Archive BacDiveID:10.13145/bacdive2612.20230509.8.1

Strain identifier

BacDive ID: 2612

Type strain:

Species: Clostridium leptum

Strain history: <- W. E. C. Moore, Virginia Polytechnical Institute and State University, Blacksburg, V., USA; VPI T7-24-1

NCBI tax ID(s): 428125 (strain), 1535 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 425

BacDive-ID: 2612

DSM-Number: 753

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive

description: Clostridium leptum DSM 753 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from human faeces.

NCBI tax id

NCBI tax id	Matching level
428125	strain
1535	species

strain history

@ref: 425
history: <- W. E. C. Moore, Virginia Polytechnical Institute and State University, Blacksburg, V., USA; VPI T7-24-1

doi: 10.13145/bacdive2612.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/bacillota
domain: Bacteria
phylum: Bacillota
class: Clostridia
order: Eubacteriales
family: Clostridiaceae
genus: Clostridium
species: Clostridium leptum
full scientific name: Clostridium leptum Moore et al. 1976 (Approved Lists 1980)

@ref: 425

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Clostridium

species: Clostridium leptum

full scientific name: Clostridium leptum Moore et al. 1976

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: positive
confidence: 100

Culture and growth conditions

culture medium

@ref: 425
name: PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c)
growth: yes
link: https://mediadive.dsmz.de/medium/104c
composition: Name: PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c; with strain-specific modifications) Composition: D-Maltose 10.0 g/l Yeast extract 10.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l Na2CO3 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water

culture temp

@ref: 425
growth: positive
type: growth
temperature: 37
range: mesophilic

Physiology and metabolism

oxygen tolerance

@ref	oxygen tolerance	confidence
425	anaerobe
69480	anaerobe	99.999

spore formation

@ref: 69480
spore formation: no
confidence: 98.805

Isolation, sampling and environmental information

isolation

@ref: 425
sample type: human faeces

isolation source categories

Cat1	Cat2	Cat3
#Host	#Human
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

taxonmaps

@ref: 69479
File name: preview.99_5381.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_229;96_2609;97_3194;98_4011;99_5381&stattab=map
Last taxonomy: [Clostridium] leptum subclade
16S sequence: AJ305238
Sequence Identity:
Total samples: 73533
soil counts: 330
aquatic counts: 1257
animal counts: 71745
plant counts: 201

Safety information

risk assessment

@ref: 425
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref	description	accession	length	database	NCBI tax ID
20218	Clostridium leptum 16S ribosomal RNA	M59095	1465	ena	1535
20218	Clostridium limosum 16S ribosomal RNA	M59096	1458	ena	1536
425	Clostridium leptum 16S rRNA gene, strain DSM 753T	AJ305238	1505	ena	428125

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	[Clostridium] leptum DSM 753	GCA_000154345	scaffold	ncbi	428125
66792	[Clostridium] leptum DSM 753	GCA_002556665	contig	ncbi	428125
66792	[Clostridium] leptum DSM 753	428125.17	wgs	patric	428125
66792	Clostridium leptum DSM 753	428125.8	wgs	patric	428125
66792	Clostridium leptum DSM 753	641380427	draft	img	428125
66792	Clostridium leptum DSM 753	2835065648	draft	img	428125

GC content

@ref: 425
GC-content: 51

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	yes	83	no
motile	no	92.988	no
flagellated	no	98.225	no
gram-positive	yes	90.928	no
anaerobic	yes	99.541	yes
aerobic	no	98.282	no
halophile	no	92.182	no
spore-forming	no	62.726	no
thermophile	no	80.426	no
glucose-util	yes	89.736	no
glucose-ferment	yes	65.646	no

External links

@ref: 425

culture collection no.: DSM 753, ATCC 29065, VPI T7-24-1

straininfo link

@ref: 72143
straininfo: 39340

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	26474980	Caproiciproducens galactitolivorans gen. nov., sp. nov., a bacterium capable of producing caproic acid from galactitol, isolated from a wastewater treatment plant.	Kim BC, Seung Jeon B, Kim S, Kim H, Um Y, Sang BI	Int J Syst Evol Microbiol	10.1099/ijsem.0.000665	2015	Bacterial Typing Techniques, Base Composition, Caproates/metabolism, Clostridiales/classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Galactitol/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Waste Water/*microbiology	Metabolism
Pathogenicity	27018325	Effect of oligosaccharides on the adhesion of gut bacteria to human HT-29 cells.	Altamimi M, Abdelhay O, Rastall RA	Anaerobe	10.1016/j.anaerobe.2016.03.010	2016	Bacterial Adhesion/drug effects, Bacteroides/drug effects/physiology, Bacteroides fragilis/drug effects/physiology, Bifidobacterium/drug effects/physiology, Clostridium/drug effects/physiology, Faecalibacterium/drug effects/physiology, Gastrointestinal Microbiome/drug effects, HT29 Cells, Humans, Lactobacillus casei/drug effects/physiology, Mucins/metabolism, Oligosaccharides/pharmacology, Prebiotics/analysis, Species Specificity	Phylogeny
Phylogeny	32584751	Caproicibacter fermentans gen. nov., sp. nov., a new caproate-producing bacterium and emended description of the genus Caproiciproducens.	Flaiz M, Baur T, Brahner S, Poehlein A, Daniel R, Bengelsdorf FR	Int J Syst Evol Microbiol	10.1099/ijsem.0.004283	2020	Bacteria, Anaerobic/classification, Bacterial Typing Techniques, Base Composition, Bioreactors/microbiology, Caproates/metabolism, Clostridiales/classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA	Transcriptome

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
425	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 753)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-753
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.		10.1016/j.syapm.2013.11.002	StrainInfo introduces electronic passports for microorganisms.	Syst Appl Microbiol. 37: 42-50 2014	24321274
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
69480	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
72143	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID39340.1	StrainInfo: A central database for resolving microbial strain identifiers