Description
Genomic DNA extraction: cells are lysed and proteins digested, then DNA is purified either by organic (phenol:chloroform) extraction or by silica-column binding, precipitated/eluted, and accepted only when the A260/A280 purity ratio is acceptable.
Process Flowchart
graph TD
N1["Cell/tissue sample"]
N2["Lysis buffer + proteinase K"]
N3["Lyse cells; digest protein"]
N4{"Purification method?"}
N5["Phenol:chloroform extract"]
N6["Bind DNA to silica column"]
N7["Wash column"]
N8["Ethanol precipitate"]
N9["Elute / resuspend DNA"]
N10{"A260/A280 ~ 1.8?"}
N11["Purified genomic DNA"]
N1 --> N3
N2 --> N3
N3 --> N4
N4 -->|organic| N5
N4 -->|column| N6
N5 --> N8
N6 --> N7
N7 --> N9
N8 --> N9
N9 --> N10
N10 -->|re-extract| N3
N10 -->|yes| N11
style N1 fill:#ff6b6b,color:#fff
style N2 fill:#ffd43b,color:#000
style N3 fill:#51cf66,color:#fff
style N4 fill:#74c0fc,color:#fff
style N5 fill:#51cf66,color:#fff
style N6 fill:#51cf66,color:#fff
style N7 fill:#51cf66,color:#fff
style N8 fill:#51cf66,color:#fff
style N9 fill:#51cf66,color:#fff
style N10 fill:#74c0fc,color:#fff
style N11 fill:#b197fc,color:#fff
Node provenance
Each step below is grounded in a cited source (hover a citation for the full title).
| Step | Role | Source |
|---|---|---|
| Cell/tissue sample | Triggers & Inputs | Sambrook, J. et al. 2001 |
| Lysis buffer + proteinase K | Structures & Objects | Sambrook, J. et al. 2001 |
| Lyse cells; digest protein | Processing & Operations | Sambrook, J. et al. 2001 |
| Purification method? | Intermediates & States | Boom, R. et al. 1990 |
| Phenol:chloroform extract | Processing & Operations | Green, M. R. et al. 2017 |
| Bind DNA to silica column | Processing & Operations | Boom, R. et al. 1990 |
| Wash column | Processing & Operations | Boom, R. et al. 1990 |
| Ethanol precipitate | Processing & Operations | Green, M. R. et al. 2017 |
| Elute / resuspend DNA | Processing & Operations | Sambrook, J. et al. 2001 |
| A260/A280 ~ 1.8? | Intermediates & States | Sambrook, J. et al. 2001 |
| Purified genomic DNA | Products & Outputs | Sambrook, J. et al. 2001 |
🎨 Color Scheme (5-Color System)
Red
Triggers & Inputs
Triggers & Inputs
Yellow
Structures & Objects
Structures & Objects
Green
Processing & Operations
Processing & Operations
Blue
Intermediates & States
Intermediates & States
Violet
Products & Outputs
Products & Outputs
Process Statistics
- Nodes: 11
- Edges: 12
- Conditionals: 2
- AND Gates: 2
- OR Gates: 2
- Total Gates: 4
Keywords
- dna extraction
- lysis
- phenol chloroform
- silica column
- purity
Sources & References
-
Molecular Cloning: A Laboratory Manual (3rd ed.)
Sambrook, J.; Russell, D. W. , Cold Spring Harbor Laboratory Press (2001)
View Source -
Rapid and simple method for purification of nucleic acids
Boom, R.; Sol, C. J.; Salimans, M. M.; Jansen, C. L.; Wertheim-van Dillen, P. M.; van der Noordaa, J. , Journal of Clinical Microbiology (1990)
DOI: 10.1128/jcm.28.3.495-503.1990 -
Isolation of High-Molecular-Weight DNA Using Organic Solvents
Green, M. R.; Sambrook, J. , Cold Spring Harbor Protocols (2017)
DOI: 10.1101/pdb.prot093450