Name: Allobranchiibius huperziae NBRC 110719
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 141012

Type strain:

Species: Allobranchiibius huperziae

Culture col. no.: NBRC 110719, DSM 29531, CPCC 204077

Strain history: <- Y.-Q. Zhang, Chinese Acad. Med. Sciences & Peking Union Medical College; CPCC 204077 <- H.-M. Sun

NCBI tax ID(s): 1874116 (species)

SI-ID 400309

DSM 29531

Section

Allobranchiibius huperziae NBRC 110719 is an aerobe, Gram-positive, coccus-shaped bacterium that forms circular colonies and was isolated from surface-sterilized root of a medicinal plant Huperzia serrata collected from low brush, 1187 m, Hongya County, Sichuan Province, south-west China.

coccus-shaped
colony-forming
Gram-positive
aerobe
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	*Micrococcales*
	Family	*Dermacoccaceae*
	Genus	*Allobranchiibius*
	Species	**Allobranchiibius huperziae**
	Full Scientific Name (LPSN)	Allobranchiibius huperziae Ai et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43908]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #43908]	Cell length	1.1-1.2 µm

[Ref.: #43908]	Cell width	0.4-0.6 µm

[Ref.: #43908]	Cell shape	coccus-shaped

[Ref.: #43908]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %96.589

[Ref.: #43908]	Colony color	ivory white - pale yellow
[Ref.: #43908]	Colony shape	circular
[Ref.: #43908]	Incubation period	7 days
[Ref.: #43908]	Cultivation medium used	Peptone yeast glucose

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Peptone yeast glucose

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Culture medium growth

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Culture medium composition

expand / minimize

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Culture medium

Tryptic soy agar

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Culture medium growth

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Culture medium

YS medium

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Culture medium growth

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Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

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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

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Culture medium

Marine agar (MA)

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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

		Temperature
[Ref.: #43908]	growth	10-32 °C
[Ref.: #43908]	optimum	28-30 °C
[Ref.: #64900]	growth	28 °C

[Ref.: #43908]	Temperature range	mesophilic
[Ref.: #64900]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43908]			optimum	7
[Ref.: #43908]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43908]

Oxygen tolerance

aerobe

[Ref.: #43908]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %99
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.969

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43908]		NaCl		growth	0-1	%(w/v)
[Ref.: #43908]		NaCl		optimum	0	%(w/v)

[Ref.: #64900]	Murein short key	A11.36
[Ref.: #64900]	Murein types	A4alpha L-Lys-L-Ser-D-Asp

[Ref.: #43908]

Observation

quinone MK-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43908]	2-dehydro-D-gluconate ChEBI	+	builds acid from
[Ref.: #43908]	5-dehydro-D-gluconate ChEBI	+	builds acid from
[Ref.: #43908]	arbutin ChEBI	+	builds acid from
[Ref.: #43908]	aztreonam ChEBI	+	carbon source
[Ref.: #43908]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #43908]	D-arabitol ChEBI	+	builds acid from
[Ref.: #43908]	D-fructose ChEBI	+	builds acid from
[Ref.: #43908]	D-galactose ChEBI	+	carbon source
[Ref.: #43908]	D-glucose ChEBI	+	builds acid from
[Ref.: #43908]	D-ribose ChEBI	+	builds acid from
[Ref.: #43908]	D-xylose ChEBI	+	builds acid from
[Ref.: #43908]	erythritol ChEBI	+	builds acid from
[Ref.: #43908]	esculin ferric citrate	+	builds acid from
[Ref.: #43908]	gelatin ChEBI	+	hydrolysis
[Ref.: #43908]	glycerol ChEBI	+	carbon source
[Ref.: #43908]	glycerol 3-phosphate ChEBI	+	builds acid from
[Ref.: #43908]	L-rhamnose ChEBI	+	carbon source
[Ref.: #43908]	nitrate ChEBI	-	reduction
[Ref.: #43908]	potassium gluconate ChEBI	+	builds acid from
[Ref.: #43908]	starch ChEBI	-	hydrolysis
[Ref.: #43908]	sucrose ChEBI	+	builds acid from
[Ref.: #43908]	trehalose ChEBI	+	builds acid from
[Ref.: #43908]	tween 40 ChEBI	+	hydrolysis
[Ref.: #43908]	urea ChEBI	+	hydrolysis
[Ref.: #43908]	xylitol ChEBI	+	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43908]		hydrogen sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43908]	6-phospho-beta-galactosidase	+	3.2.1.85
[Ref.: #43908]	acid phosphatase	+	3.1.3.2
[Ref.: #43908]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43908]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #43908]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43908]	alpha-galactosidase	+	3.2.1.22
[Ref.: #43908]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43908]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43908]	beta-glucuronidase	+	3.2.1.31
[Ref.: #43908]	catalase	+	1.11.1.6
[Ref.: #43908]	cystine arylamidase	+	3.4.11.3
[Ref.: #43908]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43908]	esterase (C 4)	+
[Ref.: #43908]	esterase Lipase (C 8)	+
[Ref.: #43908]	leucine arylamidase	+	3.4.11.1
[Ref.: #43908]	lipase (C 14)	+
[Ref.: #43908]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43908]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43908]	trypsin	+	3.4.21.4
[Ref.: #43908]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43908]

Fatty acid	Percentage
iso-C16:0 10-methyl	58.7
iso-C15:0iso-C16:1 H	5.1
C10:0 2OH	4.6
C14:0 iso	4.1
C17:0	4.1
C15:0	3
C17:0 anteiso	2.3
C17:0 3OH	2.2
10-methyl C16:0	2.1
C16:0	2.1
iso-C17:0 10-methyl	1.5
10-methyl C17:0	1.5
C16:1ω7c	1.4
C16:0 iso 2OH	1.1
C17:1ω8c	1
C15:0 iso	0.9
C16:0 iso	0.8
C12:0 2OH	0.7
C17:0 iso	0.7
C15:0 anteiso	0.7

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

[Ref.: #43908]	Sample type/isolated from	surface-sterilized root of a medicinal plant Huperzia serrata (Thunb.) collected from low brush, 1187 m, Hongya County, Sichuan Province, south-west China
[Ref.: #43908]	Geographic location (country and/or sea, region)	Hongya County, Sichuan Province
[Ref.: #43908]	Country	China
[Ref.: #43908]	Country ISO 3 Code	CHN
[Ref.: #43908]	Continent	Asia
[Ref.: #43908]	Geographic location	29.6903°/103.1710°
[Ref.: #43908]	Enrichment culture	Tap water-yeast extract (TWYE) agar
[Ref.: #43908]	Enrichment culture composition	yeast extract 0.25 g/L, K2HPO4 0.5 g/L, agar 15.0 g/L, pH 7.5, Aztreonam 25 mg/L, actidione 25 mg/L, potassium dichromate 30 mg/L
[Ref.: #43908]	Enrichment culture duration	3 weeks
[Ref.: #43908]	Enrichment culture temperature	28 ̊C

[Ref.: #64900]	Sample type/isolated from	root of the medicinal plant Huperzia serrata (Thunb.)
[Ref.: #64900]	Geographic location (country and/or sea, region)	Sichuan Province, Hongya County (29° 41' 24.98'' N, 103° 10' 16.23'' E)
[Ref.: #64900]	Country	China
[Ref.: #64900]	Country ISO 3 Code	CHN
[Ref.: #64900]	Continent	Asia
[Ref.: #64900]	Geographic location	29.6903°/103.1710°
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Moss
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KX527846 (>99% sequence identity) for Allobranchiibius huperziae subclade from Microbeatlas

Aquatic Samples	122
Soil Samples	229
Animal Samples	616
Plant Samples	59
Total Samples	1026

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

[Ref.: #64900]

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.: #64900]	Allobranchiibius huperziae strain CPCC 204077 16S ribosomal RNA gene, partial sequence	KX527846	1513	ENA	1874116 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Allobranchiibius huperziae DSM 29531	GCA_013410455	contig	GenBank	1874116 tax ID	*
[Ref.: #66792]	Allobranchiibius huperziae strain DSM 29531	1874116.3	wgs	PATRIC	1874116 tax ID	*
[Ref.: #66792]	Allobranchiibius huperziae DSM 29531	2857407679	draft	JGI IMG/M	1874116 tax ID	*

[Ref.: #43908]	GC-content	71 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #64900]	GC-content	71.0 mol%

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: Allobranchiibius huperziae strain DSM 29531 PATRIC: 1874116.3
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Allobranchiibius huperziae strain DSM 29531 PATRIC: 1874116.3
[Ref.: #69480]	motile	no	95.704	no
[Ref.: #69480]	gram-positive	yes	92.432	yes
[Ref.: #69480]	anaerobic	no	98.717	yes
[Ref.: #69480]	aerobic	yes	90.257	yes
[Ref.: #69480]	halophile	no	94.673	yes
[Ref.: #69480]	spore-forming	no	82.68	yes
[Ref.: #69480]	glucose-util	yes	90.967	no
[Ref.: #69480]	flagellated	no	98.506	no
[Ref.: #69480]	thermophile	no	98.852	yes
[Ref.: #69480]	glucose-ferment	no	91.9	no

Availability in culture collections External links

[Ref.: #64900]

Culture collection no.

NBRC 110719, DSM 29531, CPCC 204077

[Ref.: #96828]

SI-ID 400309

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Allobranchiibius huperziae gen. nov., sp. nov., a member of Dermacoccaceae isolated from the root of a medicinal plant Huperzia serrata (Thunb.).	Ai MJ, Sun Y, Sun HM, Liu HY, Yu LY, Zhang YQ	Int J Syst Evol Microbiol	10.1099/ijsem.0.002284	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 )

#43908

Meng-Jie Ai, Ye Sun, Hong-Min Sun, Hong-Yu Liu, Li-Yan Yu, Yu-Qin Zhang: Allobranchiibius huperziae gen. nov., sp. nov., a member of Dermacoccaceae isolated from the root of a medicinal plant Huperzia serrata (Thunb.). IJSEM 67: 4210 - 4215 2017 ( DOI 10.1099/ijsem.0.002284 , PubMed 28920829 )

#64900

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29531

#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 )

#96828

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-ID400309.1 )

* These data were automatically processed and therefore are not curated

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Allobranchiibius huperziae strain DSM 29531

Allobranchiibius huperziae strain DSM 29531

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