Allobranchiibius huperziae (NBRC 110719, DSM 29531, CPCC 204077)

Name: Allobranchiibius huperziae (NBRC 110719, DSM 29531, CPCC 204077)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 141012

Type strain

Culture col. no. NBRC 110719 DSM 29531 CPCC 204077

NCBI tax ID(s) 1874116

Special Collections DSMZ Literature strains

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

Links

Allobranchiibius huperziae NBRC 110719 is an aerobe, Gram-positive, coccus-shaped prokaryote 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.

Gram-positive coccus-shaped colony-forming aerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 400309

NBRC 110719,DSM 29531

@ref 20215

Last LPSN update 2026-02-09 11:33:47

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Dermacoccaceae

Genus Allobranchiibius

Species Allobranchiibius huperziae

Full scientific name Allobranchiibius huperziae Ai et al. 2017

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
43908	positive	1.1-1.2 µm	0.4-0.6 µm	coccus-shaped
125438					90.5
125438	positive				92.775
125439	positive				97.7

Colony morphology

@ref	Colony color	Colony shape	Incubation period	Medium used
43908	ivory white - pale yellow	circular	7 days	Peptone yeast glucose

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
43908	Nutrient agar (NA)
43908	Peptone yeast glucose		peptone 3.0 g/L, yeast extract 5.0 g/L, glycerol 10.0 ml/L, betaine hydrochloride 1.25 g/L, sodium pyruvate 1.25 g/L, agar 15 g/L
43908	Tryptic soy agar
43908	YS medium
64900	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
43908	Marine agar (MA)
43908	Reasoner's 2A agar (R2A)

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
43908	positive	growth	10-32
43908	positive	optimum	28-30	mesophilic
64900	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH
43908	positive	optimum	7
43908	positive	growth	5.0-8.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
43908	aerobe
125438	aerobe	93.395
125439	obligate aerobe	99.5

Spore formation

43908

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43908	NaCl	positive	growth	0-1 %(w/v)
43908	NaCl	positive	optimum	0 %(w/v)

Murein

@ref	Murein short key	Type
64900	A11.36	A4alpha L-Lys-L-Ser-D-Asp

Observation

43908

Observationquinone MK-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43908	16808 ChEBI	2-dehydro-D-gluconate	+	builds acid from
43908	58143 ChEBI	5-dehydro-D-gluconate	+	builds acid from
43908	18305 ChEBI	arbutin	+	builds acid from
43908	161680 ChEBI	aztreonam	+	carbon source
43908	85146 ChEBI	carboxymethylcellulose	-	hydrolysis
43908	18333 ChEBI	D-arabitol	+	builds acid from
43908	15824 ChEBI	D-fructose	+	builds acid from
43908	12936 ChEBI	D-galactose	+	carbon source
43908	17634 ChEBI	D-glucose	+	builds acid from
43908	16988 ChEBI	D-ribose	+	builds acid from
43908	65327 ChEBI	D-xylose	+	builds acid from
43908	17113 ChEBI	erythritol	+	builds acid from
43908		esculin ferric citrate	+	builds acid from
43908	5291 ChEBI	gelatin	+	hydrolysis
43908	17754 ChEBI	glycerol	+	carbon source
43908	15978 ChEBI	glycerol 3-phosphate	+	builds acid from
43908	62345 ChEBI	L-rhamnose	+	carbon source
43908	17632 ChEBI	nitrate	-	reduction
43908	32032 ChEBI	potassium gluconate	+	builds acid from
43908	28017 ChEBI	starch	-	hydrolysis
43908	17992 ChEBI	sucrose	+	builds acid from
43908	27082 ChEBI	trehalose	+	builds acid from
43908	53423 ChEBI	tween 40	+	hydrolysis
43908	16199 ChEBI	urea	+	hydrolysis
43908	17151 ChEBI	xylitol	+	builds acid from

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43908	16136 ChEBI	hydrogen sulfide

Enzymes

@ref	Value	Activity	Ec
43908	6-phospho-beta-galactosidase	+	3.2.1.85
43908	acid phosphatase	+	3.1.3.2
43908	alkaline phosphatase	+	3.1.3.1
43908	alpha-chymotrypsin	+	3.4.21.1
43908	alpha-fucosidase	-	3.2.1.51
43908	alpha-galactosidase	+	3.2.1.22
43908	alpha-glucosidase	+	3.2.1.20
43908	alpha-mannosidase	-	3.2.1.24
43908	beta-glucuronidase	+	3.2.1.31
43908	catalase	+	1.11.1.6
43908	cystine arylamidase	+	3.4.11.3
43908	cytochrome oxidase	-	1.9.3.1
43908	esterase (C 4)	+
43908	esterase Lipase (C 8)	+
43908	leucine arylamidase	+	3.4.11.1
43908	lipase (C 14)	+
43908	N-acetyl-beta-glucosaminidase	+	3.2.1.52
43908	naphthol-AS-BI-phosphohydrolase	+
43908	trypsin	+	3.4.21.4
43908	valine arylamidase	+

Fatty acid profile

Metadata FA analysis

@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

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Moss
#Host Body-Site	#Plant	#Root (Rhizome)
#Host Body-Site	#Plant	#Sterilized plant part

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture composition	Enrichment culture duration	Enrichment culture temperature
43908	surface-sterilized root of a medicinal plant Huperzia serrata (Thunb.) collected from low brush, 1187 m, Hongya County, Sichuan Province, south-west China	Hongya County, Sichuan Province	China	CHN	Asia	29.6903	103.171 29.6903/103.171	Tap water-yeast extract (TWYE) agar	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	3 weeks	28
64900	root of the medicinal plant Huperzia serrata (Thunb.)	Sichuan Province, Hongya County (29° 41' 24.98'' N, 103° 10' 16.23'' E)	China	CHN	Asia	29.6903	103.171 29.6903/103.171

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
64900	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1341045v1 assembly for Allobranchiibius huperziae DSM 29531	contig	GCA_013410455	1874116.3	2857407679	1874116	73.76

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
64900	Allobranchiibius huperziae strain CPCC 204077 16S ribosomal RNA gene, partial sequence	KX527846	1513		1874116

GC content

@ref	GC-content (mol%)	Method
43908	71	thermal denaturation, midpoint method (Tm)
64900	71.0

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Allobranchiibius huperziae DSM 29531
NCBI: GCA_013410455

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	76.70	no
125439	motility	BacteriaNetⓘ	no	65.90	no
125439	gram_stain	BacteriaNetⓘ	positive	97.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Allobranchiibius huperziae strain DSM 29531
PATRIC: 1874116.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	92.78	yes
125438	anaerobic	anaerobicⓘ	no	98.19	yes
125438	spore-forming	spore-formingⓘ	no	68.02	yes
125438	aerobic	aerobicⓘ	yes	93.40	no
125438	thermophilic	thermophileⓘ	no	96.50	no
125438	flagellated	motile2+ⓘ	no	90.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Biosynthetic gene clusters with biotechnological applications in novel Antarctic isolates from Actinomycetota.	Bruna P, Nunez-Montero K, Contreras MJ, Leal K, Garcia M, Abanto M, Barrientos L.	Appl Microbiol Biotechnol	10.1007/s00253-024-13154-x	2024
	Characterizing Culturable Bacterial Endophytes of Five Lycopodiaceae Species	Petlewski AR, Patterson A, Li FW.	Am Fern J	10.1640/0002-8444-112.2.79	2022
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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Allobranchiibius huperziae (NBRC 110719, DSM 29531, CPCC 204077)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Murein

Observation

Metabolite utilization

Metabolite production

Enzymes

Fatty acid profile?

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_013410455

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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Fatty acid profile