Aurantiacibacter arachoides (CGMCC 1.15507, JCM 31277, RC-4-10-4)

Name: Aurantiacibacter arachoides (CGMCC 1.15507, JCM 31277, RC-4-10-4)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140758

Type strain

Strain Designation RC-4-10-4

Culture col. no. CGMCC 1.15507 JCM 31277 RC-4-10-4

NCBI tax ID(s) 1850444

Special Collections JCM Literature strains

History JCM <-- Y. Liu; Inst. of Tibetan Plateau Res., CAS, China; RC4-10-4.

Links

Aurantiacibacter arachoides RC-4-10-4 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from Ice core in East Rongbuk Glacier.

Gram-negative rod-shaped colony-forming aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 28077

JCM 31277

@ref 20215

Last LPSN update 2026-05-29 08:39:47

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Erythrobacteraceae

Genus Aurantiacibacter

Species Aurantiacibacter arachoides

Full scientific name Aurantiacibacter arachoides (Xing et al. 2017) Xu et al. 2020

Synonyms (1)

Erythrobacter arachoides

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
43536	negative	1.1-1.4 µm	0.3-0.6 µm	rod-shaped
125438	negative				98.333
125439	negative				98.657

Colony morphology

@ref	Colony color	Colony shape	Incubation period	Medium used
43536	Orange	circular	5 days	R2A agar

Culture and growth conditions

Culture medium

@ref	Name	Growth
43536	Reasoner's 2A agar (R2A)

Culture temp

@ref	Growth	Type	Temperature (°C)
43536	positive	growth	0-35
43536	positive	optimum	25
67770	positive	growth	20

Culture pH

@ref	Ability	Type	PH	PH range
43536	positive	optimum	7
43536	positive	growth	6-9	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
43536	aerobe
125438	aerobe	90.325
125439	aerobe	91.996

Spore formation

@ref	Spore formation	Confidence
125438		90.976
125439		99.434

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43536	NaCl	positive	growth	0-3 %
43536	NaCl	positive	optimum	2 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43536	17128 ChEBI	adipate	-	assimilation
43536	27613 ChEBI	amygdalin	-	builds acid from
43536	22599 ChEBI	arabinose	-	builds acid from
43536	16947 ChEBI	citrate	-	assimilation
43536	17634 ChEBI	D-glucose	-	assimilation
43536	17634 ChEBI	D-glucose	-	builds acid from
43536	16899 ChEBI	D-mannitol	-	assimilation
43536	16024 ChEBI	D-mannose	-	assimilation
43536	27689 ChEBI	decanoate	-	assimilation
43536	4853 ChEBI	esculin	+	hydrolysis
43536	30849 ChEBI	L-arabinose	-	assimilation
43536	25115 ChEBI	malate	-	assimilation
43536	17306 ChEBI	maltose	-	assimilation
43536	29864 ChEBI	mannitol	-	builds acid from
43536	28053 ChEBI	melibiose	-	builds acid from
43536	17268 ChEBI	myo-inositol	-	builds acid from
43536	506227 ChEBI	N-acetylglucosamine	-	assimilation
43536	17632 ChEBI	nitrate	-	reduction
43536	16301 ChEBI	nitrite	-	reduction
43536	18401 ChEBI	phenylacetate	-	assimilation
43536	26546 ChEBI	rhamnose	-	builds acid from
43536	30911 ChEBI	sorbitol	-	builds acid from
43536	28017 ChEBI	starch	-	hydrolysis
43536	17992 ChEBI	sucrose	-	builds acid from
43536	53424 ChEBI	tween 20	+	hydrolysis
43536	53423 ChEBI	tween 40	+	hydrolysis
43536	53425 ChEBI	tween 60	+	hydrolysis
43536	53426 ChEBI	tween 80	+	hydrolysis

Metabolite production

@ref	Chebi-ID	Metabolite
43536	15688 ChEBI	acetoin
43536	16136 ChEBI	hydrogen sulfide
43536	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
43536	acid phosphatase	-	3.1.3.2
43536	alkaline phosphatase	+	3.1.3.1
43536	alpha-chymotrypsin	-	3.4.21.1
43536	alpha-fucosidase	-	3.2.1.51
43536	alpha-galactosidase	-	3.2.1.22
43536	alpha-glucosidase	-	3.2.1.20
43536	alpha-mannosidase	-	3.2.1.24
43536	arginine dihydrolase	-	3.5.3.6
43536	beta-galactosidase	-	3.2.1.23
43536	beta-glucosidase	-	3.2.1.21
43536	cystine arylamidase	+/-	3.4.11.3
43536	esterase (C 4)	+/-
43536	esterase Lipase (C 8)	+/-
43536	gelatinase	-
43536	leucine arylamidase	+/-	3.4.11.1
43536	lipase (C 14)	-
43536	lysine decarboxylase	-	4.1.1.18
43536	naphthol-AS-BI-phosphohydrolase	+/-
43536	ornithine decarboxylase	-	4.1.1.17
43536	trypsin	+	3.4.21.4
43536	tryptophan deaminase	-	4.1.99.1
43536	urease	-	3.5.1.5
43536	valine arylamidase	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Glacier
#Environmental	#Terrestrial	#Core sample

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
43536	Ice core in East Rongbuk Glacier	Tibetan Plateu	China	CHN	Asia	28.02	86.96 28.02/86.96
67770	East Rongbuk Glacier on the Tibetan Plateau

Taxonmaps

69479

Global distribution of 16S sequence KU302715 (>99% sequence identity) for Aurantiacibacter from Microbeatlas

Aquatic Samples	109
Soil Samples	12
Animal Samples	16
Plant Samples	6
Total Samples	143

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM982733v1 assembly for Aurantiacibacter arachoides RC4-10-4	contig	GCA_009827335	1850444.3	2920871452	1850444	76.18
66792	ASM1464341v1 assembly for Aurantiacibacter arachoides CGMCC 1.15507	contig	GCA_014643415	1850444.4	8065934586	1850444	75.89

16S sequences

@ref	Description	Accession	Database
43536	Aurantiacibacter arachoides strain RC4-10-4 16S ribosomal RNA gene, partial sequence	KU302715

GC content

@ref	GC-content (mol%)	Method
43536	66.4	thermal denaturation, midpoint method (Tm)
67770	65.4	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM982733v1 assembly for Aurantiacibacter arachoides RC4-10-4
NCBI: GCA_009827335

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	92.00	no
125439	gram_stain	BacteriaNetⓘ	negative	98.66	no
125439	motility	BacteriaNetⓘ	yes	52.86	no
125439	spore_formation	BacteriaNetⓘ	no	99.43	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Erythrobacter arachoides strain CGMCC 1.15507
PATRIC: 1850444.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.33	no
125438	anaerobic	anaerobicⓘ	no	96.12	no
125438	spore-forming	spore-formingⓘ	no	90.98	no
125438	aerobic	aerobicⓘ	yes	90.33	yes
125438	thermophilic	thermophileⓘ	no	96.84	yes
125438	flagellated	motile2+ⓘ	no	60.86	no

Literature

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 )
#43536	Tingting Xing, Yongqin Liu, Ninglian Wang, Baiqing Xu, Keshao Liu, Liang Shen, Zhengquan Gu, Bixi Guo, Yuguang Zhou, Hongcan Liu: Erythrobacter arachoides sp. nov., isolated from ice core. IJSEM 67: 4235 - 4239 2017 ( DOI 10.1099/ijsem.0.002290 , PubMed 28920835 )
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 )

Content

About us