Name: Gallaecimonas xiamenensis 3-C-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 130813

Type strain:

Species: Gallaecimonas xiamenensis

Strain Designation: 3-C-1

Culture col. no.: DSM 100312, CCTCC AB 209060, LMG 25226, MCCC 1A01354

Strain history: <- LMG <- Q. Lai, Key Lab. Marine Biogenetic Resources <- L. Wang, Key Lab. Marine Biogenetic Resources, Third Institute of Oceanography, Xiamen, China

NCBI tax ID(s): 1207039 (species)

SI-ID 362601

LMG 25226

Section

Gallaecimonas xiamenensis 3-C-1 is a mesophilic, Gram-negative, motile bacterium that was isolated from surface seawater.

Gram-negative
motile
rod-shaped
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	*Enterobacterales*
	Family	"Gallaecimonadaceae"
	Genus	*Gallaecimonas*
	Species	**Gallaecimonas xiamenensis**
	Full Scientific Name (LPSN)	Gallaecimonas xiamenensis Wang et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30697]	Gram stain	negative

[Ref.: #30697]	Cell length	3.15 µm

[Ref.: #30697]	Cell width	0.55 µm

[Ref.: #30697]	Cell shape	rod-shaped

[Ref.: #30697]	Motility	yes

[Ref.: #30697]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22073]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #22073]

Culture medium growth

[Ref.: #22073]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22073]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #22073]	growth	28 °C
[Ref.: #30697]	growth	10-42 °C
[Ref.: #30697]	optimum	27.5 °C

[Ref.: #22073]	Temperature range	mesophilic
[Ref.: #30697]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30697]			optimum	7
[Ref.: #30697]			growth	05-10

Information on physiology and metabolism Physiology and metabolism

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30697]		NaCl		growth	0-12	%
[Ref.: #30697]		NaCl		optimum	4	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30697]	alanine ChEBI	+	carbon source
[Ref.: #30697]	alpha-cyclodextrin ChEBI	+	carbon source
[Ref.: #30697]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #30697]	asparagine ChEBI	+	carbon source
[Ref.: #30697]	aspartate ChEBI	+	carbon source
[Ref.: #30697]	cellobiose ChEBI	+	carbon source
[Ref.: #30697]	citrate ChEBI	+	carbon source
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #30697]	dextrin ChEBI	+	carbon source
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #30697]	galacturonate ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30697]	glucose ChEBI	+	carbon source
[Ref.: #30697]	glucuronamide ChEBI	+	carbon source
[Ref.: #30697]	glutamate ChEBI	+	carbon source
[Ref.: #30697]	glycine ChEBI	+	carbon source
[Ref.: #30697]	glycogen ChEBI	+	carbon source
[Ref.: #30697]	histidine ChEBI	+	carbon source
[Ref.: #30697]	inosine ChEBI	+	carbon source
[Ref.: #30697]	L-alaninamide ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #30697]	leucine ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #30697]	malonate ChEBI	+	carbon source
[Ref.: #30697]	maltose ChEBI	+	carbon source
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #30697]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #30697]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #30697]	proline ChEBI	+	carbon source
[Ref.: #30697]	propionate ChEBI	+	carbon source
[Ref.: #30697]	serine ChEBI	+	carbon source
[Ref.: #30697]	succinate ChEBI	+	carbon source
[Ref.: #30697]	threonine ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #30697]	tween 40 ChEBI	+	carbon source
[Ref.: #30697]	tween 80 ChEBI	+	carbon source
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #30697]	catalase	+	1.11.1.6
[Ref.: #30697]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	+		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #22073]	23305	-	-	-	-	-	-	+	-	+	+	-	-	+	+	-	+	-	+	+	-	+

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

[Ref.: #22073]	Sample type/isolated from	surface seawater
[Ref.: #22073]	Geographic location (country and/or sea, region)	near Xiamen Island
[Ref.: #22073]	Country	China
[Ref.: #22073]	Country ISO 3 Code	CHN
[Ref.: #22073]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Surface water

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JQ666155 (>99% sequence identity) for Gallaecimonas xiamenensis subclade from Microbeatlas

Aquatic Samples	348
Soil Samples	36
Animal Samples	587
Plant Samples	35
Total Samples	1006

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

[Ref.: #22073]

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.: #22073]	Gallaecimonas xiamenensis 3-C-1 16S ribosomal RNA gene, partial sequence	JQ666155	1506	ENA	745411 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Gallaecimonas xiamenensis 3-C-1	GCA_000299915	contig	GenBank	745411 tax ID	*
[Ref.: #66792]	Gallaecimonas xiamenensis 3-C-1	745411.6	wgs	PATRIC	745411 tax ID	*
[Ref.: #66792]	Gallaecimonas xiamenensis 3-C-1	2565956799	draft	JGI IMG/M	745411 tax ID	*

[Ref.: #30697]

GC-content

61.3 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Gallaecimonas xiamenensis 3-C-1 PATRIC: 745411.6
[Ref.: #69480]	motile	yes	94.614	yes
[Ref.: #69480]	flagellated	yes	89.241	no
[Ref.: #69480]	gram-positive	no	98.851	yes
[Ref.: #69480]	anaerobic	no	97.504	no
[Ref.: #69480]	aerobic	yes	88.329	no
[Ref.: #69480]	halophile	no	73.995	no
[Ref.: #69480]	spore-forming	no	93.34	no
[Ref.: #69480]	thermophile	no	98.79	no
[Ref.: #69480]	glucose-util	yes	91.432	no
[Ref.: #69480]	glucose-ferment	no	77.467	yes

Availability in culture collections External links

[Ref.: #22073]

Culture collection no.

DSM 100312, CCTCC AB 209060, LMG 25226, MCCC 1A01354

[Ref.: #89301]

SI-ID 362601

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Gallaecimonas mangrovi sp. nov., a novel bacterium isolated from mangrove sediment.	Zhang WY, Yuan Y, Su DQ, He XP, Han SB, Epstein SS, He S, Wu M	Antonie Van Leeuwenhoek	10.1007/s10482-018-1076-y	2018	*
Genetics	Genome sequence of Gallaecimonas xiamenensis type strain 3-C-1.	Lai Q, Wang L, Wang W, Shao Z	J Bacteriol	10.1128/JB.01854-12	2012	*
Phylogeny	Gallaecimonas xiamenensis sp. nov., isolated from seawater.	Wang J, Lai Q, Duan X, Fu Y, Wang L, Wang W, Shao Z	Int J Syst Evol Microbiol	10.1099/ijs.0.042283-0	2012	*

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 )

#22073

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100312

#30697

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27028 (see below)

#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) .

#68369

Automatically annotated from API 20NE .

#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) .

#89301

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-ID362601.1 )

#27028

IJSEM 930 2013 ( DOI 10.1099/ijs.0.042283-0 , PubMed 22659502 )

* These data were automatically processed and therefore are not curated

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