Laboratory Prepared</td><td></td><td>Store in sterile conditions at room temperature&lt;br/&gt; To prepare 1 L:&lt;br/&gt; 5.9 g NaCl (FW: 58)&lt;br/&gt; &amp;nbsp;50 mL 1 M potassium phosphate (pH 6)&lt;br/&gt; add 900 mL dH&lt;sub&gt;2&lt;/sub&gt;O&lt;br/&gt; autoclave, cool to 55 &amp;deg;C</td></tr><tr><td>S-Complete</td><td>Laboratory Prepared</td><td></td><td>Store in sterile conditions at room temperature&lt;br/&gt; To prepare 1 L:&lt;br/&gt; Add to 1 L of S-basal (cooled to 55 &amp;deg;C or RT)&lt;br/&gt; &amp;nbsp;10 mL of 1 M potassium citrate&lt;br/&gt; &amp;nbsp;pH 6, 10 mL of trace metal solutions&lt;br/&gt; &amp;nbsp;3 mL of 1 M CaCl&lt;sub&gt;2&lt;/sub&gt;&lt;br/&gt; 3 mL of 1 M MgSO&lt;sub&gt;4&lt;/sub&gt;</td></tr><tr><td>Serotonin hydrochloride</td><td>Thermo Scientific</td><td>AAB2126309</td><td>used at 5 mM</td></tr><tr><td>Sodium Chloride</td><td>Sigma Aldrich</td><td>S7653-5KG</td><td>to make buffers and NGM plates</td></tr><tr><td>Terrific Broth</td><td>Thermo Scientific</td><td>J75856-A1</td><td>12.5 g in 250 mL of water, autoclave</td></tr><tr><td>Titer plate Shaker</td><td>Thermo Scientific</td><td>88880023</td><td>shaken at 800 rpm, depends on shaker</td></tr><tr><td>Trace Metals Solution&amp;nbsp;</td><td>Laboratory Prepared</td><td></td><td>Store in sterile conditions at room temperature&lt;br/&gt; To prepare 1 L:&lt;br/&gt; 1.86 g Na&lt;sub&gt;2&lt;/sub&gt;EDTA (FW: 372.24)&lt;br/&gt; 0.69 g FeSO&lt;sub&gt;4&lt;/sub&gt;*7H&lt;sub&gt;2&lt;/sub&gt;O (FW: 278)&lt;br/&gt; &amp;nbsp;0.20 g MnCl&lt;sub&gt;2&lt;/sub&gt;*4H&lt;sub&gt;2&lt;/sub&gt;O (FW: 198)&lt;br/&gt; 0.29 g ZnSO&lt;sub&gt;4&lt;/sub&gt;*7H&lt;sub&gt;2&lt;/sub&gt;O (FW: 287)&lt;br/&gt; &amp;nbsp;0.016 g CuSO&lt;sub&gt;4&lt;/sub&gt; (FW: 158)&lt;br/&gt; autoclave&lt;br/&gt; wrap in aluminum foil to keep in the dark</td></tr></tbody></table>

quantifying food intake in caenorhabditis elegans by measuring bacterial clearance

Feeding is an essential biological process for an organism&#39;s growth, reproduction, and survival. This assay aims to measure the food intake of Caenorhabditis elegans&#160;(C. elegans), an important parameter when studying the genetics of aging or metabolism. In most species, feeding is determined by measuring the difference between the amount of food provided and the amount left after a given time interval. The method presented here uses the same strategy to determine the feeding of C. elegans. It measures the amount of bacteria, the food source of C. elegans, cleared within 72 h. This method uses 96-well microtiter plates and has allowed the screening of hundreds of drugs for their ability to modulate food intake at a speed and depth not possible in other animal models. The strength of this assay is that it allows to measure feeding and lifespan simultaneously and directly measures the disappearance of food and, thus, is based on the same principles used for other organisms, facilitating species-to-species comparison.

<img alt="Figure 3" class="xfigimg" src="/files/ftp_upload/66422/66422fig3_v1.jpg" /> 
Figure 3: Representative data. (A) The graph shows dose-response curves of fold change in food intake as a function of serotonin concentration. All data show unstimulated basal food intake normalized to N2 basal feeding. Note that the daf-16(mu86) animals eat more than the wild type N2 when no serotonin was added but show a blunted range in their ability to control feeding. (B) Graph shows a violin plot of fold change in food intake of worms treated with 50 &#956;M of the antipsychotic Loxapine but fed bacteria killed by either X-rays, &#947;-rays, or paraformaldehyde (C) Graph shows a violin plot of fold change in food intake of different mutants with their genotypes indicated in the x-axis. These data suggest that exc-4 and cgr-1 mutants eat less while srp-6 mutants eat more. Asterisks represent ** p &#60; 0.001, ****p &#60; 0.0001 as determined by ANOVA and Brown-Forsythe-Welch, post-hoc corrected to account for multiple hypotheses testing. Error Bars show &#177;S.E.M. <a href="https://www.jove.com/files/ftp_upload/66422/66422fig3large_v1.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
Figure 1&#160;highlights the overall workflow of this protocol. It illustrates the entire process, from making the bacteria to acquiring the OD600 reading on day 1 and day 4. In addition, the infographic references the specific steps of the methods being used. Figure 2A, B shows two possible experimental plate layouts, including &#34;no-worms&#34; control wells in row H, necessary for calculating the selflysis rates described in the discussion section. In our lab&#39;s experience, it is necessary for one of the conditions to be untreated N2 control to account for the variability of bacterial intake of worms observed between experiments (see discussion: Planning [N2 reference population]).&#160;
Figure 2C is an example of the spreadsheet used to analyze the data generated in this protocol. It highlights the worm count in green, selflysis in&#160;blue, day 1 OD600 and day 4 OD600 in orange, and the food intake per worm in red. In addition, each well is tracked for the strain, drug, concentration, date of experiment, and other treatments added. Further information on the specific equations used can be found in protocol section 3. Overall, these spreadsheets (template provided as Supplemental Materials) provide efficient data collection and analysis of this protocol.&#160;&#160;
Figure 3A shows representative results for a dose-response curve of how serotonin modulates feeding in N2 and daf-16 mutants using this protocol. In this experiment, the fold change from basal food intake (first dot in the curve) was calculated across five increasing doses of serotonin. As these results highlight, the N2 strain is able to overeat in a dose-dependent manner. However, for the daf-16(mu86) mutant, although basal feeding is higher than N2, the mutant cannot respond to serotonin in the same dose-dependent manner as the N2 strain. This protocol allows us to determine the feeding behavior between two strains where the concentration of serotonin was the variable factor to generate dose-response curves. Figure 3B shows the food intake of worms treated with the antipsychotic Loxapine but fed with bacteria killed by either X-rays, &#947;-rays, or paraformaldehyde. Note that these experiments were not conducted in parallel and that the differences are not representative of the different methods to kill the bacteria but are due to inter-experimental variability. Figure 3C shows the food intake of a series of genetic strains, with two strains showing a decrease and one strain showing an increase in feeding behavior relative to N2. This application of the protocol enables the testing of one drug at one concentration across different genetic backgrounds. It is suited to identify genetic backgrounds that show a different food intake response than wild-type N2 controls when given the same drug. It can be paired with our lifespan protocol to quickly screen food intake and lifespan in the same plate setup31.&#160;
Supplemental Material: Spreadsheet templates shown in Figure 2C. <a href="https://www.jove.com/files/ftp_upload/66422/66422.zip" target="_blank">Please click here to download these materials.</a>

Read this Scientific Article Protocol about Author Spotlight: Exploring the Relationship Between Lipotoxicity and HFpEF at JoVE.com

Author Spotlight: Exploring the Relationship Between Lipotoxicity and HFpEF 

This protocol describes an assay to quantify Caenorhabditis elegans feeding rate based on measuring the clearance of bacteria in liquid culture.

Quantifying Food Intake in Caenorhabditis elegans by Measuring Bacterial Clearance

Feeding is an essential biological process for an organism&#39;s growth, reproduction, and survival. This assay aims to measure the food intake of ...

quantifying-food-intake-caenorhabditis-elegans-measuring-bacterial

Research

JoVE Journal

Behavior

2.8K Views.  The Scripps Research Institute. This protocol describes an assay to quantify Caenorhabditis elegans feeding rate based on measuring the clearance of bacteria in liquid culture.

Video: Author Spotlight: Exploring the Relationship Between Lipotoxicity and HFpEF 

A Procedure to Study the Effect of Prolonged Food Restriction on Heroin Seeking in Abstinent Rats

In human drug addicts, exposure to drug-associated cues or environments that were previously associated with drug taking can trigger relapse during abstinence. Moreover, various environmental challenges can exacerbate this effect, as well as increase ongoing drug intake.
The procedure we describe here highlights the impact of a common environmental challenge, food restriction, on drug craving that is expressed as an augmentation of drug seeking in abstinent rats.
Rats are implanted with chronic intravenous i.v. catheters, and then trained to press a lever for i.v. heroin over a period of 10-12 days. Following the heroin self-administration phase the rats are removed from the operant conditioning chambers and housed in the animal care facility for a period of at least 14 days. While one group is maintained under unrestricted access to food (sated group), a second group (FDR group) is exposed to a mild food restriction regimen that results in their body weights maintained at 90% of their nonrestricted body weight. On day 14 of food restriction the rats are transferred back to the drug-training environment, and a drug-seeking test is run under extinction conditions (i.e.&#160;lever presses do not result in heroin delivery).
The procedure presented here results in a highly robust augmentation of heroin seeking on test day in the food restricted rats. In addition, compared to the acute food deprivation manipulations we have used before, the current procedure is a more clinically relevant model for the impact of caloric restriction on drug seeking. Moreover, it might be closer to the human condition as the rats are not required to go through an extinction-training phase before the drug-seeking test, which is an integral component of the popular reinstatement procedure.

A procedure that allows a demonstration of robust augmentation of drug seeking in food-restricted rats is described. Following heroin self-administration training, rats go through an abstinence period, in a drug-free environment, during which they are mildly food restricted. Drug seeking is then tested in the drug-associated environment.

In human drug addicts, exposure to drug-associated cues or environments that were previously associated with drug taking can trigger relapse during ...

Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans

Sensory systems allow animals to detect, process, and respond to their environment. Food abundance is an environmental cue that has profound effects on animal physiology and behavior. Recently, we showed that modulation of longevity in the nematode Caenorhabditis elegans by food abundance is more complex than previously recognized. The responsiveness of the lifespan to changes in food level is determined by specific genes that act by controlling information processing within a neural circuit. Our framework combines genetic analysis, high-throughput quantitative imaging and information theory. Here, we describe how these techniques can be used to characterize any gene that has a physiological relevance to broad-range dietary restriction. Specifically, this workflow is designed to reveal how a gene of interest regulates lifespan under broad-range dietary restriction; then to establish how the expression of the gene varies with food level; and finally, to provide an unbiased quantification of the amount of information conveyed by gene expression about food abundance in the environment. When several genes are examined simultaneously under the context of a neural circuit, this workflow can uncover the coding strategy employed by the circuit.

Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans

Here, we present a framework to relate broad-range dietary restriction to gene expression and lifespan. We describe protocols for broad-range dietary restriction and for quantitative imaging of gene expression under this paradigm. We further outline computational analyses to reveal underlying information processing features of the genetic circuits involved in food-sensing.

Sensory systems allow animals to detect, process, and respond to their environment. Food abundance is an environmental cue that has profound effects on ...

Genetics

Measuring Caenorhabditis elegans Life Span on Solid Media

Aging is a degenerative process characterized by a progressive deterioration of cellular components and organelles resulting in mortality. The nematode Caenorhabditis elegans has emerged as a principal model used to study the biology of aging. Because virtually every biological subsystem undergoes functional decline with increasing age, life span is the primary endpoint of interest when considering total rate of aging. In nematodes, life span is typically defined as the number of days an animal remains responsive to external stimuli. Nematodes can be propagated either in liquid media or on solid media in plates, and techniques have been developed for measuring life span under both conditions. Here we present a generalized protocol for measuring life span of nematodes maintained on solid nematode growth media and fed a diet of UV-killed bacteria. These procedures can easily be adapted to assay life span under various common conditions, including a diet consisting of live bacteria, dietary restriction, and RNA interference.

Measuring Caenorhabditis elegans Life Span on Solid Media

In this article we present a general protocol for measuring life span of nematodes maintained on solid media with UV-killed bacterial food.

Aging is a degenerative process characterized by a progressive deterioration of cellular components and organelles resulting in mortality. The nematode ...

Biology

Solid Plate-based Dietary Restriction in Caenorhabditis elegans

Reduction of food intake without malnutrition or starvation is known to increase lifespan and delay the onset of various age-related diseases in a wide range of species, including mammals. It also causes a decrease in body weight and fertility, as well as lower levels of plasma glucose, insulin, and IGF-1 in these animals. This treatment is often referred to as dietary restriction (DR) or caloric restriction (CR). The nematode Caenorhabditis elegans has emerged as an important model organism for studying the biology of aging. Both environmental and genetic manipulations have been used to model DR and have shown to extend lifespan in C. elegans. However, many of the reported DR studies in C. elegans were done by propagating animals in liquid media, while most of the genetic studies in the aging field were done on the standard solid agar in petri plates. Here we present a DR protocol using standard solid NGM agar-based plate with killed bacteria.

Solid Plate-based Dietary Restriction in Caenorhabditis elegans

Here we present a protocol for performing solid plate-based dietary restriction in C. elegans with killed bacteria.

Reduction of food intake without malnutrition or starvation is known to increase lifespan and delay the onset of various age-related diseases in a wide ...

Measuring the Effects of Bacteria and Chemicals on the Intestinal Permeability of Caenorhabditis elegans

In living organisms, intestinal hyperpermeability is a serious symptom that leads to many inflammatory bowel diseases (IBDs). Caenorhabditis elegans is a nonmammalian animal model that is widely used as an assay system due to its short lifespan, transparency, cost-effectiveness, and lack of animal ethics issues. In this study, a method was developed to investigate the effects of different bacteria and 3,3'-diindolylmethane (DIM) on the intestinal permeability of C. elegans with a high-throughput image analysis system. The worms were infected with different gut bacteria or cotreated with DIM for 48 h and fed with fluorescein isothiocyanate (FITC)-dextran overnight. Then, the intestinal permeability was examined by comparing the fluorescence images and the fluorescence intensity inside the worm bodies. This method may also have the potential to identify probiotic and pathogenic intestinal bacteria that affect intestinal permeability in the animal model and is effective for examining the effects of harmful or health-promoting chemicals on intestinal permeability and intestinal health. However, this protocol also has some considerable limitations at the genetic level, especially for determining which genes are altered to control illness, because this method is mostly used for phenotypic determination. In addition, this method is limited to determining exactly which pathogenic substrates cause inflammation or increase the permeability of the worms' intestines during infection. Therefore, further in-depth studies, including investigation of the molecular genetic mechanism using mutant bacteria and nematodes as well as chemical component analysis of bacteria, are required to fully evaluate the function of bacteria and chemicals in determining intestinal permeability.

Measuring the Effects of Bacteria and Chemicals on the Intestinal Permeability of Caenorhabditis elegans

This protocol describes how to measure intestinal permeability of Caenorhabditis elegans. This method is helpful for basic biological research on intestinal health related to the interaction between intestinal bacteria and their host and for screening to identify probiotic and chemical agents to cure leaky gut syndrome and inflammatory bowel diseases.

In living organisms, intestinal hyperpermeability is a serious symptom that leads to many inflammatory bowel diseases (IBDs). Caenorhabditis elegans is a ...

Medicine

Measurement of Oxygen Consumption Rates in Intact Caenorhabditis elegans

Optimal mitochondrial function is critical for healthy cellular activity, particularly in cells that have high energy demands like those in the nervous system and muscle. Consistent with this, mitochondrial dysfunction has been associated with a myriad of neurodegenerative diseases and aging in general. Caenorhabditis elegans have been a powerful model system for elucidating the many intricacies of mitochondrial function. Mitochondrial respiration is a strong indicator of mitochondrial function and recently developed respirometers offer a state-of-the-art platform to measure respiration in cells. In this protocol, we provide a technique to analyze live, intact C. elegans. This protocol spans a period of ~7 days and includes steps for (1) growing and synchronization of C. elegans, (2) preparation&#160;of compounds to be injected and hydration of probes, (3) drug loading and cartridge equilibration, (4) preparation of worm assay plate and assay run, and (5) post-experiment data analysis.

Measurement of Oxygen Consumption Rates in Intact Caenorhabditis elegans

Mitochondrial respiration is critical for organismal survival; therefore, oxygen consumption rate is an excellent indicator of mitochondrial health. In this protocol, we describe the use of a commercially available respirometer to measure basal and maximal oxygen consumption rates in live, intact, and freely-motile Caenorhabditis elegans.

Optimal mitochondrial function is critical for healthy cellular activity, particularly in cells that have high energy demands like those in the nervous ...

Automating Aggregate Quantification in Caenorhabditis elegans

A rise in the prevalence of neurodegenerative protein conformational diseases (PCDs) has fostered a great interest in this subject over the years. This increased attention has called for the diversification and improvement of animal models capable of reproducing disease phenotypes observed in humans with PCDs. Though murine models have proven invaluable, they are expensive and are associated with laborious, low-throughput methods. Use of the Caenorhabditis elegans nematode model to study PCDs has been justified by its relative ease of maintenance, low cost, and rapid generation time, which allow for high-throughput applications. Additionally, high conservation between the C. elegans and human genomes makes this model an invaluable discovery tool. Nematodes that express fluorescently tagged tissue-specific polyglutamine (polyQ) tracts exhibit age- and polyQ length-dependent aggregation characterized by fluorescent foci. Such reporters are often employed as proxies to monitor changes in proteostasis across tissues. Manual aggregate quantification is time-consuming, limiting experimental throughput. Furthermore, manual foci quantification can introduce bias, as aggregate identification can be highly subjective. Herein, a protocol consisting of worm culturing, image acquisition, and data processing was standardized to support high-throughput aggregate quantification using C. elegans that express intestine-specific polyQ. By implementing a C. elegans-based image processing pipeline using CellProfiler, an image analysis software, this method has been optimized to separate and identify individual worms and enumerate their respective aggregates. Though the concept of automation is not entirely unique, the need to standardize such procedures for reproducibility, elimination of bias from manual counting, and increase throughput is high. It is anticipated that these methods can drastically simplify the screening process of large bacterial, genomic, or drug libraries using the C. elegans model.

Automating Aggregate Quantification in Caenorhabditis elegans

The following protocol describes the development and optimization of a high-throughput workflow for worm culturing, fluorescence imaging, and automated image processing to quantify polyglutamine aggregates as an assessment of changes in proteostasis.

A rise in the prevalence of neurodegenerative protein conformational diseases (PCDs) has fostered a great interest in this subject over the years. This ...

Using Single-Worm Data to Quantify Heterogeneity in Caenorhabditis elegans-Bacterial Interactions

The nematode Caenorhabditis elegans is a model system for host-microbe and host-microbiome interactions. Many studies to date use batch digests rather than individual worm samples to quantify bacterial load in this organism. Here it is argued that the large inter-individual variability seen in bacterial colonization of the C. elegans intestine is informative, and that batch digest methods discard information that is important for accurate comparison across conditions. As describing the variation inherent to these samples requires large numbers of individuals, a convenient 96-well plate protocol for disruption and colony plating of individual worms is established.

Using Single-Worm Data to Quantify Heterogeneity in Caenorhabditis elegans-Bacterial Interactions

This protocol describes a 96-well disruption of individual bacterially colonized Caenorhabditis elegans following cold paralysis and surface bleaching&#160;to remove external bacteria. The resulting suspension is plated on agar plates to allow accurate, medium-throughput quantification of bacterial load in large numbers of individual worms.

The nematode Caenorhabditis elegans is a model system for host-microbe and host-microbiome interactions. Many studies to date use batch digests rather ...

Application of Flow Vermimetry for Quantification and Analysis of the Caenorhabditis elegans Gut Microbiome

The composition of the gut microbiome can have a dramatic impact on host physiology throughout the development and the life of the animal. Measuring compositional changes in the microbiome is crucial in identifying the functional relationships between these physiological changes. Caenorhabditis elegans has emerged as a powerful host system to examine the molecular drivers of host-microbiome interactions. With its transparent body plan and fluorescent-tagged natural microbes, the relative levels of microbes within the gut microbiome of an individual C. elegans animal can be easily quantified using a large particle sorter. Here we describe the procedures for the experimental setup of a microbiome, collection, and analysis of C. elegans populations in the desired life stage, operation, and maintenance of the sorter, and statistical analyses of the resulting datasets. We also discuss considerations for optimizing sorter settings based on the microbes of interest, the development of effective gating strategies for C. elegans life stages, and how to utilize sorter capabilities to enrich animal populations based on gut microbiome composition. Examples of potential applications will be presented as part of the protocol, including the potential for scalability to high-throughput applications.

Application of Flow Vermimetry for Quantification and Analysis of the Caenorhabditis elegans Gut Microbiome

Caenorhabditis elegans is a powerful model to examine the molecular determinants driving host-microbiome interactions. We present a high throughput pipeline profiling the single animal levels of gut microbiome colonization together with key aspects of the C. elegans physiology.

The composition of the gut microbiome can have a dramatic impact on host physiology throughout the development and the life of the animal. Measuring ...

FITC-Dextran Feeding: A Method to Quantify Intestinal Permeability in C. elegans

Source: Le, T. A. N., et al. <a href="https://www.jove.com/video/60419/measuring-effects-bacteria-chemicals-on-intestinal-permeability">Measuring the Effects of Bacteria and Chemicals on the Intestinal Permeability of&#160;Caenorhabditis elegans.</a>&#160;J. Vis. Exp. (2019).
This video introduces a method of to visualize and measure the integrity of the C. elegans intestine lumen by feeding worms FITC-labeled dextran.&#160; The example protocol shows the assay done with 3,3&#8217;-diindolylmethane (DIM)-treated and pathogen-fed worms.

Karmienie FITC-dekstranem: metoda ilościowego określania przepuszczalności jelit u C. elegans

Source: Le, T. A. N., et al. Measuring the Effects of Bacteria and Chemicals on the Intestinal Permeability of&#160;Caenorhabditis elegans.&#160;J. Vis. ...

Quantifying Food Intake in Caenorhabditis elegans by Measuring Bacterial Clearance

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A Procedure to Study the Effect of Prolonged Food Restriction on Heroin Seeking in Abstinent Rats

Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans

Measuring Caenorhabditis elegans Life Span on Solid Media

Solid Plate-based Dietary Restriction in Caenorhabditis elegans

Measuring the Effects of Bacteria and Chemicals on the Intestinal Permeability of Caenorhabditis elegans

Measurement of Oxygen Consumption Rates in Intact Caenorhabditis elegans

Automating Aggregate Quantification in Caenorhabditis elegans

Using Single-Worm Data to Quantify Heterogeneity in Caenorhabditis elegans-Bacterial Interactions

Application of Flow Vermimetry for Quantification and Analysis of the Caenorhabditis elegans Gut Microbiome

Karmienie FITC-dekstranem: metoda ilościowego określania przepuszczalności jelit u C. elegans