UA Biophysics:Protocols: Difference between revisions

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==BACTERIA STOCK==
&bull; [[UA Biophysics:Protocols:Stocks|Stocks]]<br>


==ANTIBIOTICS STOCK==
==ANTIBIOTICS STOCK==
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&bull; [[UA Biophysics:Protocols:Ampicillin|Ampicillin]]<br>  
&bull; [[UA Biophysics:Protocols:Ampicillin|Ampicillin]]<br>  
&bull; [[UA Biophysics:Protocols:Kanamycin|Kanamycin]]<br>  
&bull; [[UA Biophysics:Protocols:Kanamycin|Kanamycin]]<br>  
&bull; [[UA Biophysics:Protocols:Chloramphenicol|Chloramphenicol]]<br>  
&bull; [[UA Biophysics:Protocols:Chloramphenicol|Chloramphenicol]]<br>
&bull; [[UA Biophysics:Protocols:Erythromycin|Erythromycin]]
 
==BUFFERS==
 
&bull; [[UA Biophysics:Protocols:PBS|PBS]]<br>
&bull; [[UA Biophysics:Protocols:TAE 10X|TAE 10X]]<br>
&bull; [[UA Biophysics:Protocols:Calcein|Calcein]]<br>
&bull; [[UA Biophysics:Protocols:Elution Buffer|Elution Buffer]]<br>
&bull; [[UA Biophysics:Protocols:K2HPO4 KH2PO4 Buffer|KH2PO4 Buffer]]<br>
 
==CHEMICALS==
 
&bull; [[UA Biophysics:Protocols:KOH|KOH]]<br>
&bull; [[UA Biophysics:Protocols:NOH|NOH]]<br>
 
==EXTRACTION==
 
&bull; [[UA Biophysics:Protocols:Lipid Extraction|Lipid Extration]]<br>
&bull; [[UA Biophysics:Protocols:Carotenoid Extration|Carotenoid Extration]]<br>
 
==IMMUNOSTAINING==
&bull; [[UA Biophysics:Protocols:Lymphocytes immunostaining with anti-AlphaTubulin|Lymphocytes immunostaining with anti-AlphaTubulin]]<br>
&bull; [[UA Biophysics:Protocols:Tubulin Polymerization with AlexaFluor 488 staining|Tubulin Polymerization with AlexaFluor 488 staining]]<br>


==MEDIA==
==MEDIA==
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&bull; [[UA Biophysics:Protocols:LB 1L|LB 1L]]<br>
&bull; [[UA Biophysics:Protocols:LB 1L|LB 1L]]<br>
&bull; [[UA Biophysics:Protocols:LB Plates 1L|LB Plates 1L]]<br>
&bull; [[UA Biophysics:Protocols:LB Plates 1L|LB Plates 1L]]<br>
&bull; [[UA Biophysics:Protocols:M9 plates|M9 Plates]]<br>
&bull; [[UA Biophysics:Protocols:SD 1L|SD 1L]]<br>
&bull; [[UA Biophysics:Protocols:SD 1L|SD 1L]]<br>
&bull; [[UA Biophysics:Protocols:1M MgSO4|1M MgSO<sub>4</sub>]]<br>
&bull; [[UA Biophysics:Protocols:1M MgSO4|1M MgSO<sub>4</sub>]]<br>
&bull; [[UA Biophysics:Protocols:0.1M CaCl2|0.1M CaCl<sub>2</sub>]]<br>
&bull; [[UA Biophysics:Protocols:0.1M CaCl2|0.1M CaCl<sub>2</sub>]]<br>
&bull; [[UA Biophysics:Protocols:TB 1L|TB 1L]]<br>
==MICROFLUIDICS==
&bull; [[UA Biophysics:Protocols:Soft lithography|Soft lithography]]<br>
&bull; [[UA Biophysics:Protocols:Master fabrication|Master fabrication]]<br>
&bull; [[UA Biophysics:Protocols:Plasma Cleaner Protocol|Plasma Cleaner Protocol]]<br>
&bull; [https://s3-us-west-2.amazonaws.com/oww-files-public/d/d5/Mother_Machine.pdf Mother Machine]<br>
&bull; [[UA Biophysics:Protocols:Microfluidics Valves|Microfluidics Valves]]<br>
&bull; [https://s3-us-west-2.amazonaws.com/oww-files-public/7/7f/Fabricaci%C3%B3n_de_chips_para_microflu%C3%ADdos.pdf Microfluidic System for Biofilm growth]<br>
&bull; [https://s3-us-west-2.amazonaws.com/oww-files-public/3/3b/Protocolo_Crecimiento_Biopel%C3%ADcula_en_SPIM.pdf Biofilm growth]<br>


==MOLECULAR BIOLOGY==
==MOLECULAR BIOLOGY==


&bull; [[UA Biophysics:Protocols:Q5|Q5 Polymerase]]<br>
&bull; [[UA Biophysics:Protocols:Q5|Q5 Polymerase]]<br>
&bull; [[UA Biophysics:Protocols:Phusion|Phusion Polymerase]]<br>


&bull; [[UA Biophysics:Protocols:Phusion|Phusion Polymerase]]<br>
==PLASMIDS AND RELATED==


==EXTRACTION==
&bull; [https://www.sigmaaldrich.com/deepweb/assets/sigmaaldrich/product/documents/450/621/00007374w-mk.pdf GenElute<sup>TM</sup> HP Plasmid Miniprep Kit]<br>
&bull; [[UA Biophysics:Protocols:Competent Cells|Competent Cells]]<br>
&bull; [[UA Biophysics:Protocols:Transformation of Competent Cells|Transformation of Competent Cells]]<br>
&bull; [[UA Biophysics:Protocols:Yeast Miniprep|Yeast Miniprep]]<br>


&bull; [[UA Biophysics:Protocols:Lipid Extraction|Lipid Extration]]<br>
==BACTERIA==
&bull; [[UA Biophysics:Protocols:Carotenoid Extration|Carotenoid Extration]]<br>


==PREPARACIÓN DE LUV Y GUV==
&bull; [[UA Biophysics:Protocols:Stocks|Stocks]]<br>
&bull; [[UA Biophysics:Protocols:Bacteria for Lipid Extraction|Bacteria for Lipid Extraction]]<br>


&bull; [[UA Biophysics:Protocols: LUV|LUV]]<br>
==PHAGES==
Para obtener LUVs de un tamaño de $100nm$, se seca $0.2mg$ (su equivalente en volumen fue extraído del stock de lípidos) sobre un tubo de ensayo con ayuda de nitrógeno en estado
gaseoso.  El nitrógeno se mantiene a un flujo constante de tal manera que se genere una capa delgada de lípido sobre la superficie del vidrio. Para completar
el secado, se liofiliza la muestra durante mínimo $3h$. Posterior a esto, se hidrata con $1ml$ de agua desionizada obteniendo una concentración final
de $0.2mg/ml$ de lípido. Para homogenizar la solución se procede a realizar vortex tres veces durante $1min$ con intervalos del mismo tiempo. Finalmente, se
deja reposar la muestra durante $30min$ y se extruye 41 veces a través de membranas policarbonadas de $100nm$.


Si los lípidos posee una temperatura de transición mayor a la temperatura ambiente, se procede a calentar la solución por encima de la temperatura de transición.
&bull; [[UA Biophysics:Protocols:Marking T4 DNA with DAPI|Marking T4 DNA with DAPI]]<br>
&bull; [[UA Biophysics:Protocols:Direct Plating Plaque Assay|Direct Plating Plaque Assay]]<br>
&bull; [[UA Biophysics:Protocols:Small Drop Plaque Assay System|Small Drop Plaque Assay System]]<br>


==PLASMID==
==C.ELEGANTS==


&bull; [https://www.sigmaaldrich.com/content/dam/sigma-aldrich/docs/Sigma/Bulletin/na0150bul.pdf GenElute<sup>TM</sup> HP Plasmid Miniprep Kit]<br>
&bull; [[UA Biophysics:Protocols:Buffer M9 para C. elegans|Buffer M9 para C. elegans<sub>2</sub>]]<br>
&bull; [http://openwetware.org/wiki/Preparing_chemically_competent_cells Preparing Chemically Competent Cells]<br>
&bull; [[UA Biophysics:Protocols:Buffer 1M KPO4 pH 6.0|Buffer 1M KPO4 pH 6.0<sub>2</sub>]]<br>
&bull; [http://openwetware.org/wiki/Transforming_chemically_competent_cells Transforming Chemically Competent]<br>
&bull; [[UA Biophysics:Protocols:Cholesterol in ethanol 5 mg/ml|Cholesterol in ethanol 5 mg/ml<sub>2</sub>]]<br>
&bull; [[UA Biophysics:Protocols:Nematode Growth Medium (NGM)|Nematode Growth Medium (NGM)<sub>2</sub>]]<br>
&bull; [[UA Biophysics:Protocols:Siembra de nemátodos|Siembra de nemátodos<sub>2</sub>]]<br>
&bull; [[UA Biophysics:Protocols:Freezing C. elegans Strains|Freezing C. elegans Strains<sub>2</sub>]]<br>
&bull; [[UA Biophysics:Protocols:Buffer Freezing C. elegans Strains|Buffer Freezing C. elegans Strains<sub>2</sub>]]<br>


==MICROFLUIDICS==
==VESICLES==


&bull; [[UA Biophysics:Protocols:Soft lithography|Soft lithography]]<br>  
&bull; [[UA Biophysics:Protocols: Lipid stock|Lipid stock]]<br>
&bull; [[UA Biophysics:Protocols:Master fabrication|Master fabrication]]<br>
&bull; [[UA Biophysics:Protocols: Multilamellar Vesicles|Multilamellar Vesicles]]<br>
&bull; [[UA Biophysics:Protocols:Plasma Cleaner Protocol|Plasma Cleaner Protocol]]<br>
&bull; [[UA Biophysics:Protocols: LUV|LUV]]<br>
&bull; [[UA Biophysics:Protocols: GUV|GUV]]<br>


==TURBIDOSDOSTATS==
==TURBIDOSDOSTATS==
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&bull; [[UA Biophysics:Protocols:Plate turbidostat|Plate turbidostat user manual]]<br>
&bull; [[UA Biophysics:Protocols:Plate turbidostat|Plate turbidostat user manual]]<br>
&bull; [[UA Biophysics:Protocols:Revolver Turbidostat with Interchanging Media|Revolver turbidostat with interchanging media]]
&bull; [[UA Biophysics:Protocols:Revolver Turbidostat with Interchanging Media|Revolver turbidostat with interchanging media]]




[[Biophysics|Return to UA Biophysics]]<br>
[[Biophysics|Return to UA Biophysics]]<br>

Latest revision as of 07:37, 2 April 2024


ANTIBIOTICS STOCK

• Ampicillin
• Kanamycin
• Chloramphenicol
• Erythromycin

BUFFERS

• PBS
• TAE 10X
• Calcein
• Elution Buffer
• KH2PO4 Buffer

CHEMICALS

• KOH
• NOH

EXTRACTION

• Lipid Extration
• Carotenoid Extration

IMMUNOSTAINING

• Lymphocytes immunostaining with anti-AlphaTubulin
• Tubulin Polymerization with AlexaFluor 488 staining

MEDIA

• M9 Salts (5x) 1L
• M9 (5x) 1L
• LB 1L
• LB Plates 1L
• M9 Plates
• SD 1L
• 1M MgSO4
• 0.1M CaCl2
• TB 1L

MICROFLUIDICS

• Soft lithography
• Master fabrication
• Plasma Cleaner Protocol
• Mother Machine
• Microfluidics Valves
• Microfluidic System for Biofilm growth
• Biofilm growth

MOLECULAR BIOLOGY

• Q5 Polymerase
• Phusion Polymerase

PLASMIDS AND RELATED

• GenEluteTM HP Plasmid Miniprep Kit
• Competent Cells
• Transformation of Competent Cells
• Yeast Miniprep

BACTERIA

• Stocks
• Bacteria for Lipid Extraction

PHAGES

• Marking T4 DNA with DAPI
• Direct Plating Plaque Assay
• Small Drop Plaque Assay System

C.ELEGANTS

• Buffer M9 para C. elegans2
• Buffer 1M KPO4 pH 6.02
• Cholesterol in ethanol 5 mg/ml2
• Nematode Growth Medium (NGM)2
• Siembra de nemátodos2
• Freezing C. elegans Strains2
• Buffer Freezing C. elegans Strains2

VESICLES

• Lipid stock
• Multilamellar Vesicles
• LUV
• GUV

TURBIDOSDOSTATS

• Plate turbidostat user manual
• Revolver turbidostat with interchanging media


Return to UA Biophysics
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