Botswana AMR Implementation Guide
0.1.0 - 0.1.0
Botswana AMR Implementation Guide - Local Development build (v0.1.0) built by the FHIR (HL7® FHIR® Standard) Build Tools. See the Directory of published versions
| Draft as of 2026-03-13 |
{
"resourceType" : "CodeSystem",
"id" : "botswana-amr-local-organism-cs",
"text" : {
"status" : "generated",
"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><p class=\"res-header-id\"><b>Generated Narrative: CodeSystem botswana-amr-local-organism-cs</b></p><a name=\"botswana-amr-local-organism-cs\"> </a><a name=\"hcbotswana-amr-local-organism-cs\"> </a><p>This code system <code>http://bw.health.gov/fhir/amr/CodeSystem/botswana-amr-local-organism-cs</code> defines the following codes:</p><table class=\"codes\"><tr><td style=\"white-space:nowrap\"><b>Code</b></td><td><b>Display</b></td></tr><tr><td style=\"white-space:nowrap\">acinetobacter-baumannii-complex<a name=\"botswana-amr-local-organism-cs-acinetobacter-baumannii-complex\"> </a></td><td>Acinetobacter baumannii complex</td></tr><tr><td style=\"white-space:nowrap\">aeromonas-hydrophila-punctata<a name=\"botswana-amr-local-organism-cs-aeromonas-hydrophila-punctata\"> </a></td><td>Aeromonas hydrophila/punctata</td></tr><tr><td style=\"white-space:nowrap\">alcaligenes-faecalis-subsp-faecalis<a name=\"botswana-amr-local-organism-cs-alcaligenes-faecalis-subsp-faecalis\"> </a></td><td>Alcaligenes faecalis subsp. faecalis</td></tr><tr><td style=\"white-space:nowrap\">brevundimonas-diminuta-vesicularis<a name=\"botswana-amr-local-organism-cs-brevundimonas-diminuta-vesicularis\"> </a></td><td>Brevundimonas diminuta/Brevundimonas vesicularis</td></tr><tr><td style=\"white-space:nowrap\">burkholderia-cepacia-group<a name=\"botswana-amr-local-organism-cs-burkholderia-cepacia-group\"> </a></td><td>Burkholderia cepacia group</td></tr><tr><td style=\"white-space:nowrap\">cedecia-lapagei<a name=\"botswana-amr-local-organism-cs-cedecia-lapagei\"> </a></td><td>Cedecia lapagei</td></tr><tr><td style=\"white-space:nowrap\">cronobacter-sakazakii-group<a name=\"botswana-amr-local-organism-cs-cronobacter-sakazakii-group\"> </a></td><td>Cronobacter sakazakii group</td></tr><tr><td style=\"white-space:nowrap\">dermacoccus-nishinomiyaensis-kytococcus-sedentarius<a name=\"botswana-amr-local-organism-cs-dermacoccus-nishinomiyaensis-kytococcus-sedentarius\"> </a></td><td>Dermacoccus nishinomiyaensis/Kytococcus sedentarius</td></tr><tr><td style=\"white-space:nowrap\">enterococcus-spp<a name=\"botswana-amr-local-organism-cs-enterococcus-spp\"> </a></td><td>Enterococcus spp.</td></tr><tr><td style=\"white-space:nowrap\">klebsiella-pneumoniae-subsp-pneumoniae<a name=\"botswana-amr-local-organism-cs-klebsiella-pneumoniae-subsp-pneumoniae\"> </a></td><td>Klebsiella pneumoniae subsp. pneumoniae</td></tr><tr><td style=\"white-space:nowrap\">klebsiella-spp<a name=\"botswana-amr-local-organism-cs-klebsiella-spp\"> </a></td><td>Klebsiella spp.</td></tr><tr><td style=\"white-space:nowrap\">leuconostoc-mesenteroides-subsp-cremoris<a name=\"botswana-amr-local-organism-cs-leuconostoc-mesenteroides-subsp-cremoris\"> </a></td><td>Leuconostoc mesenteroides subsp. cremoris</td></tr><tr><td style=\"white-space:nowrap\">leuconostoc-mesenteroides-subsp-dextranicum<a name=\"botswana-amr-local-organism-cs-leuconostoc-mesenteroides-subsp-dextranicum\"> </a></td><td>Leuconostoc mesenteroides subsp. dextranicum</td></tr><tr><td style=\"white-space:nowrap\">methylobacterium-spp<a name=\"botswana-amr-local-organism-cs-methylobacterium-spp\"> </a></td><td>Methylobacterium spp.</td></tr><tr><td style=\"white-space:nowrap\">moraxella-group<a name=\"botswana-amr-local-organism-cs-moraxella-group\"> </a></td><td>Moraxella group</td></tr><tr><td style=\"white-space:nowrap\">morganella-morganii-subsp-morganii<a name=\"botswana-amr-local-organism-cs-morganella-morganii-subsp-morganii\"> </a></td><td>Morganella morganii subsp. morganii</td></tr><tr><td style=\"white-space:nowrap\">morganella-morganii-subsp-sibonii<a name=\"botswana-amr-local-organism-cs-morganella-morganii-subsp-sibonii\"> </a></td><td>Morganella morganii subsp. sibonii</td></tr><tr><td style=\"white-space:nowrap\">myroides-spp<a name=\"botswana-amr-local-organism-cs-myroides-spp\"> </a></td><td>Myroides spp.</td></tr><tr><td style=\"white-space:nowrap\">neisseria-animaloris-zoodegmatis<a name=\"botswana-amr-local-organism-cs-neisseria-animaloris-zoodegmatis\"> </a></td><td>Neisseria animaloris/Neisseria zoodegmatis</td></tr><tr><td style=\"white-space:nowrap\">pandoraea-spp<a name=\"botswana-amr-local-organism-cs-pandoraea-spp\"> </a></td><td>Pandoraea spp.</td></tr><tr><td style=\"white-space:nowrap\">pantoea-spp<a name=\"botswana-amr-local-organism-cs-pantoea-spp\"> </a></td><td>Pantoea spp.</td></tr><tr><td style=\"white-space:nowrap\">pseudomonas-spp<a name=\"botswana-amr-local-organism-cs-pseudomonas-spp\"> </a></td><td>Pseudomonas spp.</td></tr><tr><td style=\"white-space:nowrap\">salmonella-group<a name=\"botswana-amr-local-organism-cs-salmonella-group\"> </a></td><td>Salmonella group</td></tr><tr><td style=\"white-space:nowrap\">serratia-liquefaciens-group<a name=\"botswana-amr-local-organism-cs-serratia-liquefaciens-group\"> </a></td><td>Serratia liquefaciens group</td></tr><tr><td style=\"white-space:nowrap\">shigella-group<a name=\"botswana-amr-local-organism-cs-shigella-group\"> </a></td><td>Shigella group</td></tr><tr><td style=\"white-space:nowrap\">staphylococcus-cohnii-subsp-cohnii<a name=\"botswana-amr-local-organism-cs-staphylococcus-cohnii-subsp-cohnii\"> </a></td><td>Staphylococcus cohnii subsp. cohnii</td></tr><tr><td style=\"white-space:nowrap\">staphylococcus-hominis-subsp-hominis<a name=\"botswana-amr-local-organism-cs-staphylococcus-hominis-subsp-hominis\"> </a></td><td>Staphylococcus hominis subsp. hominis</td></tr><tr><td style=\"white-space:nowrap\">streptococcus-constellatus-subsp-pharyngis<a name=\"botswana-amr-local-organism-cs-streptococcus-constellatus-subsp-pharyngis\"> </a></td><td>Streptococcus constellatus subsp. pharyngis</td></tr><tr><td style=\"white-space:nowrap\">streptococcus-infantarius-subsp-coli<a name=\"botswana-amr-local-organism-cs-streptococcus-infantarius-subsp-coli\"> </a></td><td>Streptococcus infantarius subsp. coli</td></tr><tr><td style=\"white-space:nowrap\">streptococcus-mitis-oralis<a name=\"botswana-amr-local-organism-cs-streptococcus-mitis-oralis\"> </a></td><td>Streptococcus mitis/Streptococcus oralis</td></tr><tr><td style=\"white-space:nowrap\">vagococcus-fluviali<a name=\"botswana-amr-local-organism-cs-vagococcus-fluviali\"> </a></td><td>Vagococcus fluviali</td></tr><tr><td style=\"white-space:nowrap\">yersinia-enterocolitica-frederiksenii<a name=\"botswana-amr-local-organism-cs-yersinia-enterocolitica-frederiksenii\"> </a></td><td>Yersinia enterocolitica/Yersinia frederiksenii</td></tr></table></div>"
},
"url" : "http://bw.health.gov/fhir/amr/CodeSystem/botswana-amr-local-organism-cs",
"version" : "0.1.0",
"name" : "BotswanaAMRLocalOrganismCS",
"title" : "Botswana AMR Local Organism Codes",
"status" : "draft",
"date" : "2026-03-13T21:27:21-04:00",
"publisher" : "University of Botswana Partnership",
"contact" : [
{
"name" : "University of Botswana Partnership",
"telecom" : [
{
"system" : "url",
"value" : "https://github.com/Dokotela/bw-amr-ig"
}
]
}
],
"description" : "Local codes for organism combinations and complex designations used in Botswana AMR surveillance",
"content" : "complete",
"count" : 32,
"concept" : [
{
"code" : "acinetobacter-baumannii-complex",
"display" : "Acinetobacter baumannii complex"
},
{
"code" : "aeromonas-hydrophila-punctata",
"display" : "Aeromonas hydrophila/punctata"
},
{
"code" : "alcaligenes-faecalis-subsp-faecalis",
"display" : "Alcaligenes faecalis subsp. faecalis"
},
{
"code" : "brevundimonas-diminuta-vesicularis",
"display" : "Brevundimonas diminuta/Brevundimonas vesicularis"
},
{
"code" : "burkholderia-cepacia-group",
"display" : "Burkholderia cepacia group"
},
{
"code" : "cedecia-lapagei",
"display" : "Cedecia lapagei"
},
{
"code" : "cronobacter-sakazakii-group",
"display" : "Cronobacter sakazakii group"
},
{
"code" : "dermacoccus-nishinomiyaensis-kytococcus-sedentarius",
"display" : "Dermacoccus nishinomiyaensis/Kytococcus sedentarius"
},
{
"code" : "enterococcus-spp",
"display" : "Enterococcus spp."
},
{
"code" : "klebsiella-pneumoniae-subsp-pneumoniae",
"display" : "Klebsiella pneumoniae subsp. pneumoniae"
},
{
"code" : "klebsiella-spp",
"display" : "Klebsiella spp."
},
{
"code" : "leuconostoc-mesenteroides-subsp-cremoris",
"display" : "Leuconostoc mesenteroides subsp. cremoris"
},
{
"code" : "leuconostoc-mesenteroides-subsp-dextranicum",
"display" : "Leuconostoc mesenteroides subsp. dextranicum"
},
{
"code" : "methylobacterium-spp",
"display" : "Methylobacterium spp."
},
{
"code" : "moraxella-group",
"display" : "Moraxella group"
},
{
"code" : "morganella-morganii-subsp-morganii",
"display" : "Morganella morganii subsp. morganii"
},
{
"code" : "morganella-morganii-subsp-sibonii",
"display" : "Morganella morganii subsp. sibonii"
},
{
"code" : "myroides-spp",
"display" : "Myroides spp."
},
{
"code" : "neisseria-animaloris-zoodegmatis",
"display" : "Neisseria animaloris/Neisseria zoodegmatis"
},
{
"code" : "pandoraea-spp",
"display" : "Pandoraea spp."
},
{
"code" : "pantoea-spp",
"display" : "Pantoea spp."
},
{
"code" : "pseudomonas-spp",
"display" : "Pseudomonas spp."
},
{
"code" : "salmonella-group",
"display" : "Salmonella group"
},
{
"code" : "serratia-liquefaciens-group",
"display" : "Serratia liquefaciens group"
},
{
"code" : "shigella-group",
"display" : "Shigella group"
},
{
"code" : "staphylococcus-cohnii-subsp-cohnii",
"display" : "Staphylococcus cohnii subsp. cohnii"
},
{
"code" : "staphylococcus-hominis-subsp-hominis",
"display" : "Staphylococcus hominis subsp. hominis"
},
{
"code" : "streptococcus-constellatus-subsp-pharyngis",
"display" : "Streptococcus constellatus subsp. pharyngis"
},
{
"code" : "streptococcus-infantarius-subsp-coli",
"display" : "Streptococcus infantarius subsp. coli"
},
{
"code" : "streptococcus-mitis-oralis",
"display" : "Streptococcus mitis/Streptococcus oralis"
},
{
"code" : "vagococcus-fluviali",
"display" : "Vagococcus fluviali"
},
{
"code" : "yersinia-enterocolitica-frederiksenii",
"display" : "Yersinia enterocolitica/Yersinia frederiksenii"
}
]
}