Novel Organism Verification and Analysis (NOVA) study: identification of 35 clinical isolates representing potentially novel bacterial taxa using a pipeline based on whole genome sequencing

Muigg, Veronika; Seth-Smith, Helena M.B.; Adam, Kai-Manuel; Weisser, Maja; Hinić, Vladimira; Blaich, Annette; Roloff, Tim; Heininger, Ulrich; Schmid, Hanna; Kohler, Maurus; Graf, Lukas; Winterflood, Dylan M.; Schlaepfer, Pascal; Goldenberger, Daniel

doi:10.1186/s12866-023-03163-7

Table 2 List of 26 clinical isolates which were identified by using WGS and corresponding clinical data

From: Novel Organism Verification and Analysis (NOVA) study: identification of 35 clinical isolates representing potentially novel bacterial taxa using a pipeline based on whole genome sequencing

ID Number	Species / Reference	Genbank Accession No. (BioSample): SAMEA	Origin of specimen	Clinical data
ID Number	Species / Reference	Genbank Accession No. (BioSample): SAMEA	Origin of specimen	Age(y)/sex	Clinical presentation	Relevant underlying disease	Clinical relevance
USB_NOVA_36	Gulosibacter hominis	See ref (13)	Swab external auditory canal	77/m	Otitis media and tympanic drainage	None	Unclear
USB_NOVA_37	Gulosibacter hominis	See ref (13)	Swab external auditory canal	53/m	Acute otitis media	None	Unclear
USB_NOVA_38	Gulosibacter hominis	See ref (13)	Swab external auditory canal	90/m	Chronic otitis media, tympanic membrane perforation	Squamous cell carcinoma of the concha auris, leukemia	Unclear
USB_NOVA_39	Gulosibacter hominis	111,563,062	Biopsy foot	80/f	Implant associated infection due to Staphylococcus epidermidis and Enterococcus faecalis	None	Not relevant
USB_NOVA_40	Corynebacterium pseudogenitalium	111,563,053	Biopsy placenta fetal site	27/f	Premature vaginal birth	None	Not relevant
USB_NOVA_41	Corynebacterium pseudogenitalium	111,563,055	Urine	60/f	Asymptomatic bacteriuria	Nephrostoma	Not relevant
USB_NOVA_42	“Kingella pumchi”	111,563,068	Swab finger nail	14/m	Paronychia	None	Relevant
USB_NOVA_43	Fenollaria massiliensis	111,563,061	Biopsy bone symphysis	52/m	Possible SSI with fistula of the symphysis pubis	Open-book-fracture of the pelvis four months before	Unclear
USB_NOVA_44	Mogibacterium kristiansenii	111,563,066	Biopsy scrotum	76/m	Fournier gangrene, sepsis due to colo-scrotal fistula	Radiotherapy and resection of the rectum	Relevant
USB_NOVA_45	Anaerococcus degeneri	111,563,037	Biopsy abscess plantar	90/m	Wet gangrene with osteomyelitis calcaneus	Chronic ulcera	Relevant
USB_NOVA_46	Slackia exigua	111,563,090	Biopsy abscess plantar	90/m	Wet gangrene with osteomyelitis calcaneus	Chronic ulcera	Relevant
USB_NOVA_47	Corynebacterium hindlerae	111,563,054	Biopsy bone heel	64/m	Chronic ulcer	None	Not relevant
USB_NOVA_48	Devosia equisanguinis	111,563,059	Blood culture	35/m	Septic thrombophlebitis	IVDU	Relevant
USB_NOVA_49	Pseudoclavibacter triregionum	See ref (14)	Blood culture	7/f	Bacteraemia and fever	Pelvic osteotomy, cerebral palsy,	Unclear
USB_NOVA_50	Pseudomonas yangonensis	111,563,079	Swab lower leg	54/f	Wound healing disorder after compartment syndrome	Hemorrhagic diatheses, liver cirrhosis	Not relevant
USB_NOVA_51	Cutibacterium modestum	See ref (15)	Sonificated fluid prosthetic hip	N.a.	N.a.	N.a.	N.a.
USB_NOVA_52	Pseudoramibacter alactolyticus	111,563,080	Blood culture	86/m	SARS-CoV-2 infection	None	Not relevant
USB_NOVA_53	Enterococcus dongliensis	111,563,060	Aspirate bile	70/f	Cholangitis	Cholangiocellular carcinoma	Relevant
USB_NOVA_54	Prevotella brunnea	111,563,076	Biopsy abdomen	N.a.	N.a.	N.a.	N.a.
USB_NOVA_55	Parvimonas parva	111,563,072	Biopsy tibia	15/m	Osteomyelitis and chronic cutaneous fistula	Osteosarcoma tibia	Relevant
USB_NOVA_56	Kingella negevensis	111,563,064	Swab vaginal	N.a.	N.a.	N.a.	N.a.
USB_NOVA_57	“Corynebacterium provencense”	111,563,046	Urine	87/m	Asymptomatic bacteriuria	Urolithiasis and uretral stent	Not relevant
USB_NOVA_58	Vandammella animalimorsus	111,563,044	Biopsy thumb	38/f	Septic arthritis and tenosynovitis after dog bite	None	Relevant
USB_NOVA_59	Saezia sanguinis	111,563,084	Swab rectal	N.a.	ESBL-screening	None	N.a.
USB_NOVA_60	“Corynebacterium phoceense“	111,563,045	Biopsy back	94/m	Postoperative hematoma/seroma after spine surgery	None	Not relevant
USB_NOVA_61	Pantoea agglomerans	111,563,070	Swab forehead	N.a.	N.a.	N.a.	N.a.

Abbreviations. ID, identification; y, year; f, female; m, male; SSI, surgical site infection; IVDU, intravenous drug use; N.a. not applicable; ESBL, extended spectrum beta-lactamases

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