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Pathogen: clinical or host-associated sample from Escherichia coli

Identifiers: BioSample: SAMN30466960; Sample name: USDA-ARS-USMARC-51688

Organism: Escherichia coli
cellular organisms; Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia

Package: Pathogen: clinical or host-associated; version 1.0

Attributes

strain	USDA-ARS-USMARC-51688
isolate	not applicable
collected by	missing
collection date	2013-10-04
geographic location	USA:Kansas
host	Bos taurus
host disease	missing
isolation source	feedlot
latitude and longitude	missing
host age	5-7 months
host description	calf
host health state	alive
host subject id	250
host tissue sampled	rectoanal junction mucosa
number of replicons	2
host taxonomy ID	9913 (9913)
sample collection device or method	swab
sample material processing	Rectoanal junction mucosal swab samples were collected using foam tipped swabs as described in PMID: 27052855. Swab samples were spiral plated (50ul per plate) onto MacConkey Agar containing either azithromycin (16mg/L) or cefotaxime (8mg/L). Colonies demonstrating azithromycin or cefotaxime resistance were selected for further analysis.

Description: alternate sampled site label is anorectal junction (http://purl.bioontology.org/ontology/SNOMEDCT/57444000) mucosa

BioProject: PRJNA281531
Retrieve all samples from this project

Submission: USDA-ARS-USMARC, Gregory Harhay; 2022-08-23

Antibiogram
Antibiotic	Resistance phenotype	Measurement sign	Measurement	Measurement units	Laboratory typing method	Laboratory typing platform	Vendor	Laboratory typing method version or reagent	Testing standard
amoxicillin-clavulanic acid	resistant	>=	32/16	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
ampicillin	resistant	>=	32	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
azithromycin	resistant	>=	16	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
cefoxitin	resistant	>=	32	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
ceftiofur	resistant	>=	8	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
ceftriaxone	resistant	>=	64	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
chloramphenicol	resistant	>=	32	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
ciprofloxacin	susceptible	==	0.06	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
gentamicin	susceptible	==	1	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
nalidixic acid	susceptible	==	4	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
streptomycin	resistant	>=	64	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
sulfisoxazole	resistant	>=	256	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
tetracycline	resistant	>=	32	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI
trimethoprim-sulfamethoxazole	susceptible	==	0.5/9.5	mg/L	MIC	Sensititre	TREK Diagnostic Systems	CMV3AGNF	CLSI

Accession:: SAMN30466960
ID:: 30466960

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