- OD600 PhotometerFinal Calibration
- BioreactorRecords Rebuilt, Outlet Corrected
- Digital TwinCut Back To Its Logs
- Protectant DesignFact Check
- Plant Growth ChamberBuffer Confounds The Dose
- Math ModelingPlant Weights Handed Over
- GIS & Stress ForecastCrop Choice Reopened
- Wiki & NotebookThe Last Fortnight
Participants Anna, Anton, Audrey, Ethan, Joshua, Felix, Noah, Jacquelyn, Timmy, Abby, Abigail, Alex
Results- Silica series, 10 October: complex build, slim fibre-coupled build and BioDrop down the same forty points, 2.5 mg at a time from 2.5 to 100 mg in 500 mL
- Complex build tracks the reference one for one to OD 2.5, slope 0.995, intercept −0.074, and reads low above it
- Slim build is straight across the range and six times compressed, OD = 5.573r − 0.073 at R² 0.993; rescaled it agrees as closely and resolves half as finely
- The reference runs out first: the BioDrop’s direct channel returns exactly 2.50 from 70 mg on, so every value above OD 2.5 comes from a dilution, and that reconstruction falls at 7 of its 20 steps above 50 mg
- Against weighed mass our build scatters five times less and never reads lower when more went in
- The high-OD gap is left unassigned: multiple scattering at that turbidity would look the same
- Four hardware records rebuilt as chapters under one pinned control, 10 to 11 October
- Rack drawing corrected 10 October: on the shell side only the top outlet is open, the foot port closed behind a luer valve that connects to nothing
- Digital Twin cut from about 8,500 words to 6,600, runs renumbered R1 to R6 in the order they were produced
- Rig application put in the repository, firmware, backend and interface together with its licence
- Re-reading the September log corrected one of our own figures: that run rises OD 0.83 to 2.45 over 53 h 22 min, and the 0.17 this notebook and Engineering carried is nowhere in the file
- Protein Design checked against the cloning record, six corrections, 14 October
- Neither LEA14 truncation, 1–16 or 1–23, reached a sequence-verified construct; every LEA14 plasmid on file carries the full-length 151-residue protein
- The N-terminal His tag belongs to BoPEP4’s order after 16 August; the June and July cassettes and every LEA14 and ACC deaminase construct carry a C-terminal 6×His
- The Lys7 salt bridge holds at 96.6 per cent and 2.85 Å in the full-length run; the quoted 98.7 per cent at 2.81 Å belongs to the 7–23 trajectory
- ACC deaminase salinity plate labelled 10 October: four enzyme dilutions 1/60 to 1/10 and a no-enzyme arm, at 0 and 100 mM NaCl, with 1/20 TB buffer controls at both
- The buffer arms show TB itself holding growth back from 1/20 upward, enough to cover whatever the enzyme does, so appearance alone says nothing about salt tolerance
- Each treated well is 0.5 mL of enzyme preparation in 9.5 mL of medium; the peptide is given at 1/500
- Soil salinity fresh weights, 10 October: buffer 0.066 g at 0 mM and 0.107 g at 300 mM, against 0.071, 0.022 and 0.199 g for the enzyme before, with and after the salt
- The after-treatment arm comes to nearly twice its own buffer control at the same salt
- One weighing per group, so the figure sets a direction and carries no error bar
- Rice questioned as the crop to map, 12 October: it is in oversupply in Taiwan, so protecting its yield answers a question nobody is asking
- GIS asked whether there is time to move the maps onto a crop worth more per hectare and more exposed; four people take one or two crops each, data expected around 18 October
- Two rules for the fortnight to the freeze: ReLEAF in capitals everywhere a reader sees it, and 10 and 11 October the last days for open-ended changes to writing, layout and figures
- Over thirty pages moved in that window: Parts became one sortable 32-row table, Protein Design a single vertical stack, Measurement, Math Model, Safety and the Digital Twin took the shared soft layout, and the Homepage the final case render
- On iGEM’s GitLab the Homepage, the seven Engagement pages and Description are live; twenty-four of the thirty-three addresses are still blank template pages
- The photometer question taken back to Beer’s law: OD is −log₁₀(I/I₀) and scales with path length and concentration, so a shorter path reads lower
- Both builds use the same 2 mm flow cuvette, so with path lengths equal the difference is stray light or beam spread before the liquid
- Two things the calibration leaves open
- Which slim build is final: the unit measured on 10 October has its beam splitter out as well as its lens, against the design-changes card on its own page
- The light plate’s photon flux, pencilled in for 3 and then 10 October, is still unmeasured, so every dose on that page is in lux
Deliverables 6
Silica Calibration Series- Forty points, 2.5 to 100 mg in 500 mL
- Three figures generated from the workbook
Hardware Records As Chapters- Bioreactor, Photometer, DiOPAL, Hydroponics
- One pinned chapter control per record
Rig Application Source- Firmware, backend and interface in the repository
- MIT licence beside it
Protein Design Fact Check- Six corrections
- Neither LEA14 truncation sequence-verified
- His tag scoped per construct family
ACC Deaminase Salinity Plate- 1/60, 1/40, 1/20, 1/10 and no enzyme
- 0 and 100 mM NaCl
- 1/20 TB buffer control at both salt levels
Soil Salinity Fresh Weights- Buffer 0.066 g at 0 mM, 0.107 g at 300 mM
- Enzyme 0.071, 0.022, 0.199 g before, with, after
- One weighing per group
