Home - this site is powered by TWiki(R)
Lab  WebRss (1 vs. 4)

Changes | Index | Search | Go

 <<O>>  Difference Topic WebRss (4 - 2005-03-28 - TWikiContributor)
 
Changed:
<
<		 TWiki's Lab web
>
>		TWiki's Lab web
  https://barricklab.org/twiki/bin/view/Lab The Lab web of TWiki. TWiki is a Web-Based Collaboration Platform for the Enterprise. en-us Copyright 2025 by contributing authors TWiki Administrator [admin@barricklab.org] The contributing authors of TWiki TWiki Home - this site is powered by TWiki(R).Lab https://barricklab.org/twiki/bin/view/Lab /twiki/pub/TWiki/TWikiLogos/T-logo-140x40-t.gif PublicationList https://barricklab.org/twiki/bin/view/Lab/PublicationList Barrick Lab :: Publications Barrick Lab Publications on Google Scholar Barrick Lab researchers Equal contributions ^Corresponding author(s) Undergraduate... (last changed by JeffreyBarrick) 2025-08-31T14:27:55Z JeffreyBarrick ProtocolsFluctuationTests https://barricklab.org/twiki/bin/view/Lab/ProtocolsFluctuationTests Fluctuation Tests Introduction This protocol is for doing a Luria Delbr... (last changed by TylerDeJong) 2025-08-01T20:05:22Z TylerDeJong ProcedureGenomeModificationDatsenkoWanner https://barricklab.org/twiki/bin/view/Lab/ProcedureGenomeModificationDatsenkoWanner Lambda Red Protocol Lambda Red Plasmids These plasmids are available as part of the Lambda Red disruption kit from the E. coli Genetic Stock Center. pKD... (last changed by TylerDeJong) 2025-07-16T22:45:11Z TylerDeJong GlasswareCleaning https://barricklab.org/twiki/bin/view/Lab/GlasswareCleaning How to clean glassware LTEE flasks and lids LTEE glassware... (last changed by AlexaMorton) 2025-06-12T19:13:08Z AlexaMorton ProtocolsAntibioticStockSolutions https://barricklab.org/twiki/bin/view/Lab/ProtocolsAntibioticStockSolutions Media amendments Preparation: Generally, prepare 30 50 mL of solution in a 50 mL conical tube. Then, filter sterilize solutions by pushing them through a 50 mL syringe... (last changed by AlexaMorton) 2025-06-11T19:01:08Z AlexaMorton ProtocolsCulturingFirm_5 https://barricklab.org/twiki/bin/view/Lab/ProtocolsCulturingFirm_5 Working with Lactobacillus `Firm 5` The Lactobacillus `Firm 5` clade are gram positive bacterial symbionts of the honey bee ( Apis mellifera ) gut core microbiota... (last changed by ZuberiAshraf) 2025-03-20T22:41:16Z ZuberiAshraf ProtocolsWorkingWithSerratiaSymbiotica https://barricklab.org/twiki/bin/view/Lab/ProtocolsWorkingWithSerratiaSymbiotica Working with Serratia symbiotica Serratia symbiotica is a secondary endosymbiont of the black bean aphid ( Aphis fabae ) gut microbiota that can be cultivated... (last changed by AnthonyVandieren) 2025-03-20T21:24:12Z AnthonyVandieren ProcedureGeneReplacements https://barricklab.org/twiki/bin/view/Lab/ProcedureGeneReplacements Allelic exchange using pKOV or pKOV style vectors Before beginning part 1: design primers 1 Insert should be ~1kb with approximately 500bp on either side of mutation... (last changed by TylerDeJong) 2025-03-01T23:17:14Z TylerDeJong ProtocolsLabelingAndTech https://barricklab.org/twiki/bin/view/Lab/ProtocolsLabelingAndTech Labeling Glassware and Other Containers All bottles, flasks, tubes, graduated cylinders, and beakers that contain liquid or any substance must be labeled with a description... (last changed by AlexaMorton) 2024-07-18T16:25:04Z AlexaMorton ProtocolsComputingEnvironmentSetup https://barricklab.org/twiki/bin/view/Lab/ProtocolsComputingEnvironmentSetup Computing Environment Setup for Bioinformatics and Computational Biology So, you want to harness the immense power of bioinformatics and computational biology for... (last changed by JeffreyBarrick) 2024-07-09T22:37:14Z JeffreyBarrick ProtocolsStyleGuide https://barricklab.org/twiki/bin/view/Lab/ProtocolsStyleGuide Barrick Lab Style Guide Writing a Scientific Paper Steps to Writing a Research Article (Original: Beth A. Fischer and Michael J. Zigmond, Survival Skills and... (last changed by JeffreyBarrick) 2024-04-27T13:32:06Z JeffreyBarrick ProceduresGeneGorgingEvolvedAlleles https://barricklab.org/twiki/bin/view/Lab/ProceduresGeneGorgingEvolvedAlleles Gene Gorging Evolved Alleles This procedure can be used to directly create unmarked mutations in the E. coli genome. Transform Gene Gorging and Donor Plasmid... (last changed by JeffreyBarrick) 2024-01-12T17:09:54Z JeffreyBarrick ProtocolHowTo https://barricklab.org/twiki/bin/view/Lab/ProtocolHowTo How to Create a Protocol Tips for Design You should generally organize a protocol to have sections that are relevant from this list: Supplies (materials, strains... (last changed by JeffreyBarrick) 2023-09-23T21:08:48Z JeffreyBarrick ToolsMarkerDivergence https://barricklab.org/twiki/bin/view/Lab/ToolsMarkerDivergence WarningThese instructions and the associated scripts have not been tested with more modern versions of R / Perl / Matlab / etc. The procedure may require updates to... (last changed by JeffreyBarrick) 2023-09-20T15:41:36Z JeffreyBarrick PrimerEfficiencyqPCR https://barricklab.org/twiki/bin/view/Lab/PrimerEfficiencyqPCR (Numbers are PCR product dilution with `10` representing a 1:10 dilution of your 0.01ng/ul PCR product prepped as described above) Template Material Use PCR... (last changed by DanielDeatherage) 2023-02-01T17:10:07Z DanielDeatherage ProtocolsAcinetobacterBaylyiADP1 https://barricklab.org/twiki/bin/view/Lab/ProtocolsAcinetobacterBaylyiADP1 Acinetobacter baylyi ADP1 Overview ADP1 Resources Genome Sequences type strain (GenBank Format) In general, use this genome as a reference when referring... (last changed by IsaacGifford) 2022-03-22T18:35:13Z IsaacGifford

 <<O>>  Difference Topic WebRss (3 - 2005-03-28 - TWikiContributor)
Changed:
<
<		 TWiki's Lab web https://barricklab.org/twiki/bin/view/Lab The Lab web of TWiki. TWiki is a Web-Based Collaboration Platform for the Corporate World. en-us Copyright 2025 by contributing authors TWiki Administrator [admin@barricklab.org] The contributing authors of TWiki TWiki Home - this site is powered by TWiki(R).Lab https://barricklab.org/twiki/bin/view/Lab /twiki/pub/TWiki/TWikiLogos/T-logo-140x40-t.gif PublicationList https://barricklab.org/twiki/bin/view/Lab/PublicationList Barrick Lab :: Publications Barrick Lab Publications on Google Scholar Barrick Lab researchers Equal contributions ^Corresponding author(s) Undergraduate... (last changed by JeffreyBarrick) 2025-08-31T14:27:55Z JeffreyBarrick AutoclaveSterilization https://barricklab.org/twiki/bin/view/Lab/AutoclaveSterilization Autoclave Sterilization Overview Autoclaves heat their contents to 121... (last changed by AlexaMorton) 2025-06-13T13:30:39Z AlexaMorton ProtocolsMediaRecipes https://barricklab.org/twiki/bin/view/Lab/ProtocolsMediaRecipes Media Recipes When making media, make sure the autoclave bin you`re using contains water (DI or tap) at least half an inch deep to help prevent excess water loss... (last changed by AlexaMorton) 2025-06-12T14:23:46Z AlexaMorton HMWDNA https://barricklab.org/twiki/bin/view/Lab/HMWDNA Handling High Molecular Weight DNA Introduction Long read sequencing, such as Oxford Nanopore or PacBio sequencing, is becoming increasingly important for genome... (last changed by IsaacGifford) 2025-04-08T15:40:58Z IsaacGifford PreviousResearch https://barricklab.org/twiki/bin/view/Lab/PreviousResearch Barrick Lab :: Previous Research Leafhoppers: Evolution and Biochemistry of Natural Nanoparticles Leafhopper and SEM image of brochosomes on its wing Leafhoppers... (last changed by JeffreyBarrick) 2025-03-23T15:37:19Z JeffreyBarrick ProtocolsCulturingSnodgrassellaAlvi https://barricklab.org/twiki/bin/view/Lab/ProtocolsCulturingSnodgrassellaAlvi Working with Snodgrassella alvi Snodgrassella alvi is a member of the honey bee ( Apis mellifera ) gut core microbiota that can be cultivated in vitro . Its isolation... (last changed by ZuberiAshraf) 2025-03-20T22:39:08Z ZuberiAshraf ProtocolsRecipesMinimalGlucose https://barricklab.org/twiki/bin/view/Lab/ProtocolsRecipesMinimalGlucose MG: Minimal Glucose agar, aka DM: Davis Mingioli agar Note: When making these plates it is necessary to prepare and autoclave the 3 main parts (salts, agar, and sugar... (last changed by AlexaMorton) 2025-01-09T20:14:37Z AlexaMorton ProtocolsRecipesLysogenyBroth https://barricklab.org/twiki/bin/view/Lab/ProtocolsRecipesLysogenyBroth LB: Lysogeny Broth / Luria Bertani Medium (Miller) Rich media used for routine culture of E. coli and other bacteria at high cell densities. Add dH2O to desired... (last changed by SophiaLin) 2024-09-05T22:00:19Z SophiaLin ProtocolsComputerSetup https://barricklab.org/twiki/bin/view/Lab/ProtocolsComputerSetup Computer Setup for Bioinformatics and Computational Biology So, you want to harness the immense power of bioinformatics and computational biology for your science... (last changed by JeffreyBarrick) 2024-07-09T21:10:27Z JeffreyBarrick ProtocolsReagentRecipes https://barricklab.org/twiki/bin/view/Lab/ProtocolsReagentRecipes Reagent and Buffer Recipes General calculation resources Mass Molarity Calculator Solution Dilution Calculator Gel Electrophoresis 50 TAE (Tris Acetate... (last changed by IsaacGifford) 2023-09-20T16:31:05Z IsaacGifford QPCR https://barricklab.org/twiki/bin/view/Lab/QPCR Comparative Quantitative PCR (qPCR) Quantitative PCR (qPCR) is a tool routinely used for the quantitation of target nucleic acid sequences. If it is your first time... (last changed by DanielDeatherage) 2023-01-11T18:35:10Z DanielDeatherage ProceduresPrimerDesign https://barricklab.org/twiki/bin/view/Lab/ProceduresPrimerDesign Sequencing/Genotyping Primer Design This protocol is specifically for designing primers to PCR amplify a target region of interest from a genome and re sequencing... (last changed by JeffreyBarrick) 2022-09-26T21:53:31Z JeffreyBarrick PhenolChloroformExtraction https://barricklab.org/twiki/bin/view/Lab/PhenolChloroformExtraction Phenol/chloroform extraction Extracting genomic bacterial DNA from pellet with phenol/chloroform with a combined EtOH precipitation step for salt/SDS/small nucleic... (last changed by MattMcGuffie) 2022-07-20T16:42:59Z MattMcGuffie RefGeneqPCR https://barricklab.org/twiki/bin/view/Lab/RefGeneqPCR C1 Condition 1, C2 Condition 2, and BR# Biological Replicate Template Material Use cDNA dilution determined in cDNA Concentration qPCR Note: Once you... (last changed by KateElston) 2022-07-19T22:56:58Z KateElston BeeEDGE https://barricklab.org/twiki/bin/view/Lab/BeeEDGE Bee Functional Genomics Using Engineered Symbionts Welcome to the temporary website for our new NSF EDGE project! Insects are among the most widespread and diverse... (last changed by JeffreyBarrick) 2022-01-26T18:10:51Z JeffreyBarrick ProceduresPlasmidSequencing https://barricklab.org/twiki/bin/view/Lab/ProceduresPlasmidSequencing Major version notes Runs prior to February 2020 had a variety of formats and sample submission requirements. Suggested that individual runs be consulted on utbox for... (last changed by DanielDeatherage) 2021-11-03T20:04:22Z DanielDeatherage
>
>		 TWiki's Lab web https://barricklab.org/twiki/bin/view/Lab The Lab web of TWiki. TWiki is a Web-Based Collaboration Platform for the Enterprise. en-us Copyright 2025 by contributing authors TWiki Administrator [admin@barricklab.org] The contributing authors of TWiki TWiki Home - this site is powered by TWiki(R).Lab https://barricklab.org/twiki/bin/view/Lab /twiki/pub/TWiki/TWikiLogos/T-logo-140x40-t.gif PublicationList https://barricklab.org/twiki/bin/view/Lab/PublicationList Barrick Lab :: Publications Barrick Lab Publications on Google Scholar Barrick Lab researchers Equal contributions ^Corresponding author(s) Undergraduate... (last changed by JeffreyBarrick) 2025-08-31T14:27:55Z JeffreyBarrick AutoclaveSterilization https://barricklab.org/twiki/bin/view/Lab/AutoclaveSterilization Autoclave Sterilization Overview Autoclaves heat their contents to 121... (last changed by AlexaMorton) 2025-06-13T13:30:39Z AlexaMorton ProtocolsMediaRecipes https://barricklab.org/twiki/bin/view/Lab/ProtocolsMediaRecipes Media Recipes When making media, make sure the autoclave bin you`re using contains water (DI or tap) at least half an inch deep to help prevent excess water loss... (last changed by AlexaMorton) 2025-06-12T14:23:46Z AlexaMorton HMWDNA https://barricklab.org/twiki/bin/view/Lab/HMWDNA Handling High Molecular Weight DNA Introduction Long read sequencing, such as Oxford Nanopore or PacBio sequencing, is becoming increasingly important for genome... (last changed by IsaacGifford) 2025-04-08T15:40:58Z IsaacGifford PreviousResearch https://barricklab.org/twiki/bin/view/Lab/PreviousResearch Barrick Lab :: Previous Research Leafhoppers: Evolution and Biochemistry of Natural Nanoparticles Leafhopper and SEM image of brochosomes on its wing Leafhoppers... (last changed by JeffreyBarrick) 2025-03-23T15:37:19Z JeffreyBarrick ProtocolsCulturingSnodgrassellaAlvi https://barricklab.org/twiki/bin/view/Lab/ProtocolsCulturingSnodgrassellaAlvi Working with Snodgrassella alvi Snodgrassella alvi is a member of the honey bee ( Apis mellifera ) gut core microbiota that can be cultivated in vitro . Its isolation... (last changed by ZuberiAshraf) 2025-03-20T22:39:08Z ZuberiAshraf ProtocolsRecipesMinimalGlucose https://barricklab.org/twiki/bin/view/Lab/ProtocolsRecipesMinimalGlucose MG: Minimal Glucose agar, aka DM: Davis Mingioli agar Note: When making these plates it is necessary to prepare and autoclave the 3 main parts (salts, agar, and sugar... (last changed by AlexaMorton) 2025-01-09T20:14:37Z AlexaMorton ProtocolsRecipesLysogenyBroth https://barricklab.org/twiki/bin/view/Lab/ProtocolsRecipesLysogenyBroth LB: Lysogeny Broth / Luria Bertani Medium (Miller) Rich media used for routine culture of E. coli and other bacteria at high cell densities. Add dH2O to desired... (last changed by SophiaLin) 2024-09-05T22:00:19Z SophiaLin ProtocolsComputerSetup https://barricklab.org/twiki/bin/view/Lab/ProtocolsComputerSetup Computer Setup for Bioinformatics and Computational Biology So, you want to harness the immense power of bioinformatics and computational biology for your science... (last changed by JeffreyBarrick) 2024-07-09T21:10:27Z JeffreyBarrick ProtocolsReagentRecipes https://barricklab.org/twiki/bin/view/Lab/ProtocolsReagentRecipes Reagent and Buffer Recipes General calculation resources Mass Molarity Calculator Solution Dilution Calculator Gel Electrophoresis 50 TAE (Tris Acetate... (last changed by IsaacGifford) 2023-09-20T16:31:05Z IsaacGifford QPCR https://barricklab.org/twiki/bin/view/Lab/QPCR Comparative Quantitative PCR (qPCR) Quantitative PCR (qPCR) is a tool routinely used for the quantitation of target nucleic acid sequences. If it is your first time... (last changed by DanielDeatherage) 2023-01-11T18:35:10Z DanielDeatherage ProceduresPrimerDesign https://barricklab.org/twiki/bin/view/Lab/ProceduresPrimerDesign Sequencing/Genotyping Primer Design This protocol is specifically for designing primers to PCR amplify a target region of interest from a genome and re sequencing... (last changed by JeffreyBarrick) 2022-09-26T21:53:31Z JeffreyBarrick PhenolChloroformExtraction https://barricklab.org/twiki/bin/view/Lab/PhenolChloroformExtraction Phenol/chloroform extraction Extracting genomic bacterial DNA from pellet with phenol/chloroform with a combined EtOH precipitation step for salt/SDS/small nucleic... (last changed by MattMcGuffie) 2022-07-20T16:42:59Z MattMcGuffie RefGeneqPCR https://barricklab.org/twiki/bin/view/Lab/RefGeneqPCR C1 Condition 1, C2 Condition 2, and BR# Biological Replicate Template Material Use cDNA dilution determined in cDNA Concentration qPCR Note: Once you... (last changed by KateElston) 2022-07-19T22:56:58Z KateElston BeeEDGE https://barricklab.org/twiki/bin/view/Lab/BeeEDGE Bee Functional Genomics Using Engineered Symbionts Welcome to the temporary website for our new NSF EDGE project! Insects are among the most widespread and diverse... (last changed by JeffreyBarrick) 2022-01-26T18:10:51Z JeffreyBarrick ProceduresPlasmidSequencing https://barricklab.org/twiki/bin/view/Lab/ProceduresPlasmidSequencing Major version notes Runs prior to February 2020 had a variety of formats and sample submission requirements. Suggested that individual runs be consulted on utbox for... (last changed by DanielDeatherage) 2021-11-03T20:04:22Z DanielDeatherage
 

 <<O>>  Difference Topic WebRss (2 - 2004-08-16 - PeterThoeny)
Changed:
<
<		 TWiki's Lab web https://barricklab.org/twiki/bin/view/Lab The Lab web of TWiki. TWiki is a Web-Based Collaboration Platform for the Corporate World. en-us Copyright 2025 by contributing authors TWiki Administrator [admin@barricklab.org] The contributing authors of TWiki TWiki Home - this site is powered by TWiki(R).Lab https://barricklab.org/twiki/bin/view/Lab /twiki/pub/TWiki/TWikiLogos/T-logo-140x40-t.gif PublicationList https://barricklab.org/twiki/bin/view/Lab/PublicationList Barrick Lab :: Publications Barrick Lab Publications on Google Scholar Barrick Lab researchers Equal contributions ^Corresponding author(s) Undergraduate... (last changed by JeffreyBarrick) 2025-08-31T14:27:55Z JeffreyBarrick ProtocolsFluctuationTests https://barricklab.org/twiki/bin/view/Lab/ProtocolsFluctuationTests Fluctuation Tests Introduction This protocol is for doing a Luria Delbr... (last changed by TylerDeJong) 2025-08-01T20:05:22Z TylerDeJong ProcedureGenomeModificationDatsenkoWanner https://barricklab.org/twiki/bin/view/Lab/ProcedureGenomeModificationDatsenkoWanner Lambda Red Protocol Lambda Red Plasmids These plasmids are available as part of the Lambda Red disruption kit from the E. coli Genetic Stock Center. pKD... (last changed by TylerDeJong) 2025-07-16T22:45:11Z TylerDeJong GlasswareCleaning https://barricklab.org/twiki/bin/view/Lab/GlasswareCleaning How to clean glassware LTEE flasks and lids LTEE glassware... (last changed by AlexaMorton) 2025-06-12T19:13:08Z AlexaMorton ProtocolsAntibioticStockSolutions https://barricklab.org/twiki/bin/view/Lab/ProtocolsAntibioticStockSolutions Media amendments Preparation: Generally, prepare 30 50 mL of solution in a 50 mL conical tube. Then, filter sterilize solutions by pushing them through a 50 mL syringe... (last changed by AlexaMorton) 2025-06-11T19:01:08Z AlexaMorton ProtocolsCulturingFirm_5 https://barricklab.org/twiki/bin/view/Lab/ProtocolsCulturingFirm_5 Working with Lactobacillus `Firm 5` The Lactobacillus `Firm 5` clade are gram positive bacterial symbionts of the honey bee ( Apis mellifera ) gut core microbiota... (last changed by ZuberiAshraf) 2025-03-20T22:41:16Z ZuberiAshraf ProcedureGeneReplacements https://barricklab.org/twiki/bin/view/Lab/ProcedureGeneReplacements Allelic exchange using pKOV or pKOV style vectors Before beginning part 1: design primers 1 Insert should be ~1kb with approximately 500bp on either side of mutation... (last changed by TylerDeJong) 2025-03-01T23:17:14Z TylerDeJong ProtocolsComputingEnvironmentSetup https://barricklab.org/twiki/bin/view/Lab/ProtocolsComputingEnvironmentSetup Computing Environment Setup for Bioinformatics and Computational Biology So, you want to harness the immense power of bioinformatics and computational biology for... (last changed by JeffreyBarrick) 2024-07-09T22:37:14Z JeffreyBarrick ProtocolsLabeling https://barricklab.org/twiki/bin/view/Lab/ProtocolsLabeling Labeling Glassware and Other Containers All bottles, flasks, tubes, graduated cylinders, and beakers that contain liquid or any substance must be labeled with a description... (last changed by SophiaLin) 2024-07-09T21:53:26Z SophiaLin ProtocolsStyleGuide https://barricklab.org/twiki/bin/view/Lab/ProtocolsStyleGuide Barrick Lab Style Guide Writing a Scientific Paper Steps to Writing a Research Article (Original: Beth A. Fischer and Michael J. Zigmond, Survival Skills and... (last changed by JeffreyBarrick) 2024-04-27T13:32:06Z JeffreyBarrick ProceduresGeneGorgingEvolvedAlleles https://barricklab.org/twiki/bin/view/Lab/ProceduresGeneGorgingEvolvedAlleles Gene Gorging Evolved Alleles This procedure can be used to directly create unmarked mutations in the E. coli genome. Transform Gene Gorging and Donor Plasmid... (last changed by JeffreyBarrick) 2024-01-12T17:09:54Z JeffreyBarrick ProtocolHowTo https://barricklab.org/twiki/bin/view/Lab/ProtocolHowTo How to Create a Protocol Tips for Design You should generally organize a protocol to have sections that are relevant from this list: Supplies (materials, strains... (last changed by JeffreyBarrick) 2023-09-23T21:08:48Z JeffreyBarrick ToolsMarkerDivergence https://barricklab.org/twiki/bin/view/Lab/ToolsMarkerDivergence WarningThese instructions and the associated scripts have not been tested with more modern versions of R / Perl / Matlab / etc. The procedure may require updates to... (last changed by JeffreyBarrick) 2023-09-20T15:41:36Z JeffreyBarrick ProtocolsBTKMakeANewPartPlasmid https://barricklab.org/twiki/bin/view/Lab/ProtocolsBTKMakeANewPartPlasmid Back to Golden Gate Protocols Part Plasmid Assembly Once you have designed your part and either amplified with PCR or ordered the desired gBlock (as described here... (last changed by JeffreyBarrick) 2023-06-14T17:33:34Z JeffreyBarrick PrimerEfficiencyqPCR https://barricklab.org/twiki/bin/view/Lab/PrimerEfficiencyqPCR (Numbers are PCR product dilution with `10` representing a 1:10 dilution of your 0.01ng/ul PCR product prepped as described above) Template Material Use PCR... (last changed by DanielDeatherage) 2023-02-01T17:10:07Z DanielDeatherage ProtocolsAcinetobacterBaylyiADP1 https://barricklab.org/twiki/bin/view/Lab/ProtocolsAcinetobacterBaylyiADP1 Acinetobacter baylyi ADP1 Overview ADP1 Resources Genome Sequences type strain (GenBank Format) In general, use this genome as a reference when referring... (last changed by IsaacGifford) 2022-03-22T18:35:13Z IsaacGifford
>
>		 TWiki's Lab web https://barricklab.org/twiki/bin/view/Lab The Lab web of TWiki. TWiki is a Web-Based Collaboration Platform for the Corporate World. en-us Copyright 2025 by contributing authors TWiki Administrator [admin@barricklab.org] The contributing authors of TWiki TWiki Home - this site is powered by TWiki(R).Lab https://barricklab.org/twiki/bin/view/Lab /twiki/pub/TWiki/TWikiLogos/T-logo-140x40-t.gif PublicationList https://barricklab.org/twiki/bin/view/Lab/PublicationList Barrick Lab :: Publications Barrick Lab Publications on Google Scholar Barrick Lab researchers Equal contributions ^Corresponding author(s) Undergraduate... (last changed by JeffreyBarrick) 2025-08-31T14:27:55Z JeffreyBarrick ProtocolsFluctuationTests https://barricklab.org/twiki/bin/view/Lab/ProtocolsFluctuationTests Fluctuation Tests Introduction This protocol is for doing a Luria Delbr... (last changed by TylerDeJong) 2025-08-01T20:05:22Z TylerDeJong ProcedureGenomeModificationDatsenkoWanner https://barricklab.org/twiki/bin/view/Lab/ProcedureGenomeModificationDatsenkoWanner Lambda Red Protocol Lambda Red Plasmids These plasmids are available as part of the Lambda Red disruption kit from the E. coli Genetic Stock Center. pKD... (last changed by TylerDeJong) 2025-07-16T22:45:11Z TylerDeJong GlasswareCleaning https://barricklab.org/twiki/bin/view/Lab/GlasswareCleaning How to clean glassware LTEE flasks and lids LTEE glassware... (last changed by AlexaMorton) 2025-06-12T19:13:08Z AlexaMorton ProtocolsAntibioticStockSolutions https://barricklab.org/twiki/bin/view/Lab/ProtocolsAntibioticStockSolutions Media amendments Preparation: Generally, prepare 30 50 mL of solution in a 50 mL conical tube. Then, filter sterilize solutions by pushing them through a 50 mL syringe... (last changed by AlexaMorton) 2025-06-11T19:01:08Z AlexaMorton ProtocolsCulturingFirm_5 https://barricklab.org/twiki/bin/view/Lab/ProtocolsCulturingFirm_5 Working with Lactobacillus `Firm 5` The Lactobacillus `Firm 5` clade are gram positive bacterial symbionts of the honey bee ( Apis mellifera ) gut core microbiota... (last changed by ZuberiAshraf) 2025-03-20T22:41:16Z ZuberiAshraf ProtocolsWorkingWithSerratiaSymbiotica https://barricklab.org/twiki/bin/view/Lab/ProtocolsWorkingWithSerratiaSymbiotica Working with Serratia symbiotica Serratia symbiotica is a secondary endosymbiont of the black bean aphid ( Aphis fabae ) gut microbiota that can be cultivated... (last changed by AnthonyVandieren) 2025-03-20T21:24:12Z AnthonyVandieren ProtocolsLabelingAndTech https://barricklab.org/twiki/bin/view/Lab/ProtocolsLabelingAndTech Labeling Glassware and Other Containers All bottles, flasks, tubes, graduated cylinders, and beakers that contain liquid or any substance must be labeled with a description... (last changed by AlexaMorton) 2024-07-18T16:25:04Z AlexaMorton ProtocolsComputingEnvironmentSetup https://barricklab.org/twiki/bin/view/Lab/ProtocolsComputingEnvironmentSetup Computing Environment Setup for Bioinformatics and Computational Biology So, you want to harness the immense power of bioinformatics and computational biology for... (last changed by JeffreyBarrick) 2024-07-09T22:37:14Z JeffreyBarrick ProtocolsStyleGuide https://barricklab.org/twiki/bin/view/Lab/ProtocolsStyleGuide Barrick Lab Style Guide Writing a Scientific Paper Steps to Writing a Research Article (Original: Beth A. Fischer and Michael J. Zigmond, Survival Skills and... (last changed by JeffreyBarrick) 2024-04-27T13:32:06Z JeffreyBarrick ProceduresGeneGorgingEvolvedAlleles https://barricklab.org/twiki/bin/view/Lab/ProceduresGeneGorgingEvolvedAlleles Gene Gorging Evolved Alleles This procedure can be used to directly create unmarked mutations in the E. coli genome. Transform Gene Gorging and Donor Plasmid... (last changed by JeffreyBarrick) 2024-01-12T17:09:54Z JeffreyBarrick ProtocolHowTo https://barricklab.org/twiki/bin/view/Lab/ProtocolHowTo How to Create a Protocol Tips for Design You should generally organize a protocol to have sections that are relevant from this list: Supplies (materials, strains... (last changed by JeffreyBarrick) 2023-09-23T21:08:48Z JeffreyBarrick ToolsMarkerDivergence https://barricklab.org/twiki/bin/view/Lab/ToolsMarkerDivergence WarningThese instructions and the associated scripts have not been tested with more modern versions of R / Perl / Matlab / etc. The procedure may require updates to... (last changed by JeffreyBarrick) 2023-09-20T15:41:36Z JeffreyBarrick PrimerEfficiencyqPCR https://barricklab.org/twiki/bin/view/Lab/PrimerEfficiencyqPCR (Numbers are PCR product dilution with `10` representing a 1:10 dilution of your 0.01ng/ul PCR product prepped as described above) Template Material Use PCR... (last changed by DanielDeatherage) 2023-02-01T17:10:07Z DanielDeatherage ProtocolsAcinetobacterBaylyiADP1 https://barricklab.org/twiki/bin/view/Lab/ProtocolsAcinetobacterBaylyiADP1 Acinetobacter baylyi ADP1 Overview ADP1 Resources Genome Sequences type strain (GenBank Format) In general, use this genome as a reference when referring... (last changed by IsaacGifford) 2022-03-22T18:35:13Z IsaacGifford ProtocolsChemCompCellsCaCl2Glycerol https://barricklab.org/twiki/bin/view/Lab/ProtocolsChemCompCellsCaCl2Glycerol Preparing Chemically Competent Cells using the CaCl2/Glycerol Method Re engineering the ribosome for efficient selenoprotein synthesis Ross Thyer, 2012 http://docplayer... (last changed by KateElston) 2021-09-17T20:59:27Z KateElston
Added:
>
>
 

 <<O>>  Difference Topic WebRss (1 - 2003-01-30 - PeterThoeny)
  TWiki's Lab web https://barricklab.org/twiki/bin/view/Lab The Lab web of TWiki. TWiki is a Web-Based Collaboration Platform for the Corporate World. en-us Copyright 2025 by contributing authors TWiki Administrator [admin@barricklab.org] The contributing authors of TWiki TWiki Home - this site is powered by TWiki(R).Lab https://barricklab.org/twiki/bin/view/Lab /twiki/pub/TWiki/TWikiLogos/T-logo-140x40-t.gif PublicationList https://barricklab.org/twiki/bin/view/Lab/PublicationList Barrick Lab :: Publications Barrick Lab Publications on Google Scholar Barrick Lab researchers Equal contributions ^Corresponding author(s) Undergraduate... (last changed by JeffreyBarrick) 2025-08-31T14:27:55Z JeffreyBarrick AutoclaveSterilization https://barricklab.org/twiki/bin/view/Lab/AutoclaveSterilization Autoclave Sterilization Overview Autoclaves heat their contents to 121... (last changed by AlexaMorton) 2025-06-13T13:30:39Z AlexaMorton ProtocolsMediaRecipes https://barricklab.org/twiki/bin/view/Lab/ProtocolsMediaRecipes Media Recipes When making media, make sure the autoclave bin you`re using contains water (DI or tap) at least half an inch deep to help prevent excess water loss... (last changed by AlexaMorton) 2025-06-12T14:23:46Z AlexaMorton ProtocolsCulturingSnodgrassellaAlvi https://barricklab.org/twiki/bin/view/Lab/ProtocolsCulturingSnodgrassellaAlvi Working with Snodgrassella alvi Snodgrassella alvi is a member of the honey bee ( Apis mellifera ) gut core microbiota that can be cultivated in vitro . Its isolation... (last changed by ZuberiAshraf) 2025-03-20T22:39:08Z ZuberiAshraf ProtocolsRecipesMinimalGlucose https://barricklab.org/twiki/bin/view/Lab/ProtocolsRecipesMinimalGlucose MG: Minimal Glucose agar, aka DM: Davis Mingioli agar Note: When making these plates it is necessary to prepare and autoclave the 3 main parts (salts, agar, and sugar... (last changed by AlexaMorton) 2025-01-09T20:14:37Z AlexaMorton ToolsBacterialGenomeResequencing https://barricklab.org/twiki/bin/view/Lab/ToolsBacterialGenomeResequencing breseq breseq is a computational pipeline for finding mutations relative to a reference sequence in short read DNA re sequencing data for haploid microbial sized... (last changed by JeffreyBarrick) 2024-10-14T00:11:08Z JeffreyBarrick ProtocolsRecipesLysogenyBroth https://barricklab.org/twiki/bin/view/Lab/ProtocolsRecipesLysogenyBroth LB: Lysogeny Broth / Luria Bertani Medium (Miller) Rich media used for routine culture of E. coli and other bacteria at high cell densities. Add dH2O to desired... (last changed by SophiaLin) 2024-09-05T22:00:19Z SophiaLin ProtocolsComputerSetup https://barricklab.org/twiki/bin/view/Lab/ProtocolsComputerSetup Computer Setup for Bioinformatics and Computational Biology So, you want to harness the immense power of bioinformatics and computational biology for your science... (last changed by JeffreyBarrick) 2024-07-09T21:10:27Z JeffreyBarrick ProtocolsReagentRecipes https://barricklab.org/twiki/bin/view/Lab/ProtocolsReagentRecipes Reagent and Buffer Recipes General calculation resources Mass Molarity Calculator Solution Dilution Calculator Gel Electrophoresis 50 TAE (Tris Acetate... (last changed by IsaacGifford) 2023-09-20T16:31:05Z IsaacGifford QPCR https://barricklab.org/twiki/bin/view/Lab/QPCR Comparative Quantitative PCR (qPCR) Quantitative PCR (qPCR) is a tool routinely used for the quantitation of target nucleic acid sequences. If it is your first time... (last changed by DanielDeatherage) 2023-01-11T18:35:10Z DanielDeatherage ProceduresPrimerDesign https://barricklab.org/twiki/bin/view/Lab/ProceduresPrimerDesign Sequencing/Genotyping Primer Design This protocol is specifically for designing primers to PCR amplify a target region of interest from a genome and re sequencing... (last changed by JeffreyBarrick) 2022-09-26T21:53:31Z JeffreyBarrick PhenolChloroformExtraction https://barricklab.org/twiki/bin/view/Lab/PhenolChloroformExtraction Phenol/chloroform extraction Extracting genomic bacterial DNA from pellet with phenol/chloroform with a combined EtOH precipitation step for salt/SDS/small nucleic... (last changed by MattMcGuffie) 2022-07-20T16:42:59Z MattMcGuffie BeeEDGE https://barricklab.org/twiki/bin/view/Lab/BeeEDGE Bee Functional Genomics Using Engineered Symbionts Welcome to the temporary website for our new NSF EDGE project! Insects are among the most widespread and diverse... (last changed by JeffreyBarrick) 2022-01-26T18:10:51Z JeffreyBarrick ProtocolsElectrocompetentCells https://barricklab.org/twiki/bin/view/Lab/ProtocolsElectrocompetentCells Electrocompetent E. coli Making Electrocompetent E. coli Cells (small batch) This procedure makes enough electrocompetent cells for 2 3 transformations. 1 Grow... (last changed by KateElston) 2021-07-09T22:05:00Z KateElston ProtocolsEthanolPrecipitation https://barricklab.org/twiki/bin/view/Lab/ProtocolsEthanolPrecipitation Ethanol Precipitation Precipitating DNA/RNA from solution to remove salts and small nucleic acid fragments. Materials 3M Sodium Acetate, pH 5.2 (store at... (last changed by VictorLi) 2021-06-11T20:52:50Z VictorLi ProtocolsPhageTiters https://barricklab.org/twiki/bin/view/Lab/ProtocolsPhageTiters Determining Phage Titer Phage Titering is a procedure used to quantify the density of plaque forming units (PFU, analogous to a bacterial culture... (last changed by CameronRoots) 2020-12-03T21:39:27Z CameronRoots

View | History: r4 < r3 < r2 < r1 | More

Copyright ©2025 Barrick Lab contributing authors. Ideas, requests, problems? Send feedback

%TEXT%