Name: Mangrovihabitans endophyticus S3Cf-2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 140578

Type strain:

Species: Mangrovihabitans endophyticus

Strain Designation: S3Cf-2

Culture col. no.: DSM 100693, CGMCC 4.7299

Strain history: <- S.-W. Liu, Inst. of Medicinal Biotechnology, Chinese Academy; S3Cf-2

NCBI tax ID(s): 1751298 (species)

SI-ID 397078

DSM 100693

Section

Mangrovihabitans endophyticus S3Cf-2 is an aerobe, spore-forming, mesophilic bacterium that builds extensively branched substrate mycelia without fragmentation and was isolated from surface-sterilized bark of Bruguiera sexangula.

Gram-positive
spore-forming
aerobe
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micromonosporales*
	Family	*Micromonosporaceae*
	Genus	*Mangrovihabitans*
	Species	**Mangrovihabitans endophyticus**
	Full Scientific Name (LPSN)	Mangrovihabitans endophyticus Liu et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43278]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

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Colony color

light yellow to greenish-yellow

[Ref.: #43278]	Pigment production	no
[Ref.: #43278]	Pigment name	soluble pigment

[Ref.: #43278]	Multicellular complex forming ability	yes
[Ref.: #43278]	Multicellular complex name	extensively branched substrate mycelia without fragmentation

Information on culture and growth conditions Culture and growth conditions

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Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

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Culture medium

ISP 2

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Culture medium growth

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Culture medium

ISP 3

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Culture medium growth

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Culture medium

ISP 4

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Culture medium growth

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Culture medium

ISP 5

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Culture medium growth

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Culture medium

ISP 7

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Culture medium growth

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

Trypticase Soy Agar (TSA)

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Culture medium growth

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Culture medium

Yeast-Starch agar

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Culture medium growth

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Culture medium

Bennett's agar

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Culture medium growth

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Culture medium

GPHF-MEDIUM (DSMZ Medium 553)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

		Temperature
[Ref.: #43278]	optimum	28-30 °C
[Ref.: #43278]	growth	20-37 °C
[Ref.: #64849]	growth	28 °C

[Ref.: #43278]	Temperature range	mesophilic
[Ref.: #64849]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43278]			optimum	7
[Ref.: #43278]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

[Ref.: #43278]	Spore description	oval or rod-like spore is borne singly at the end of substrate mycelium. Spores have a smooth surface and are non-motile
[Ref.: #43278]	Type of spore	spore
[Ref.: #43278]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %98
[Ref.: #69480]	Ability of spore formation	yes Confidence in %99.448

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43278]		NaCl		growth	0-2	%(w/v)
[Ref.: #43278]		NaCl		optimum	0	%

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Observation

produce aerial hyphae or sporangia

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43278]	amygdalin ChEBI	+	builds acid from
[Ref.: #43278]	arbutin ChEBI	+	builds acid from
[Ref.: #43278]	casein	+	hydrolysis
[Ref.: #43278]	cellobiose ChEBI	+	carbon source
[Ref.: #43278]	cellobiose ChEBI	+	builds acid from
[Ref.: #43278]	D-arabinose ChEBI	+	carbon source
[Ref.: #43278]	D-fructose ChEBI	+	carbon source
[Ref.: #43278]	D-galactose ChEBI	+	carbon source
[Ref.: #43278]	D-glucose ChEBI	+	carbon source
[Ref.: #43278]	D-mannitol ChEBI	+	carbon source
[Ref.: #43278]	D-mannose ChEBI	+	carbon source
[Ref.: #43278]	D-sorbitol ChEBI	+	carbon source
[Ref.: #43278]	dextrin ChEBI	-	carbon source
[Ref.: #43278]	esculin ChEBI	+	degradation
[Ref.: #43278]	esculin ChEBI	+	builds acid from
[Ref.: #43278]	gelatin ChEBI	+	hydrolysis
[Ref.: #43278]	gentiobiose ChEBI	+	builds acid from
[Ref.: #43278]	glycerol ChEBI	+	carbon source
[Ref.: #43278]	L-fucose ChEBI	-	carbon source
[Ref.: #43278]	L-rhamnose ChEBI	-	carbon source
[Ref.: #43278]	lactose ChEBI	+	carbon source
[Ref.: #43278]	lactose ChEBI	+	builds acid from
[Ref.: #43278]	maltose ChEBI	+	carbon source
[Ref.: #43278]	maltose ChEBI	+	builds acid from
[Ref.: #43278]	melibiose ChEBI	+	carbon source
[Ref.: #43278]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #43278]	milk	-	degradation
[Ref.: #43278]	myo-inositol ChEBI	+	carbon source
[Ref.: #43278]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #43278]	nitrate ChEBI	-	reduction
[Ref.: #43278]	raffinose ChEBI	+	carbon source
[Ref.: #43278]	ribose ChEBI	-	carbon source
[Ref.: #43278]	salicin ChEBI	+	builds acid from
[Ref.: #43278]	starch ChEBI	-	hydrolysis
[Ref.: #43278]	starch ChEBI	+	builds acid from
[Ref.: #43278]	sucrose ChEBI	+	carbon source
[Ref.: #43278]	tween 20 ChEBI	+	hydrolysis
[Ref.: #43278]	tween 40 ChEBI	+	hydrolysis
[Ref.: #43278]	tween 80 ChEBI	+	hydrolysis
[Ref.: #43278]	xylose ChEBI	-	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43278]		hydrogen sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43278]	6-phospho-beta-galactosidase	+	3.2.1.85
[Ref.: #43278]	acid phosphatase	+	3.1.3.2
[Ref.: #43278]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43278]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43278]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43278]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43278]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43278]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43278]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43278]	beta-glucosidase	+	3.2.1.21
[Ref.: #43278]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43278]	catalase	+	1.11.1.6
[Ref.: #43278]	cystine arylamidase	+	3.4.11.3
[Ref.: #43278]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43278]	esterase (C 4)	+
[Ref.: #43278]	esterase Lipase (C 8)	+
[Ref.: #43278]	leucine arylamidase	+	3.4.11.1
[Ref.: #43278]	lipase (C 14)	+
[Ref.: #43278]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43278]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43278]	trypsin	+	3.4.21.4
[Ref.: #43278]	urease	-	3.5.1.5
[Ref.: #43278]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

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Fatty acid	Percentage
C16:0 iso	30.8
C15:0 anteiso	23.2
C17:0 anteiso	15.6
C15:0 iso	12
C17:1ω9c	4.6
C17:0 iso	3
C14:0 iso	3
C16:0	1.9
C17:0	1.6
C16:1ω9c	1.2
C15:0	1.1

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

[Ref.: #43278]	Sample type/isolated from	surface-sterilized bark of Bruguiera sexangula
[Ref.: #43278]	Geographic location (country and/or sea, region)	Hainan Province, China
[Ref.: #43278]	Country	China
[Ref.: #43278]	Country ISO 3 Code	CHN
[Ref.: #43278]	Continent	Asia
[Ref.: #43278]	Geographic location	19.0000°/110.0000°

[Ref.: #64849]	Sample type/isolated from	surface-sterilized bark of Bruguiera sexangula
[Ref.: #64849]	Geographic location (country and/or sea, region)	Hainan Province, Dongzhaigang National Nature Reserve (19° 56' 59'' N, 110° 34' 32'' E)
[Ref.: #64849]	Country	China
[Ref.: #64849]	Country ISO 3 Code	CHN
[Ref.: #64849]	Continent	Asia
[Ref.: #64849]	Geographic location	19.9497°/110.5760°
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Tree
#Host Body-Site	#Plant	#Bark
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

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Global distribution of 16S sequence KT996126 (>99% sequence identity) for Mangrovihabitans endophyticus subclade from Microbeatlas

Aquatic Samples	3
Soil Samples	26
Animal Samples	6
Plant Samples	3
Total Samples	38

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

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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.: #64849]	Mangrovihabitans endophyticus strain S3Cf-2 16S ribosomal RNA gene, partial sequence	KT996126	1484	ENA	1751298 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Mangrovihabitans endophyticus CGMCC 4.7299	GCA_014646155	scaffold	GenBank	1751298 tax ID	*
[Ref.: #66792]	Mangrovihabitans endophyticus strain CGMCC 4.7299	1751298.3	wgs	PATRIC	1751298 tax ID	*

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GC-content

71.4 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: Mangrovihabitans endophyticus CGMCC 4.7299 NCBI: GCA_014646155.1
[Ref.: #69481]	spore-forming	yes	98	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Mangrovihabitans endophyticus CGMCC 4.7299 NCBI: GCA_014646155.1
[Ref.: #69480]	flagellated	no	89.723	no
[Ref.: #69480]	gram-positive	yes	89.172	yes
[Ref.: #69480]	anaerobic	no	98.642	no
[Ref.: #69480]	aerobic	yes	89.134	no
[Ref.: #69480]	halophile	no	95.108	no
[Ref.: #69480]	spore-forming	yes	89.327	no
[Ref.: #69480]	thermophile	no	97.562	yes
[Ref.: #69480]	glucose-util	yes	88.541	no
[Ref.: #69480]	motile	yes	53.396	no
[Ref.: #69480]	glucose-ferment	no	90.185	no

Availability in culture collections External links

[Ref.: #64849]

Culture collection no.

DSM 100693, CGMCC 4.7299

[Ref.: #96745]

SI-ID 397078

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Mangrovihabitans endophyticus gen. nov., sp. nov., a new member of the family Micromonosporaceae isolated from Bruguiera sexangula.	Liu SW, Tuo L, Li XJ, Li FN, Li J, Jiang MG, Chen L, Hu L, Sun CH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001764	2017	*

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 )

#43278

Shao-Wei Liu, Li Tuo, Xiao-Jun Li, Fei-Na Li, Jing Li, Ming-Guo Jiang, Li Chen, Li Hu and Cheng-Hang Sun: Mangrovihabitans endophyticus gen. nov., sp. nov., a new member of the family Micromonosporaceae isolated from Bruguiera sexangula. IJSEM 67: 1629 - 1636 2017 ( DOI 10.1099/ijsem.0.001764 , PubMed 28036245 )

#64849

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100693

#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 )

#96745

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-ID397078.1 )

* These data were automatically processed and therefore are not curated

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Mangrovihabitans endophyticus CGMCC 4.7299

Mangrovihabitans endophyticus CGMCC 4.7299

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