Name: Falsigemmobacter intermedius 119/4
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 130603

Type strain:

Species: Falsigemmobacter intermedius

Strain Designation: 119/4

Culture col. no.: DSM 28642, CCM 8510, CIP 110795, LMG 28215

Strain history: CIP <- 2014, P. Kämpfer, Giessen Univ., Giessen, Germany: strain 119/4

NCBI tax ID(s): 1553448 (species)

SI-ID 399541

DSM 28642, CIP 110795

Special Collections

DSMZ
CIP

Section

Falsigemmobacter intermedius 119/4 is a Gram-negative, rod-shaped bacterium that was isolated from choana swab of a white stork nestling .

Gram-negative
rod-shaped
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	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Paracoccaceae*
	Genus	*Falsigemmobacter*
	Species	**Falsigemmobacter intermedius**
	Full Scientific Name (LPSN)	Falsigemmobacter intermedius (Kämpfer et al. 2015) Li et al. 2023

Synonym

Gemmobacter intermedius

Information on morphological and physiological properties Morphology

[Ref.: #115973]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97.333

[Ref.: #115973]	Cell shape	rod-shaped

[Ref.: #115973]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #35292]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #35292]

Culture medium growth

[Ref.: #35292]

Culture medium composition

expand / minimize

[Ref.: #21597]

Culture medium

LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)

[Ref.: #21597]

Culture medium growth

[Ref.: #21597]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21597]

Culture medium composition

expand / minimize

[Ref.: #115973]

Culture medium

CIP Medium 72

[Ref.: #115973]

Culture medium growth

[Ref.: #115973]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #21597]			growth	37 °C
[Ref.: #35292]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

no Confidence in %99

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

[Ref.: #21597]	Sample type/isolated from	choana swab of a white stork nestling (Ciconia ciconia)
[Ref.: #21597]	Host species	Ciconia ciconia
[Ref.: #21597]	Country	Poland
[Ref.: #21597]	Country ISO 3 Code	POL
[Ref.: #21597]	Continent	Europe

[Ref.: #115973]	Sample type/isolated from	Animal, Stork
[Ref.: #115973]	Country	Poland
[Ref.: #115973]	Country ISO 3 Code	POL
[Ref.: #115973]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Infection	#Patient	#Swab
#Host	#Birds	-
#Host Body-Site	#Oral cavity and airways	#Airways

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KM407667 (>99% sequence identity) for Poaceae from Microbeatlas

Aquatic Samples	547
Soil Samples	80
Animal Samples	520
Plant Samples	84
Total Samples	1231

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

[Ref.: #21597]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #115973]	Biosafety level	1	Risk group (French classification)

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.: #21597]	Falsigemmobacter intermedius strain 119/4 16S ribosomal RNA gene, partial sequence	KM407667	1344	GenBank ENA	1553448 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Gemmobacter intermedius 119/4	GCA_004054105	scaffold	GenBank ENA	1553448 tax ID	*
[Ref.: #66792]	Gemmobacter intermedius 119/4	2891541355	draft	JGI IMG/M	1553448 tax ID	*

[Ref.: #21597]

GC-content

64 mol%

fluorimetric

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Gemmobacter intermedius 119/4 NCBI: GCA_004054105.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	99	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Gemmobacter intermedius 119/4 NCBI: GCA_004054105.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.333	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.226	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	82.95	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	89.361	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	93.333	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	54.394	no

Availability in culture collections External links

[Ref.: #21597]

Culture collection no.

DSM 28642, CCM 8510, CIP 110795, LMG 28215

[Ref.: #89117]

SI-ID 399541

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Gemmobacter intermedius sp. nov., isolated from a white stork (Ciconia ciconia).	Kampfer P, Jerzak L, Wilharm G, Golke J, Busse HJ, Glaeser SP	Int J Syst Evol Microbiol	10.1099/ijs.0.000012	2014	*
Phylogeny	Falsigemmobacter faecalis gen. nov. sp. nov., isolated from faeces of Rhinopithecus roxellanae, and reclassification of Gemmobacter intermedius as Falsigemmobacter intermedius comb. nov.	Li G, Jiang Y, Li Q, Chen X, Jiang L, Zhang K, An D, Lang L, Han L, Huang X, Jiang C	Arch Microbiol	10.1007/s00203-020-01978-w	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 )

#21597

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28642

#35292 ; Curators of the CIP;

#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) .

#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.: MicrobeAtlas 1.0 beta .

#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 )

#89117

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-ID399541.1 )

#115973 Collection of Institut Pasteur ; Curators of the CIP; CIP 110795
* These data were automatically processed and therefore are not curated

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Gemmobacter intermedius 119/4

Gemmobacter intermedius 119/4

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