REAGENT OR RESOURCE | SOURCE | IDENTIFIER |
---|---|---|
Bacterial and virus strains | ||
E. coli (OP50) | Caenorhabditis Genetics Center (CGC) | OP50 |
Experimental models: Organisms/strains | ||
Young adult C. elegans hermaphrodites expressing GCaMP in desired neurons | Caenorhabditis Genetics Center (CGC) or corresponding authors of published work | N/A |
C. elegans ASH::GCaMP3 strain | Larsch et al. (2013) | CX10979 |
Chemicals, peptides, and recombinant proteins | ||
HEPES | Sigma-Aldrich | Cat# H3375 |
Magnesium chloride, MgCl2 | Sigma-Aldrich | Cat# M2393 |
Calcium chloride, CaCl2 | Sigma-Aldrich | Cat# C3881 |
Sodium chloride, NaCl | Sigma-Aldrich | Cat# S7653 |
Potassium chloride, KCl | Sigma-Aldrich | Cat# P3911 |
Copper chloride, CuCl2 | Sigma-Aldrich | Cat# 751944 |
D-glucose | Sigma-Aldrich | Cat# G7021 |
Nematode Growth Medium (NGM) agar | Stiernagle (2006) | N/A |
Poly(dimethyl siloxane) (PDMS) | Ellsworth Adhesives | Sylgard 184 |
(tridecafluoro-1,1,2,2-tetrahydrooctyl)trichlorosilane (TFOCS) | Gelest | CAS# 78560-45-9 |
Fluorescein, Sodium salt | Sigma-Aldrich | Cat# F6377 |
Software and algorithms | ||
Custom control code: ClosedLoopStimulation | Lawler et al. (2021) and this work |
https://albrechtlab.github.io https://github.com/albrechtLab/ClosedLoopStimulation 10.5281/zenodo.6629830 |
Custom analysis code: Neurotracker | Larsch et al. (2013) |
https://github.com/albrechtLab/Neurotracker 10.5281/zenodo.6632736 |
Micro-manager | Micro-manager | https://micro-manager.org/ |
MATLAB | MathWorks | https://www.mathworks.com/products/matlab.html |
Arduino IDE | Arduino | https://www.arduino.cc/en/software |
ImageJ | Schneider et al. (2012) | https://imagej.nih.gov/ij/ |
Other | ||
ValveLink 8.2 digital/manual valve controller | AutoMate Scientific | Cat #01-18 |
Arduino nano | Arduino | Cat #A000005 |
Wires and connectors | Various | See Figure 2B |
3-way miniature inert PTFE isolation valve | Parker | Cat #001-0017-900 |
Pinch valve, normally open | NResearch | Cat #161P021 |
SOLA light engine (fluorescence) | Lumencor | Cat #SM6-LCR-SA |
Axio Observer.A1 inverted microscope set up for epifluorescence (GFP filter cubes, 5× objective or similar) | Zeiss | Cat #491237-0012-000 |
Illuminator microLED (brightfield) | Zeiss | Cat #423053-9072 |
Orca Flash 4.0 Digital sCMOS camera | Hamamatsu | Cat #C11440-22CU |
Optogenetic stimulation LED and controller (optional) | Mightex | Cat #PLS-0625-030-S and #SLA-1200-2 |
Petri dishes (60 mm) | Tritech | Cat #T3305 |
Glass slide, 1 mm thick | VWR | Cat #75799-268 |
Glass scribe | Ted Pella | Cat #54468 |
Diamond drill bit | Dremel | Cat #7134 |
Microfluidic device | Larsch et al. (2013); Lagoy and Albrecht (2015) | N/A |
Microfluidic tubing, 0.02″ ID | Cole-Parmer | Cat #EW-06419-01 |
Luer 3-way stopcock | Cole-Parmer | Cat #EW-30600-07 |
Luer 23 ga. blunt needle | VWR | Cat #89134-100 |
Tube 19 ga., 0.5″ | New England Small Tube | Cat #NE-1027-12 |
Microfluidic device clamp | Warner Instruments (or machine shop) | P-2 |