Name: Clostridium sp. HV4-5-A1G
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 158916

Type strain:

Species: Clostridium sp.

Strain Designation: HV4-5-A1G

Culture col. no.: DSM 104276

Strain history: <- S. Hahnke; HV4-5-A1G (Clostridium luticellarii) <- T. Langer

NCBI tax ID(s): 1506 (species)

SI-ID 406798

DSM 104276

Special Collections

DSMZ

Other strains from Clostridium sp.

Section

When using BacDive for research please cite our paper

Clostridium sp. HV4-5-A1G is a mesophilic bacterium that was isolated from Process fluid from a laboratory-scale fermenter treating grass cutting.

mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Clostridiaceae*
	Genus	*Clostridium*
	Full Scientific Name (LPSN)	Clostridium Prazmowski 1880 (Approved Lists 1980)

	Synonym	Anaerobacter
	Synonym	"Inflabilis"
	Synonym	"Tyzzerella"
	Synonym	"Pseudoclostridium"
	Synonym	"Lachnoclostridium"

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65738]

Culture medium

CMC MEDIUM (N2/CO2) (DSMZ Medium 110a)

[Ref.: #65738]

Culture medium growth

[Ref.: #65738]

Culture medium link

Medium recipe at MediaDive

[Ref.: #65738]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #65738]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125438]	Oxygen tolerance	anaerobe Confidence in %94.309
[Ref.: #125439]	Oxygen tolerance	anaerobe Confidence in %99.6

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

[Ref.: #65738]	Sample type/isolated from	Process fluid from a laboratory-scale fermenter treating grass cutting
[Ref.: #65738]	Geographic location (country and/or sea, region)	Jena
[Ref.: #65738]	Country	Germany
[Ref.: #65738]	Country ISO 3 Code	DEU
[Ref.: #65738]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Engineered	#Laboratory	#Lab enrichment
#Engineered	#Bioreactor	-

What are isolation sources categories?

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.: #65738]	Clostridium sp. HV4-5-A1G, whole genome shotgun sequencing project	VXJK00000000	287	GenBank ENA	2004595 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Clostridium sp. HV4-5-A1G	GCA_008692765	contig	GenBank ENA	2004595 tax ID	*
[Ref.: #66792]	Clostridium sp. HV4-5-A1G HV4-6-A5C	GCA_900184915	contig	GenBank ENA	2004595 tax ID	*
[Ref.: #66792]	Clostridium sp. HV4-5-A1G	2004595.3	wgs	PATRIC	2004595 tax ID	*

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Clostridium sp. HV4-5-A1G PATRIC: 2004595.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	61.589	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	94.309	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	yes	74.358	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	97.628	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	88.074	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	74.366	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Clostridium sp. HV4-5-A1G NCBI: GCA_008692765
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	82.3
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	79.8
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	79.9
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	anaerobe	99.6

Availability in culture collections External links

[Ref.: #65738]

Culture collection no.

DSM 104276

[Ref.: #111435]

SI-ID 406798

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete Genome Sequence of a New Clostridium sp. Isolated from Anaerobic Digestion and Biomethanation.	Hahnke S, Abendroth C, Pascual J, Langer T, Ramm P, Klocke M, Luschnig O, Porcar M	Microbiol Resour Announc	10.1128/MRA.01472-19	2020	*

References

#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 )

#65738

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 104276

#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) .

#111435

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-ID406798.1 )

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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