Name: Halomonas endophytica MC28
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158800

Type strain:

Species: Halomonas endophytica

Strain Designation: MC28

Culture col. no.: KCTC 52999, MCCC 1K03343

Strain history: <- Can Chen, Zhejiang Univ.

NCBI tax ID(s): 2033802 (species)

Section

Halomonas endophytica MC28 is an aerobe, chemoorganotroph, Gram-negative bacterium that forms circular colonies and was isolated from From storage liquid in the stems of Populus euphratica in xinjiang.

colony-forming
Gram-negative
motile
rod-shaped
aerobe
chemoorganotroph
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	*Oceanospirillales*
	Family	*Halomonadaceae*
	Genus	*Halomonas*
	Species	**Halomonas endophytica**
	Full Scientific Name (LPSN)	Halomonas endophytica Chen et al. 2018

Synonym

"Billgrantia endophytica"

Information on morphological and physiological properties Morphology

[Ref.: #65561]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.991

[Ref.: #65561]	Cell length	1.0-1.5 µm

[Ref.: #65561]	Cell width	0.5-0.8 µm

[Ref.: #65561]	Cell shape	rod-shaped

[Ref.: #65561]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.256

[Ref.: #65561]	Colony size	1-2 mm
[Ref.: #65561]	Colony color	yellow
[Ref.: #65561]	Colony shape	circular
[Ref.: #65561]	Incubation period	3 days
[Ref.: #65561]	Cultivation medium used	MA

[Ref.: #65561]	Pigment production	no
[Ref.: #65561]	Pigment name	flexirubin-type

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65561]

Culture medium

Marine agar (MA)

[Ref.: #65561]

Culture medium growth

		Temperature
[Ref.: #65561]	growth	10-45 °C
[Ref.: #65561]	optimum	40 °C
[Ref.: #67771]	growth	28 °C

[Ref.: #65561]	Temperature range	thermophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #65561]			optimum	8.5
[Ref.: #65561]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65561]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #65561]

Nutrition type

chemoorganotroph

[Ref.: #69480]	Ability of spore formation	no Confidence in %99.95
[Ref.: #69481]	Ability of spore formation	no Confidence in %97

[Ref.: #65561]

Halophily / tolerance level

halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65561]		NaCl		growth	0.5-6.0	%(w/v)
[Ref.: #65561]		NaCl		optimum	3	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65561]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #65561]	casein	-	hydrolysis
[Ref.: #65561]	cellulose ChEBI	-	hydrolysis
[Ref.: #65561]	citrate ChEBI	+	carbon source
[Ref.: #65561]	citrate ChEBI	+	energy source
[Ref.: #65561]	D-arabinose ChEBI	+	builds acid from
[Ref.: #65561]	D-arabitol ChEBI	+	builds acid from
[Ref.: #65561]	D-fructose ChEBI	+	carbon source
[Ref.: #65561]	D-fructose ChEBI	+	energy source
[Ref.: #65561]	D-fucose ChEBI	-	builds acid from
[Ref.: #65561]	D-galactose ChEBI	+	carbon source
[Ref.: #65561]	D-galactose ChEBI	+	energy source
[Ref.: #65561]	D-glucose ChEBI	+	carbon source
[Ref.: #65561]	D-glucose ChEBI	+	energy source
[Ref.: #65561]	D-mannitol ChEBI	+	carbon source
[Ref.: #65561]	D-mannitol ChEBI	+	energy source
[Ref.: #65561]	D-mannose ChEBI	+	builds acid from
[Ref.: #65561]	D-mannose ChEBI	+	carbon source
[Ref.: #65561]	D-mannose ChEBI	+	energy source
[Ref.: #65561]	D-ribose ChEBI	+	carbon source
[Ref.: #65561]	D-ribose ChEBI	+	energy source
[Ref.: #65561]	D-sorbitol ChEBI	+	carbon source
[Ref.: #65561]	D-sorbitol ChEBI	+	energy source
[Ref.: #65561]	D-tagatose ChEBI	+	builds acid from
[Ref.: #65561]	D-tagatose ChEBI	+	carbon source
[Ref.: #65561]	D-tagatose ChEBI	+	energy source
[Ref.: #65561]	D-xylose ChEBI	+	builds acid from
[Ref.: #65561]	D-xylose ChEBI	+	carbon source
[Ref.: #65561]	D-xylose ChEBI	+	energy source
[Ref.: #65561]	gelatin ChEBI	-	hydrolysis
[Ref.: #65561]	glucose ChEBI	-	fermentation
[Ref.: #65561]	glucose ChEBI	+	fermentation
[Ref.: #65561]	L-arabinose ChEBI	-	builds acid from
[Ref.: #65561]	L-arabinose ChEBI	+	carbon source
[Ref.: #65561]	L-arabinose ChEBI	+	energy source
[Ref.: #65561]	L-sorbose ChEBI	+	builds acid from
[Ref.: #65561]	L-sorbose ChEBI	+	carbon source
[Ref.: #65561]	L-sorbose ChEBI	+	energy source
[Ref.: #65561]	L-tyrosine ChEBI	-	hydrolysis
[Ref.: #65561]	maltose ChEBI	-	builds acid from
[Ref.: #65561]	maltose ChEBI	+	carbon source
[Ref.: #65561]	maltose ChEBI	+	energy source
[Ref.: #65561]	nitrate ChEBI	+	hydrolysis
[Ref.: #65561]	nitrate ChEBI	+	reduction
[Ref.: #65561]	sodium gluconate ChEBI	+	carbon source
[Ref.: #65561]	sodium gluconate ChEBI	+	energy source
[Ref.: #65561]	starch ChEBI	-	hydrolysis
[Ref.: #65561]	succinate ChEBI	+	carbon source
[Ref.: #65561]	succinate ChEBI	+	energy source
[Ref.: #65561]	sucrose ChEBI	-	builds acid from
[Ref.: #65561]	sucrose ChEBI	+	carbon source
[Ref.: #65561]	sucrose ChEBI	+	energy source
[Ref.: #65561]	trehalose ChEBI	-	builds acid from
[Ref.: #65561]	trehalose ChEBI	+	carbon source
[Ref.: #65561]	trehalose ChEBI	+	energy source
[Ref.: #65561]	turanose ChEBI	-	builds acid from
[Ref.: #65561]	tween 20 ChEBI	+	hydrolysis
[Ref.: #65561]	tween 40 ChEBI	+	hydrolysis
[Ref.: #65561]	tween 60 ChEBI	+	hydrolysis
[Ref.: #65561]	tween 80 ChEBI	+	hydrolysis
[Ref.: #65561]	tyrosine ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #65561]		acetoin ChEBI	no
[Ref.: #65561]		hydrogen sulfide ChEBI	yes

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #65561]		acetoin ChEBI	-
[Ref.: #65561]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #65561]	acid phosphatase	+	3.1.3.2
[Ref.: #65561]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65561]	alpha-glucosidase	+	3.2.1.20
[Ref.: #65561]	catalase	+	1.11.1.6
[Ref.: #65561]	cystine arylamidase	+	3.4.11.3
[Ref.: #65561]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65561]	esterase (C 4)	+
[Ref.: #65561]	esterase Lipase (C 8)	+
[Ref.: #65561]	leucine arylamidase	+	3.4.11.1
[Ref.: #65561]	lipase (C 14)	+
[Ref.: #65561]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65561]	trypsin	+	3.4.21.4
[Ref.: #65561]	urease	-	3.5.1.5
[Ref.: #65561]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #67771]	Sample type/isolated from	From storage liquid in the stems of Populus euphratica in xinjiang
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia

[Ref.: #65561]	Sample type/isolated from	liquid samples from stems of Populus euphratica
[Ref.: #65561]	Sampling date	2016
[Ref.: #65561]	Geographic location (country and/or sea, region)	Ebinur Lake Wetland Nature Reserve, Xinjiang Province
[Ref.: #65561]	Country	China
[Ref.: #65561]	Country ISO 3 Code	CHN
[Ref.: #65561]	Continent	Asia
[Ref.: #65561]	Geographic location	44.4167°/83.6833°
[Ref.: #65561]	Enrichment culture	MA
[Ref.: #65561]	Enrichment culture duration	5 days
[Ref.: #65561]	Enrichment culture temperature	28 ̊C
* marker position based on {}

Isolation sources categories

#Host Body-Site	#Plant	#Stem (Branch)
#Host	#Plants	#Tree
#Host Body Product	#Plant	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence MF850257 (>99% sequence identity) for Halomonas from Microbeatlas

Aquatic Samples	17
Soil Samples	11
Animal Samples	46
Plant Samples	4
Total Samples	78

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.: #65561]	16S rRNA gene sequence	MF850257		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halomonas endophytica MC28	GCA_002879615	scaffold	GenBank	2033802 tax ID	*
[Ref.: #66792]	Halomonas endophytica MC28	2859108715	draft	JGI IMG/M	2033802 tax ID	*

[Ref.: #65561]

GC-content

64.1 mol%

high performance liquid chromatography (HPLC)

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: Halomonas endophytica MC28 NCBI: GCA_002879615.1
[Ref.: #69481]	spore-forming	no	97	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halomonas endophytica MC28 NCBI: GCA_002879615.1
[Ref.: #69480]	flagellated	yes	60.607	no
[Ref.: #69480]	gram-positive	no	98.497	yes
[Ref.: #69480]	anaerobic	no	98.301	no
[Ref.: #69480]	aerobic	yes	85.183	yes
[Ref.: #69480]	halophile	yes	83.715	no
[Ref.: #69480]	spore-forming	no	93.917	no
[Ref.: #69480]	glucose-util	yes	87.51	no
[Ref.: #69480]	thermophile	no	98.54	no
[Ref.: #69480]	motile	yes	89.707	no
[Ref.: #69480]	glucose-ferment	no	77.243	no

Availability in culture collections External links

[Ref.: #65561]

Culture collection no.

KCTC 52999, MCCC 1K03343

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halomonas endophytica sp. nov., isolated from liquid in the stems of Populus euphratica.	Chen C, Anwar N, Wu C, Fu G, Wang R, Zhang C, Wu Y, Sun C, Wu M	Int J Syst Evol Microbiol	10.1099/ijsem.0.002585	2018	*

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 )

#65561

Can Chen, Nusratgul Anwar, Chen Wu, Geyi Fu, Ruijun Wang, Choangya Zhang, Yuehong Wu, Cong Sun and Min Wu: Halomonas endophytica sp. nov., isolated from liquid in the stems of Populus euphratica. IJSEM 68: 1633 - 1638 2018 ( DOI 10.1099/ijsem.0.002585 , PubMed 29561252 )

#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;

#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 )

* These data were automatically processed and therefore are not curated

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