scinote-web/app/assets/templates/experiment_430/experiment.json

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The presence of around \u003cstrong\u003e100–200 colonies\u003c/strong\u003e on the lower of the two dilutions\u003cstrong\u003e (10\u003csup\u003e-5\u003c/sup\u003e)\u003c/strong\u003e of the initial bacterial suspension is expected when using the correct bacterial suspension density of \u003cstrong\u003e1–2x10\u003csup\u003e8\u003c/sup\u003e CFU/mL\u003c/strong\u003e. If the cell numbers are within the desired range, the test can be analyzed to determine the MIC. Also, check the antibiotic-free growth control plate. Visible growth needs to occur for the test to be valid.\u003cbr\u003e\u003cbr\u003e\u003cem\u003e\u003cstrong\u003eThe MIC is defined as the lowest concentration of the antimicrobial substance that inhibits visible growth of the tested isolate.\u003c/strong\u003e\u003c/em\u003e The growth of a single colony or faint film caused by the inoculum should be disregarded. When growth of the tested organism occurs on all agar plates with antimicrobial agent, the MIC is recorded as greater than the highest concentration tested. The MIC is recorded as less than or equal to the lowest concentration when no growth occurs on any of the agar plates but the growth control.\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":0,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T14:42:15.692Z","updated_at":"2019-02-20T07:39:28.160Z","last_modified_by_id":202,"protocol_id":3460},"checklists":[],"step_comments":[],"step_assets":[{"id":3090,"step_id":4387,"asset_id":3752}],"assets":[{"id":3752,"created_at":"2019-02-20T07:38:52.075Z","updated_at":"2019-02-20T07:39:28.152Z","file_file_name":"Example.jpg","file_content_type":"image/jpeg","file_file_size":56895,"file_updated_at":"2019-02-20T07:39:27.737Z","created_by_id":202,"last_modified_by_id":null,"estimated_size":62584,"file_present":true,"lock":null,"lock_ttl":null,"version":1,"file_processing":false,"team_id":1}],"step_tables":[],"tables":[]}]}],"results":[]},{"my_module":{"id":2132,"name":"Antimicrobial susceptibility testing","due_date":null,"description":null,"x":34,"y":26,"my_module_group_id":1185,"created_at":"2018-11-09T14:20:10.098Z","updated_at":"2018-12-19T13:28:00.798Z","archived":false,"archived_on":null,"created_by_id":202,"last_modified_by_id":202,"archived_by_id":null,"restored_by_id":null,"restored_on":null,"nr_of_assigned_samples":0,"workflow_order":4,"experiment_id":430,"state":"uncompleted","completed_on":null},"outputs":[{"id":6010,"input_id":2134,"output_id":2132}],"my_module_tags":[],"task_comments":[],"my_module_repository_rows":[],"user_my_modules":[],"protocols":[{"protocol":{"id":3458,"name":null,"authors":null,"description":null,"added_by_id":null,"my_module_id":2132,"team_id":1,"protocol_type":"unlinked","parent_id":null,"parent_updated_at":null,"archived_by_id":null,"archived_on":null,"restored_by_id":null,"restored_on":null,"created_at":"2018-11-09T14:20:10.107Z","updated_at":"2019-02-20T07:38:33.613Z","published_on":null,"nr_of_linked_children":0},"protocol_protocol_keywords":[],"steps":[{"step":{"id":5200,"name":"Agar plates","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\n\u003cp style=\"text-align: justify;\"\u003e\u003cstrong\u003eBacterial suspension preparation:\u003c/strong\u003e Mix the bacterial suspension, adjusted to \u003cstrong\u003e1x10\u003csup\u003e8\u003c/sup\u003e CFU/mL\u003c/strong\u003e from \u003cspan class=\"atwho-inserted\" contenteditable=\"false\" data-atwho-at-query=\"#grow\"\u003e[#Growth method~tsk~YI]\u003c/span\u003e  or  \u003cspan class=\"atwho-inserted\" contenteditable=\"false\" data-atwho-at-query=\"#colo\"\u003e[#Colony suspension~tsk~YH]\u003c/span\u003e  by vortexing and dilute it \u003cstrong\u003e1:10\u003c/strong\u003e into a cavity of a sterile\u003cstrong\u003e 96-well\u003c/strong\u003e microtiter plate by pipetting \u003cstrong\u003e10 mL\u003c/strong\u003e into a well containing \u003cstrong\u003e90 mL\u003c/strong\u003e of sterile broth or saline. 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Plate \u003cstrong\u003e100 µL\u003c/strong\u003e of the last two \u003cstrong\u003e1:10\u003c/strong\u003e dilutions (\u003cstrong\u003e10\u003csup\u003e–4\u003c/sup\u003e to 10\u003csup\u003e–5\u003c/sup\u003e\u003c/strong\u003e) evenly onto antibiotic-free nutrient-rich agar plates using a sterile cell spreader.\u003c/p\u003e\n\u003cstrong\u003eIncubation:\u003cbr\u003e\u003c/strong\u003e\n\u003cul\u003e\n\u003cli\u003e37°C\u003c/li\u003e\n\u003cli\u003e16-20h\u003c/li\u003e\n\u003c/ul\u003e\nCount colonies the next day ( \u003cspan class=\"atwho-inserted\" contenteditable=\"false\" data-atwho-at-query=\"#coun\"\u003e[#Cell count~tsk~YL]\u003c/span\u003e )\u003c/body\u003e\u003c/html\u003e","position":1,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-12-17T14:27:56.093Z","updated_at":"2019-02-20T07:39:27.591Z","last_modified_by_id":202,"protocol_id":3458},"checklists":[],"step_comments":[],"step_assets":[{"id":3089,"step_id":5200,"asset_id":3751}],"assets":[{"id":3751,"created_at":"2019-02-20T07:38:33.374Z","updated_at":"2019-02-20T07:39:27.582Z","file_file_name":"Replicator.jpg","file_content_type":"image/jpeg","file_file_size":11609,"file_updated_at":"2019-02-20T07:39:27.153Z","created_by_id":202,"last_modified_by_id":null,"estimated_size":12769,"file_present":true,"lock":null,"lock_ttl":null,"version":1,"file_processing":false,"team_id":1}],"step_tables":[],"tables":[]},{"step":{"id":5198,"name":"Broth macrodilutions","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\n\u003cp\u003e\u003cstrong\u003eBroth dilutions preparation:\u003c/strong\u003e Add \u003cstrong\u003e1 mL\u003c/strong\u003e of each antibiotic dilution into one test tube for each isolate to be tested. 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Adjust volumes if necessary. \u003cbr\u003e\u003cstrong\u003eInoculation:\u003c/strong\u003e Inoculate each test tube containing the antibiotic solution and one control test tube (growth control) with\u003cstrong\u003e 1 mL\u003c/strong\u003e of the bacterial suspension. This results in the final desired inoculum of \u003cstrong\u003e5x10\u003csup\u003e5\u003c/sup\u003e CFU mL/L\u003c/strong\u003e.\u003cbr\u003e\u003cbr\u003e\u003cstrong\u003eIncubation:\u003c/strong\u003e\u003c/p\u003e\n\u003cul\u003e\n\u003cli\u003e37°C\u003c/li\u003e\n\u003cli\u003e16-20h\u003c/li\u003e\n\u003cli\u003eShaking at 225 r.p.m.\u003c/li\u003e\n\u003c/ul\u003e\n\u003cstrong\u003eCount colonies\u003c/strong\u003e the next day( \u003cspan class=\"atwho-inserted\" contenteditable=\"false\" data-atwho-at-query=\"#coun\"\u003e[#Cell count~tsk~YL]\u003c/span\u003e ).\u003c/body\u003e\u003c/html\u003e","position":0,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-12-17T14:06:59.583Z","updated_at":"2019-02-19T14:45:31.219Z","last_modified_by_id":202,"protocol_id":3458},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]}]}],"results":[]},{"my_module":{"id":2131,"name":"Macrodilutions of antibiotics","due_date":null,"description":null,"x":0,"y":35,"my_module_group_id":1185,"created_at":"2018-11-09T14:09:52.226Z","updated_at":"2018-12-19T13:28:00.800Z","archived":false,"archived_on":null,"created_by_id":202,"last_modified_by_id":202,"archived_by_id":null,"restored_by_id":null,"restored_on":null,"nr_of_assigned_samples":0,"workflow_order":0,"experiment_id":430,"state":"uncompleted","completed_on":null},"outputs":[{"id":6013,"input_id":2132,"output_id":2131}],"my_module_tags":[],"task_comments":[],"my_module_repository_rows":[],"user_my_modules":[],"protocols":[{"protocol":{"id":3457,"name":null,"authors":null,"description":null,"added_by_id":null,"my_module_id":2131,"team_id":1,"protocol_type":"unlinked","parent_id":null,"parent_updated_at":null,"archived_by_id":null,"archived_on":null,"restored_by_id":null,"restored_on":null,"created_at":"2018-11-09T14:09:52.235Z","updated_at":"2019-02-19T14:41:27.828Z","published_on":null,"nr_of_linked_children":0},"protocol_protocol_keywords":[],"steps":[{"step":{"id":4382,"name":"Prepare antibiotic dilutions","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003ePrepare antibiotic dilutions following steps bellow.\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":0,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T14:16:11.568Z","updated_at":"2018-12-24T09:07:19.921Z","last_modified_by_id":202,"protocol_id":3457},"checklists":[{"checklist":{"id":965,"name":"Guideline:","step_id":4382,"created_at":"2018-12-21T11:38:45.338Z","updated_at":"2018-12-21T11:38:45.338Z","created_by_id":null,"last_modified_by_id":null},"checklist_items":[{"id":3970,"text":"Prepare antibiotic dilutions in sterile MHB in sterile test tubes according to table.","checked":false,"checklist_id":965,"created_at":"2018-12-21T11:38:45.340Z","updated_at":"2018-12-21T11:38:45.340Z","created_by_id":null,"last_modified_by_id":null,"position":0},{"id":3971,"text":"As the antibiotic solution is later inoculated with an equal amount of bacteria in broth, the dilutions are prepared at a concentration twice the desired final concentration.","checked":false,"checklist_id":965,"created_at":"2018-12-21T11:38:45.347Z","updated_at":"2018-12-21T11:38:45.347Z","created_by_id":null,"last_modified_by_id":null,"position":1},{"id":3972,"text":"Start by dispensing sterile broth into twelve sterile 13x100 mm tubes closed with metal caps. A single 10 mL pipette can be used to pipette the 9 mL and 3 mL volumes of broth into the respective tubes. Use a single 1 mL pipette for pipetting the 1 mL of broth in stages 2, 5, 8 and 11.","checked":false,"checklist_id":965,"created_at":"2018-12-21T11:38:45.354Z","updated_at":"2018-12-21T11:38:45.354Z","created_by_id":null,"last_modified_by_id":null,"position":2},{"id":3973,"text":"It is possible to use the same pipette for pipetting 1 mL of the antibiotic stock solution into the first test tube. Mix thoroughly using a vortex mixer.","checked":false,"checklist_id":965,"created_at":"2018-12-21T11:38:45.361Z","updated_at":"2018-12-21T11:38:45.361Z","created_by_id":null,"last_modified_by_id":null,"position":3},{"id":3974,"text":"Use separate pipettes/pipette tips when preparing each of the other antibiotic solutions. 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mixer.","checked":false,"checklist_id":965,"created_at":"2018-12-21T11:38:45.371Z","updated_at":"2018-12-21T11:38:45.371Z","created_by_id":null,"last_modified_by_id":null,"position":4}]}],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[{"id":546,"step_id":4382,"table_id":683}],"tables":[{"id":683,"created_at":"2018-12-21T11:38:45.382Z","updated_at":"2018-12-21T11:48:45.258Z","created_by_id":202,"last_modified_by_id":202,"name":"","team_id":1,"contents":"eyJkYXRhIjpbWyJTdGFnZSIsIkFudGltaWNyb2JpYWwgY29uY2VudHJhdGlv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\nLCJTdGFnZSAxMCIsIjEiLCIzIiwiMC4wNiIsIjAuMDMiXV19\n","data_vector":"JzAuMDMnOjExOSAnMC4wNic6MTExLDExOCAnMC4xMjUnOjEwMywxMTAgJzAu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\nMjMgJ3ZvbHVtZSc6NiwxMg==\n"}]},{"step":{"id":4383,"name":"Labeling 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antibiotic stock","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003eDilute the \u003cstrong\u003e10 mg/mL\u003c/strong\u003e antibiotic stock solution \u003cstrong\u003e1:10\u003c/strong\u003e in sterile broth or water to achieve a \u003cstrong\u003e1 mg/mL\u003c/strong\u003e solution.\u003cbr\u003eDilute the \u003cstrong\u003e1 mg/mL\u003c/strong\u003e solution \u003cstrong\u003e1:10\u003c/strong\u003e in sterile broth or water to achieve a \u003cstrong\u003e0.1 mg/mL\u003c/strong\u003e solution\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":2,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T12:10:09.672Z","updated_at":"2019-02-19T14:43:41.186Z","last_modified_by_id":202,"protocol_id":3453},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]},{"step":{"id":4370,"name":"Prepare agar plates","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003ePrepare agar plates following guidelines bellow.\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":3,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T12:22:03.852Z","updated_at":"2018-12-24T09:08:20.489Z","last_modified_by_id":202,"protocol_id":3453},"checklists":[{"checklist":{"id":966,"name":"Guidelines:","step_id":4370,"created_at":"2018-12-21T11:52:37.302Z","updated_at":"2018-12-21T11:52:37.302Z","created_by_id":null,"last_modified_by_id":null},"checklist_items":[{"id":3975,"text":"Dispense appropriate amounts of antibiotic solution into the respective containers. Follow table steps.","checked":false,"checklist_id":966,"created_at":"2018-12-21T11:52:37.304Z","updated_at":"2018-12-21T11:52:37.304Z","created_by_id":null,"last_modified_by_id":null,"position":0},{"id":3976,"text":"For each agar plate, add 25 mL agar (now at a temperature of 50°C) into the container, mix well (avoid bubbles) and pour 25 ml into a petri dish labelled with the respective antibiotic concentration.","checked":false,"checklist_id":966,"created_at":"2018-12-21T11:52:37.311Z","updated_at":"2018-12-21T11:52:37.311Z","created_by_id":null,"last_modified_by_id":null,"position":1},{"id":3977,"text":"Pour a control agar plate without any antibiotic. Adjust the number if necessary.","checked":false,"checklist_id":966,"created_at":"2018-12-21T11:52:37.317Z","updated_at":"2018-12-21T11:52:37.317Z","created_by_id":null,"last_modified_by_id":null,"position":2},{"id":3978,"text":"Allow agar to set.","checked":false,"checklist_id":966,"created_at":"2018-12-21T11:52:37.324Z","updated_at":"2018-12-21T11:52:37.324Z","created_by_id":null,"last_modified_by_id":null,"position":3},{"id":3979,"text":"Dry the surface of the agar plates either in an incubator or in a laminar airflow hood for 30 min. Leave the lid ajar.","checked":false,"checklist_id":966,"created_at":"2018-12-21T11:52:37.330Z","updated_at":"2018-12-21T11:52:37.330Z","created_by_id":null,"last_modified_by_id":null,"position":4},{"id":3980,"text":"Mark the bottom of the agar plates to define an orientation.","checked":false,"checklist_id":966,"created_at":"2018-12-21T11:52:37.336Z","updated_at":"2018-12-21T11:52:37.336Z","created_by_id":null,"last_modified_by_id":null,"position":5}]}],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[{"id":545,"step_id":4370,"table_id":682}],"tables":[{"id":682,"created_at":"2018-12-20T13:07:47.021Z","updated_at":"2018-12-24T09:08:20.452Z","created_by_id":202,"last_modified_by_id":202,"name":"","team_id":1,"contents":"eyJkYXRhIjpbWyJBbnRpbWljcm9iaWFsIGNvbmNlbnRyYXRpb24gKG1nL0wp\nIiwiVm9sdW1lIG9mIGFudGliaW90aWMgc3RvY2sgc29sdXRpb24gKM68TCki\nLCJGaW5hbCBjb25jZW50cmF0aW9uIHdoZW4gYWRkaW5nIDI1bUwgb2YgYWdh\nciJdLFsiMTAiLCIzMjAiLCIxMjgiXSxbIjEwIiwiMTYwIiwiNjQiXSxbIjEw\nIiwiODAiLCIzMiJdLFsiMTAiLCI0MCIsIjE2Il0sWyIxIiwiMjAwIiwiOCJd\nLFsiMSIsIjEwMCIsIjQiXSxbIjEiLCI1MCIsIjIiXSxbIjAuMSIsIjI1MCIs\nIjEiXSxbIjAuMSIsIjEyNSIsIjAuNSJdLFsiMC4xIiwiNjIuNSIsIjAuMjUi\nXSxbIjAuMSIsIjMxLjI1IiwiMS4xMjUiXV19\n","data_vector":"JzAuMSc6MzksNDIsNDUsNDggJzAuMjUnOjQ3ICcwLjUnOjQ0ICcxJzozMCwz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\nZW4nOjEz\n"}]},{"step":{"id":5197,"name":"Preparation and autoclaving of media","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\n\u003cdiv class=\"row\"\u003e\n\u003cdiv class=\"col-xs-12\"\u003e\n\u003cdiv class=\"ql-editor\"\u003e\n\u003cp\u003ePrepare MHA medium following manufacturer’s instructions. 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samples for cell count","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003eFollow the protocol in \u003cspan class=\"atwho-inserted\" contenteditable=\"false\" data-atwho-at-query=\"#coun\"\u003e[#Cell count~tsk~YL]\u003c/span\u003e \u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":4,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-12-17T14:34:48.930Z","updated_at":"2018-12-17T14:34:48.930Z","last_modified_by_id":202,"protocol_id":3450},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]},{"step":{"id":4357,"name":"Isolate preparation","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003eFollow the guidelines below to prepare an isolate.\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":1,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T09:26:34.638Z","updated_at":"2018-12-24T08:59:10.687Z","last_modified_by_id":202,"protocol_id":3450},"checklists":[{"checklist":{"id":962,"name":"Guidelines","step_id":4357,"created_at":"2018-12-21T11:09:29.266Z","updated_at":"2018-12-21T11:09:29.266Z","created_by_id":null,"last_modified_by_id":null},"checklist_items":[{"id":3957,"text":"For each isolate, select three to five morphologically similar colonies from the fresh agar plate from task","checked":false,"checklist_id":962,"created_at":"2018-12-21T11:09:29.268Z","updated_at":"2018-12-21T11:09:29.268Z","created_by_id":null,"last_modified_by_id":null,"position":0},{"id":3958,"text":"Plate preparation","checked":false,"checklist_id":962,"created_at":"2018-12-21T11:09:29.276Z","updated_at":"2018-12-21T11:09:29.276Z","created_by_id":null,"last_modified_by_id":null,"position":1},{"id":3959,"text":"Touch the top of each selected colony using a sterile loop or cotton swab.","checked":false,"checklist_id":962,"created_at":"2018-12-21T11:09:29.287Z","updated_at":"2018-12-21T11:09:29.287Z","created_by_id":null,"last_modified_by_id":null,"position":2},{"id":3960,"text":"Transfer the growth into a sterile capped glass tube containing sterile broth or saline solution.","checked":false,"checklist_id":962,"created_at":"2018-12-21T11:09:29.300Z","updated_at":"2019-02-07T09:10:36.760Z","created_by_id":null,"last_modified_by_id":null,"position":3},{"id":3961,"text":"Mix using a vortex mixer.","checked":false,"checklist_id":962,"created_at":"2018-12-21T11:09:29.307Z","updated_at":"2018-12-21T11:09:29.307Z","created_by_id":null,"last_modified_by_id":null,"position":4}]}],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]},{"step":{"id":5195,"name":"Pure cultures of bacterial isolates","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\n\u003cp\u003e\u003cstrong\u003eGrowth conditions:\u003c/strong\u003e\u003c/p\u003e\n\u003cul\u003e\n\u003cli\u003e37°C\u003c/li\u003e\n\u003cli\u003e18-24h\u003c/li\u003e\n\u003c/ul\u003e\n\u003c/body\u003e\u003c/html\u003e","position":0,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-12-17T13:07:04.214Z","updated_at":"2019-02-20T07:38:27.031Z","last_modified_by_id":202,"protocol_id":3450},"checklists":[{"checklist":{"id":961,"name":"Guidelines:","step_id":5195,"created_at":"2018-12-21T10:50:36.576Z","updated_at":"2018-12-21T10:50:36.576Z","created_by_id":null,"last_modified_by_id":null},"checklist_items":[{"id":3954,"text":"Prepare media (store at 4°C)","checked":false,"checklist_id":961,"created_at":"2018-12-21T10:50:36.577Z","updated_at":"2018-12-21T10:50:36.577Z","created_by_id":null,"last_modified_by_id":null,"position":0},{"id":3955,"text":"Prepare antibiotic stock solutions","checked":false,"checklist_id":961,"created_at":"2018-12-21T10:50:36.584Z","updated_at":"2018-12-21T10:50:36.584Z","created_by_id":null,"last_modified_by_id":null,"position":1},{"id":3956,"text":"Streak the bacterial isolates to be tested onto nutrient-rich agar plates without inhibitor to obtain single colonies","checked":false,"checklist_id":961,"created_at":"2018-12-21T10:50:36.592Z","updated_at":"2018-12-21T10:50:36.592Z","created_by_id":null,"last_modified_by_id":null,"position":2}]}],"step_comments":[],"step_assets":[{"id":3088,"step_id":5195,"asset_id":3750}],"assets":[{"id":3750,"created_at":"2019-02-20T07:38:05.206Z","updated_at":"2019-02-20T07:38:27.023Z","file_file_name":"Plate_Streaking.jpg","file_content_type":"image/jpeg","file_file_size":44335,"file_updated_at":"2019-02-20T07:38:26.711Z","created_by_id":202,"last_modified_by_id":null,"estimated_size":48768,"file_present":true,"lock":null,"lock_ttl":null,"version":1,"file_processing":false,"team_id":1}],"step_tables":[],"tables":[]},{"step":{"id":4358,"name":"Assessment of turbidity","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003e\u003cstrong\u003eTurbidity can be assessed visually by comparing the test and the McFarland Standard.\u003c/strong\u003e \u003cbr\u003e\u003cbr\u003eMix the McFarland \u003cstrong\u003e0.5 BaSO\u003csub\u003e4\u003c/sub\u003e\u003c/strong\u003e standard vigorously using a vortex mixer. The turbidity is verified measuring the absorbance of the suspension spectrophotometrically. The absorbance should be in the same range as that of the McFarland standard\u003cstrong\u003e 0.5\u003c/strong\u003e (\u003cstrong\u003eOD625 nm\u003c/strong\u003e should be at \u003cstrong\u003e0.08–0.13\u003c/strong\u003e).\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":2,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T10:11:24.463Z","updated_at":"2019-02-07T10:31:21.634Z","last_modified_by_id":202,"protocol_id":3450},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]},{"step":{"id":4359,"name":"Adjustment of suspension turbidity","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003eAdjust the suspension’s turbidity to that of a McFarland Standard \u003cstrong\u003e0.5\u003c/strong\u003e by adding sterile distilled water, saline or broth, if the turbidity is too high, or by adding more bacterial material if is too low.\u003cbr\u003e\u003cbr\u003eGo back to step 3.\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":3,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T10:13:32.396Z","updated_at":"2019-02-07T10:31:41.571Z","last_modified_by_id":202,"protocol_id":3450},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]}]}],"results":[]},{"my_module":{"id":2126,"name":"Growth 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samples for cell count","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003eTake samples for cell count and follow protocol in \u003cspan class=\"atwho-inserted\" contenteditable=\"false\" data-atwho-at-query=\"#cou\"\u003e[#Cell count~tsk~YL]\u003c/span\u003e.\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":5,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-12-17T14:33:52.646Z","updated_at":"2018-12-17T14:33:52.646Z","last_modified_by_id":202,"protocol_id":3452},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]},{"step":{"id":4360,"name":"Adjustment of suspension turbidity","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003eAdjust the suspension’s turbidity to that of a McFarland Standard\u003cstrong\u003e 0.5\u003c/strong\u003e by adding sterile distilled water, saline or broth, if the turbidity is too high, or by adding more bacterial material if is too low.\u003cbr\u003e\u003cbr\u003eGo back to \u003cstrong\u003estep 4\u003c/strong\u003e.\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":4,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T10:25:56.635Z","updated_at":"2019-02-19T14:44:57.268Z","last_modified_by_id":202,"protocol_id":3452},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]},{"step":{"id":4362,"name":"Isolate preparation","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003eFollow steps bellow for isolate preparation.\u003c/p\u003e\u003c/body\u003e\u003c/html\u003e","position":1,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T10:25:56.680Z","updated_at":"2018-12-24T09:01:33.668Z","last_modified_by_id":202,"protocol_id":3452},"checklists":[{"checklist":{"id":964,"name":"Guidelines:","step_id":4362,"created_at":"2018-12-21T11:14:19.776Z","updated_at":"2018-12-21T11:14:19.776Z","created_by_id":null,"last_modified_by_id":null},"checklist_items":[{"id":3965,"text":"For each isolate, select three to five morphologically similar colonies from the fresh agar plate from task .","checked":false,"checklist_id":964,"created_at":"2018-12-21T11:14:19.778Z","updated_at":"2018-12-21T11:14:19.778Z","created_by_id":null,"last_modified_by_id":null,"position":0},{"id":3966,"text":"Plate 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mixer.","checked":false,"checklist_id":964,"created_at":"2018-12-21T11:14:19.805Z","updated_at":"2018-12-21T11:14:19.805Z","created_by_id":null,"last_modified_by_id":null,"position":4}]}],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]},{"step":{"id":4363,"name":"Pure cultures of bacterial isolates","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\u003cp\u003eFollowing guidelines below will get you to obtain bacterial 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nutrient-rich agar plates without inhibitor to obtain single colonies","checked":false,"checklist_id":963,"created_at":"2018-12-21T11:12:20.838Z","updated_at":"2018-12-21T11:12:20.838Z","created_by_id":null,"last_modified_by_id":null,"position":2}]}],"step_comments":[],"step_assets":[{"id":3087,"step_id":4363,"asset_id":3749}],"assets":[{"id":3749,"created_at":"2019-02-20T07:37:48.184Z","updated_at":"2019-02-20T07:38:26.671Z","file_file_name":"Plate_Streaking.jpg","file_content_type":"image/jpeg","file_file_size":44335,"file_updated_at":"2019-02-20T07:38:26.301Z","created_by_id":202,"last_modified_by_id":null,"estimated_size":48768,"file_present":true,"lock":null,"lock_ttl":null,"version":1,"file_processing":false,"team_id":1}],"step_tables":[],"tables":[]},{"step":{"id":4364,"name":"Incubate the broth","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\n\u003cp\u003e\u003cstrong\u003eIncubation conditions:\u003c/strong\u003e\u003c/p\u003e\n\u003cul\u003e\n\u003cli\u003e35–37°C\u003c/li\u003e\n\u003cli\u003eShaker set at 225 r.p.m. until it reaches turbidity that is equal to or greater than the turbidity of a McFarland Standard 0.5.\u003c/li\u003e\n\u003c/ul\u003e\n\u003cbr\u003eCulture growth will require 2–6 h depending on the growth rate of the bacteria to be tested. This pause period can be used to prepare the antibiotic or peptide dilutions.\u003c/body\u003e\u003c/html\u003e","position":2,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T10:35:37.405Z","updated_at":"2019-02-19T14:43:59.634Z","last_modified_by_id":202,"protocol_id":3452},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]},{"step":{"id":4361,"name":"Assessment of turbidity","description":"\u003c!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.0 Transitional//EN\" \"http://www.w3.org/TR/REC-html40/loose.dtd\"\u003e\n\u003chtml\u003e\u003cbody\u003e\n\u003cstrong\u003eTurbidity can be assessed visually by comparing the test and the McFarland Standard.\u003c/strong\u003e \u003cbr\u003e\u003cbr\u003eMix the McFarland \u003cstrong\u003e0.5 BaSO\u003csub\u003e4\u003c/sub\u003e\u003c/strong\u003e standard vigorously using a vortex mixer. The turbidity is verified measuring the absorbance of the suspension spectrophotometrically. The absorbance should be in the same range as that of the McFarland standard \u003cstrong\u003e0.5\u003c/strong\u003e (\u003cstrong\u003eOD625 nm\u003c/strong\u003e should be at \u003cstrong\u003e0.08–0.13\u003c/strong\u003e).\u003c/body\u003e\u003c/html\u003e","position":3,"completed":false,"completed_on":null,"user_id":202,"created_at":"2018-11-09T10:25:56.657Z","updated_at":"2019-02-19T14:44:41.586Z","last_modified_by_id":202,"protocol_id":3452},"checklists":[],"step_comments":[],"step_assets":[],"assets":[],"step_tables":[],"tables":[]}]}],"results":[]}],"my_module_groups":[{"id":1185,"created_at":"2018-12-19T13:28:00.792Z","updated_at":"2018-12-19T13:28:00.792Z","created_by_id":3,"experiment_id":430}]}