Name: Clostridium nexile DSM 1787
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2619

Type strain:

Species: Clostridium nexile

Culture col. no.: DSM 1787, ATCC 27757, JCM 31500, VPI C48-37, BCRC 14523, VTT E-021854

Strain history: DSM 1787 <-- E. P. Cato <-- L. V. Holdeman and W. E. C. Moore; VPI C48-37.

NCBI tax ID(s): 500632 (strain), 29361 (species)

SI-ID 39160

ATCC 27757, DSM 1787, BCRC 14523, CCRC 14523, VTT E-021854, LMG 28906

Section

Clostridium nexile DSM 1787 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from human faeces.

Gram-positive
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Clostridiaceae*
	Genus	*Clostridium*
	Species	**Clostridium nexile**
	Full Scientific Name (LPSN)	Clostridium nexile Holdeman and Moore 1974 (Approved Lists 1980)

Synonym

"Tyzzerella nexilis"

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

Information on culture and growth conditions Culture and growth conditions

[Ref.: #654]

Culture medium

CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)

[Ref.: #654]

Culture medium growth

[Ref.: #654]

Culture medium link

Medium recipe at MediaDive

[Ref.: #654]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #654]			growth	37 °C
[Ref.: #67770]			growth	37 °C

[Ref.: #654]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #654]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.486

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.61

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #654]	Sample type/isolated from	human faeces

[Ref.: #67770]	Sample type/isolated from	Human feces
* marker position based on {}

Isolation sources categories

#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #654]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #654]	Clostridium nexile 16S rRNA gene, strain DSM 1787	X73443	1524	ENA	500632 tax ID
[Ref.: #67770]	Tyzzerella nexilis JCM 31500 gene for 16S rRNA, partial sequence	LC519856	1471	ENA	29361 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	[Clostridium] nexile DSM 1787	GCA_000156035	scaffold	GenBank	500632 tax ID
[Ref.: #66792]	Clostridium nexile DSM 1787	500632.7	wgs	PATRIC	500632 tax ID	*
[Ref.: #66792]	Tyzzerella nexilis DSM 1787	642979369	draft	JGI IMG/M	500632 tax ID	*

[Ref.: #654]	GC-content	40.1 mol%	sequence analysis
[Ref.: #67770]	GC-content	40 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	44.4 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Clostridium nexile DSM 1787 PATRIC: 500632.7
[Ref.: #69481]	spore-forming	yes	67	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Clostridium nexile DSM 1787 PATRIC: 500632.7
[Ref.: #69480]	gram-positive	yes	95.549	no
[Ref.: #69480]	anaerobic	yes	99.721	yes
[Ref.: #69480]	halophile	no	82.055	no
[Ref.: #69480]	spore-forming	no	71.185	no
[Ref.: #69480]	glucose-util	yes	88.221	no
[Ref.: #69480]	aerobic	no	98.738	yes
[Ref.: #69480]	thermophile	no	98.146	yes
[Ref.: #69480]	motile	no	89.799	no
[Ref.: #69480]	flagellated	no	92.445	no
[Ref.: #69480]	glucose-ferment	yes	78.481	no

Availability in culture collections External links

[Ref.: #654]

Culture collection no.

DSM 1787, ATCC 27757, JCM 31500, VPI C48-37, BCRC 14523, VTT E-021854

[Ref.: #72150]

SI-ID 39160

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Blautia faecicola sp. nov., isolated from faeces from a healthy human.	Kim JS, Park JE, Lee KC, Choi SH, Oh BS, Yu SY, Eom MK, Kang SW, Han KI, Suh MK, Lee DH, Yoon H, Kim BY, Yang SJ, Lee JH, Lee JS, Park SH	Int J Syst Evol Microbiol	10.1099/ijsem.0.004015	2020	*
Phylogeny	Glucerabacter canisensis gen. nov., sp. nov., isolated from dog feces and its effect on the hydrolysis of plant glucosylceramide in the intestine of dogs.	Kawata M, Tsukamoto A, Isozaki R, Nobukawa S, Kawahara N, Akutsu S, Suzuki M, Asanuma N	Arch Microbiol	10.1007/s00203-017-1463-1	2017	*
Phylogeny	Faecalimonas umbilicata gen. nov., sp. nov., isolated from human faeces, and reclassification of Eubacterium contortum, Eubacterium fissicatena and Clostridium oroticum as Faecalicatena contorta gen. nov., comb. nov., Faecalicatena fissicatena comb. nov. and Faecalicatena orotica comb. nov.	Sakamoto M, Iino T, Ohkuma M	Int J Syst Evol Microbiol	10.1099/ijsem.0.001790	2017	*
Phylogeny	Sellimonas intestinalis gen. nov., sp. nov., isolated from human faeces.	Seo B, Yoo JE, Lee YM, Ko G	Int J Syst Evol Microbiol	10.1099/ijsem.0.000817	2015	*

References

#654	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1787

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#72150

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID39160.1 )

* These data were automatically processed and therefore are not curated

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