Name: Allochromatium humboldtianum AX1YC10
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 131413

Type strain:

Species: Allochromatium humboldtianum

Strain Designation: AX1YC10, AX1YPE

Culture col. no.: DSM 21881, KCTC 15448

Strain history: <- Wilbert Serrano, Universitat Bremen

NCBI tax ID(s): 504901 (species)

SI-ID 407631

DSM 21881

Section

Allochromatium humboldtianum AX1YC10 is an anaerobe, mesophilic, motile bacterium that was isolated from shallow water, soft marine sediments.

motile
rod-shaped
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Chromatiales*
	Family	*Chromatiaceae*
	Genus	*Allochromatium*
	Species	**Allochromatium humboldtianum**
	Full Scientific Name (LPSN)	Allochromatium humboldtianum Serrano et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %100

[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #67771]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %96.413

[Ref.: #67771]	Flagellum arrangement	monotrichous, polar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22640]

Culture medium

PFENNIG'S MEDIUM I (modified 1988, for purple sulfur bacteria) (DSMZ Medium 28)

[Ref.: #22640]

Culture medium growth

[Ref.: #22640]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22640]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #22640]			growth	30 °C
[Ref.: #67771]			growth	25 °C

[Ref.: #22640]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67771]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %98.898

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.981

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

[Ref.: #22640]	Sample type/isolated from	shallow water, soft marine sediments
[Ref.: #22640]	Geographic location (country and/or sea, region)	central coast, Callao Bay (12° 02' S 72° 13' W) at a depth of 47 m
[Ref.: #22640]	Country	Peru
[Ref.: #22640]	Country ISO 3 Code	PER
[Ref.: #22640]	Continent	Middle and South America
[Ref.: #22640]	Geographic location	-12.0510°/-77.1290°

[Ref.: #67771]	Sample type/isolated from	From marine coastal sediments at 47 m depth in Callao Bay
[Ref.: #67771]	Geographic location (country and/or sea, region)	central coast
[Ref.: #67771]	Country	Peru
[Ref.: #67771]	Country ISO 3 Code	PER
[Ref.: #67771]	Continent	Middle and South America
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

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

[Ref.: #22640]

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.: #22640]	Allochromatium humboldtianum strain AX1YPE 16S ribosomal RNA gene, partial sequence	EU442182	1451	ENA	504901 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Allochromatium humboldtianum DSM 21881	GCA_013385175	contig	GenBank	504901 tax ID	*
[Ref.: #66792]	Allochromatium humboldtianum strain DSM 21881	504901.4	wgs	PATRIC	504901 tax ID	*
[Ref.: #66792]	Allochromatium humboldtianum DSM 21881	2914811602	draft	JGI IMG/M	504901 tax ID	*

[Ref.: #22640]

GC-content

63.9 mol%

thermal denaturation, midpoint method (Tm)

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: Allochromatium humboldtianum strain DSM 21881 PATRIC: 504901.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Allochromatium humboldtianum strain DSM 21881 PATRIC: 504901.4
[Ref.: #69480]	gram-positive	no	99.09	yes
[Ref.: #69480]	anaerobic	yes	97.826	yes
[Ref.: #69480]	halophile	no	92.473	no
[Ref.: #69480]	spore-forming	no	90.727	no
[Ref.: #69480]	glucose-util	yes	61.19	no
[Ref.: #69480]	aerobic	no	94.485	no
[Ref.: #69480]	thermophile	no	94.439	yes
[Ref.: #69480]	motile	yes	90.506	yes
[Ref.: #69480]	flagellated	yes	52.435	no
[Ref.: #69480]	glucose-ferment	no	83.783	no

Availability in culture collections External links

[Ref.: #22640]

Culture collection no.

DSM 21881, KCTC 15448

[Ref.: #89842]

SI-ID 407631

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Allochromatium humboldtianum sp. nov., isolated from soft coastal sediments.	Serrano W, Schrubbers J, Amann R, Fischer U	Int J Syst Evol Microbiol	10.1099/ijs.0.000364	2015	*

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 )

#22640

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21881

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#89842

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-ID407631.1 )

* These data were automatically processed and therefore are not curated

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Allochromatium humboldtianum strain DSM 21881

Allochromatium humboldtianum strain DSM 21881

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