Phyx44

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TRIGGER 1 — START GLYCEROL FEED!
RPM & Airflow at maximum. Oxygen transfer is now limiting. Initiate glycerol fed-batch immediately.

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APPROACHING TRIGGER 1
RPM or Airflow nearing maximum. Prepare glycerol feed line.

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TRIGGER 2 — START ETHANOL INDUCTION!
WCW ≥ 300 g/L. Switch carbon source to ethanol to initiate protein expression.

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Data Points

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Ferm. Hours

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DO %

target > 20%

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pH

target 5.0–5.5

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RPM

max 500

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Batch Vol (L)

incl. feeds

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WCW g/L

trigger at 300

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OD600

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Titre mg/L

Process Phase Status

Phase 1 — Batch Growth

Glycerol batch · building biomass until O₂ limited

Phase 2 — Glycerol Fed-Batch

Trigger: RPM = 500 & Airflow = 60 LPM (O₂ transfer limiting)

Phase 3 — Ethanol Induction

Trigger: WCW ≥ 300 g/L · protein expression begins

Current Batch Summary

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Log your first data point to see live summary

Live Process Overview

RPM & Airflow

Dissolved Oxygen %

WCW Growth

Feed Rates

SECTIONS

⚡ Data Entry

🧪 Media Prep

📋 Data Table

📈 Graphs

⚗️ OUR

⚖️ Batch Compare

📊 Yield

📄 Batch Summary

🧮 Growth Rate

📥 Import Data

⚙️ Vessel Settings

Log Data Point

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RPM / 500

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AIR LPM / 60

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DO %

▸ Batch ID

Batch Number

Strain / Clone

Initial Volume (L)Set once at batch start

Max Vessel Capacity (L)For % full tracking

▸ Time

Timestamp ● auto

Fermentation Hour

▸ Process Parameters

pHTarget: 4.5 – 5.5

Dissolved Oxygen (%)Keep > 20%

Temperature (°C)Target: 30 ± 0.5°C

Agitation (RPM)Max: 500 RPM

Airflow (LPM)Max: 60 LPM

Backpressure (bar)Typical: 0.3 – 1.0 bar

▸ Feed & pH Control

Glycerol Feed (mL/hr)

Ethanol Feed (mL/hr)

Ammonia Added (mL)Volume added this interval

Ammonia Conc. (%)

▸ Biomass & Product

Wet Cell Weight (g/L)Trigger 2 at 300 g/L

OD600

Product Titre (mg/L)

▸ Notes

Operator

Notes / Observations

Complete Data Log

#	BATCH	TIME	HOUR	PHASE	pH	DO%	TEMP	RPM	AIR	BP(bar)	GLY(mL/h)	MeOH(mL/h)	NH₃(mL)	CUM.FEED(mL)	BATCH VOL(L)	WCW(g/L)	OD600	TITRE(mg/L)	TRIGGER	OPERATOR	NOTES
No data logged yet

Sample & Analysis Log

#	BATCH	HOUR	TIMESTAMP	TYPE	RESULT	UNITS	VOL (mL)	STATUS
No samples logged yet

Process Graphs

🔵 RPM & Airflow vs Time

🟢 Dissolved Oxygen % vs Time

🟡 pH & Temperature vs Time

🔴 Glycerol & Ethanol Feed Rates

🟢 Ammonia Addition (pH Control)

⬛ Backpressure (bar)

⚪ Wet Cell Weight Growth Curve

🟣 OD600 vs Time

💎 Product Titre vs Time

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Log data to see graphs

Specific Growth Rate (µ) Calculator

Formula: µ = ln(X₂ / X₁) / (t₂ − t₁)
where X = biomass (WCW or OD600), t = time in hours

Biomass Measure

Auto-fill from Batch

X₁ — Biomass at t₁

t₁ — Time (hours)

X₂ — Biomass at t₂

t₂ — Time (hours)

Growth Curve

µ Reference — Pichia pastoris

PHASE	TYPICAL µ (h⁻¹)	NOTE
Batch glycerol	0.03 – 0.06	Exponential growth
Glycerol fed-batch	0.01 – 0.03	Limited, controlled
Methanol induction	0.003 – 0.01	Slow, expression mode
Optimal for expression	~0.005 – 0.007	Balance growth & product

Media Preparation Calculator

Calculate reagent amounts for standard Pichia pastoris fermentation media. Adjust target volume and the quantities update automatically.

Target Volume (L)

Media Type

pH Target Adjust with H₃PO₄ or NaOH

BSM Recipe — 10 L

COMPONENT	STOCK / GRADE	AMOUNT	UNIT	NOTES

PTM1 Trace Salts (add after autoclave)

PTM1 Volume to Add (mL/L) Standard: 12 mL per L media

Total PTM1 Needed (mL)

SALT	PER LITRE PTM1	FOR YOUR BATCH	UNIT

Glycerol Batch Phase — Starting Carbon Source

Glycerol Concentration (% w/v) Standard: 4% (w/v) for batch phase

Glycerol Required (mL) Pure glycerol (density 1.26 g/mL)

Glycerol Required (g)

Feed Preparation

Calculate volumes for each feed bottle preparation. Both feeds contain 12 mL/L TES. Prepare multiple batches as needed during the run.

🟡 Glycerol Feed — Fed-Batch Phase

🟢 Ethanol Feed — Induction Phase (60% v/v)

Supplements & Antifoam

SUPPLEMENT	RATE	AMOUNT FOR YOUR VOL	NOTES

Preparation Checklist

Done By

Checked By

Date Prepared

Batch Reference

Sign-Off

Done By

Checked By

Date / Time

Batch Reference

Notes

Oxygen Uptake Rate (OUR) — Calculated from DO Trend

OUR estimated using: OUR = –dC/dt × (V/X)
where dC/dt = DO slope between consecutive points, V = volume, X = biomass (WCW).
Also shows Specific OUR (qO₂) = OUR / biomass concentration.

Select Batch

O₂ Saturation at 30°C (mg/L) Default: 7.2 mg/L at 30°C, 1 atm

Fermenter Volume (L) Or auto-filled from Volume tab

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Peak OUR (mmol/L/h)

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Avg OUR

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Peak qO₂ (mmol/g/h)

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Min DO Observed

OUR vs Fermentation Time

⚗️

Select a batch to calculate OUR

OUR Data Table

HOUR	DO%	ΔDO%/Δt	OUR (mmol/L/h)	WCW (g/L)	qO₂ (mmol/g/h)	CASCADE STATE
No data

Yield Comparison — Titre per Carbon Source Consumed

Compares product yield (mg titre per mL carbon source) across batches. Yp/s = Final Titre (mg/L) ÷ Total Carbon Feed (mL). Also compares biomass yield Yx/s.

Carbon Source Density (g/mL) Glycerol: 1.26 g/mL · Ethanol: 0.79 g/mL

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Log at least one batch with titre and feed data to see yield analysis

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Select a batch to generate the summary report