Allorhizobium terrae (BCRC 80932, JCM 31228, CC-HIH110)

Name: Allorhizobium terrae (BCRC 80932, JCM 31228, CC-HIH110)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 163970

Type strain

Strain Designation CC-HIH110

Culture col. no. BCRC 80932 JCM 31228 CC-HIH110

NCBI tax ID(s) 1848972

Special Collections JCM Literature strains

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Allorhizobium terrae CC-HIH110 is a mesophilic, Gram-negative, motile prokaryote that forms circular colonies and was isolated from Paddy soil in Taiwan.

Gram-negative motile rod-shaped colony-forming mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 286061

BCRC 80932,JCM 31228

@ref 20215

Last LPSN update 2025-12-16 10:09:21

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Rhizobiaceae

Genus Allorhizobium

Species Allorhizobium terrae

Full scientific name Allorhizobium terrae Lin et al. 2020

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
125439	negative					99.9
125438	negative					97.5
69541	negative	1.8-2.1 µm	0.7-0.9 µm	rod-shaped	polar

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
69541	2-3 mm	cream-white	circular	2 days	YMA

Culture and growth conditions

Culture medium

@ref	Name	Growth
69541	YMA

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67770	positive	growth	30	mesophilic
69541	positive	growth	15-37
69541	positive	optimum	30	mesophilic

Culture pH

@ref	Ability	Type	PH
69541	positive	optimum	7
69541	positive	growth	5.0-8.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	96.7

Spore formation

@ref	Spore formation	Confidence
125439		99.7
125438		90.903

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69541	NaCl	positive	growth	2 %(w/v)
69541	NaCl	positive	optimum	1 %

Observation

@ref	Observation
67770	quinones: Q-10
69541	Polar lipids present are DPG,PG, PE, PDE, PME, PC, three ALs, two PLs and an L.

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69541	16004 ChEBI	(R)-lactate	+	carbon source
69541	16651 ChEBI	(S)-lactate	+	carbon source
69541	16810 ChEBI	2-oxoglutarate	+	carbon source
69541	17925 ChEBI	alpha-D-glucose	+	carbon source
69541	8295 ChEBI	beta-hydroxybutyrate	+	carbon source
69541	73706 ChEBI	bromosuccinate	+	carbon source
69541	17057 ChEBI	cellobiose	+	carbon source
69541	16383 ChEBI	cis-aconitate	+	carbon source
69541	16947 ChEBI	citrate	+	carbon source
69541	18333 ChEBI	D-arabitol	+	carbon source
69541	78697 ChEBI	D-fructose 6-phosphate	+	carbon source
69541	15895 ChEBI	D-galactonic acid lactone	+	carbon source
69541	12936 ChEBI	D-galactose	+	carbon source
69541	18024 ChEBI	D-galacturonic acid	+	carbon source
69541	18391 ChEBI	D-gluconate	+	carbon source
69541	17634 ChEBI	D-glucose	+	assimilation
69541	15748 ChEBI	D-glucuronate	+	carbon source
69541	16899 ChEBI	D-mannitol	+	assimilation
69541	16899 ChEBI	D-mannitol	+	carbon source
69541	16024 ChEBI	D-mannose	+	assimilation
69541	16024 ChEBI	D-mannose	+	carbon source
69541	27605 ChEBI	D-psicose	+	carbon source
69541	17924 ChEBI	D-sorbitol	+	carbon source
69541	17113 ChEBI	erythritol	+	carbon source
69541	15740 ChEBI	formate	+	carbon source
69541	28066 ChEBI	gentiobiose	+	carbon source
69541	17754 ChEBI	glycerol	+	carbon source
69541	16136 ChEBI	hydrogen sulfide	-	assimilation
69541	35581 ChEBI	indole	-	assimilation
69541	21217 ChEBI	L-alaninamide	+	carbon source
69541	73786 ChEBI	L-alanylglycine	+	carbon source
69541	30849 ChEBI	L-arabinose	+	assimilation
69541	30849 ChEBI	L-arabinose	+	carbon source
69541	28120 ChEBI	L-fructose	+	carbon source
69541	15971 ChEBI	L-histidine	+	carbon source
69541	62345 ChEBI	L-rhamnose	+	carbon source
69541	17716 ChEBI	lactose	+	carbon source
69541	6359 ChEBI	lactulose	+	carbon source
69541	25115 ChEBI	malate	+	assimilation
69541	15792 ChEBI	malonate	+	carbon source
69541	17306 ChEBI	maltose	+	carbon source
69541	28053 ChEBI	melibiose	+	carbon source
69541	320055 ChEBI	methyl beta-D-glucopyranoside	+	carbon source
69541	51850 ChEBI	methyl pyruvate	+	carbon source
69541	75146 ChEBI	monomethyl succinate	+	carbon source
69541	17268 ChEBI	myo-inositol	+	carbon source
69541	28037 ChEBI	n-acetyl-D-galactosamine	+	carbon source
69541	506227 ChEBI	N-acetyl-D-glucosamine	+	assimilation
69541	506227 ChEBI	N-acetyl-D-glucosamine	+	carbon source
69541	17632 ChEBI	nitrate	+	assimilation
69541	17272 ChEBI	propionate	+	carbon source
69541	26490 ChEBI	quinate	+	carbon source
69541	16634 ChEBI	raffinose	+	carbon source
69541	15963 ChEBI	ribitol	+	carbon source
69541	143136 ChEBI	succinamate	+	carbon source
69541	30031 ChEBI	succinate	+	carbon source
69541	17992 ChEBI	sucrose	+	carbon source
69541	17748 ChEBI	thymidine	+	carbon source
69541	27082 ChEBI	trehalose	+	carbon source
69541	32528 ChEBI	turanose	+	carbon source
69541	16704 ChEBI	uridine	+	carbon source
69541	27248 ChEBI	urocanic acid	+	carbon source
69541	17151 ChEBI	xylitol	+	carbon source

Enzymes

@ref	Value	Activity	Ec
69541	acid phosphatase	+	3.1.3.2
69541	alkaline phosphatase	+	3.1.3.1
69541	alpha-galactosidase	+	3.2.1.22
69541	alpha-glucosidase	+	3.2.1.20
69541	beta-galactosidase	+	3.2.1.23
69541	catalase	+	1.11.1.6
69541	cytochrome oxidase	+	1.9.3.1
69541	esterase (C 4)	+
69541	esterase Lipase (C 8)	+
69541	leucine arylamidase	+	3.4.11.1
69541	naphthol-AS-BI-phosphohydrolase	+
69541	trypsin	+	3.4.21.4

Fatty acid profile

Metadata FA analysis

@ref

69541

Fatty acid	Percentage
C18:1 w6c / C18:1 w7c	64.5
C14:0 3OH/C16:1 ISO I	8.9
C16:0 3OH	7.5
C18:1 2OH	5.1
C19:0 cyclo w8c	2.6
C16:1 w6c/C16:1 w7c	2.5
C16:0	1.8
C18:0 3OH	1.7

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Paddy soil in Taiwan
69541	paddy soil in Taiwan(Paddy soil was sampled plot located at Taiwan Agricultural Research Institute Council of Agriculture, Taichung, Taiwan).	Taichung	Taiwan, Province of China	TWN	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM480139v1 assembly for Allorhizobium terrae CC-HIH110	contig	GCA_004801395	1848972.4	8005658619	1848972	71.02

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Allorhizobium terrae 16S ribosomal RNA gene, partial sequence	KU248159	1468		1848972

GC content

@ref	GC-content (mol%)	Method
67770	55	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Allorhizobium terrae CC-HIH110
NCBI: GCA_004801395

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.70	no
125439	motility	BacteriaNetⓘ	yes	79.50	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Allorhizobium terrae CC-HIH110
NCBI: GCA_004801395.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.50	no
125438	anaerobic	anaerobicⓘ	no	93.72	no
125438	aerobic	aerobicⓘ	yes	81.34	no
125438	spore-forming	spore-formingⓘ	no	90.90	no
125438	thermophilic	thermophileⓘ	no	98.44	no
125438	flagellated	motile2+ⓘ	yes	75.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Allorhizobium terrae sp. nov., isolated from paddy soil, and reclassification of Rhizobium oryziradicis (Zhao et al. 2017) as Allorhizobium oryziradicis comb. nov.	Lin SY, Hameed A, Huang HI, Young CC	Int J Syst Evol Microbiol	10.1099/ijsem.0.003770	2020

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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#69541	Shih-Yao Lin, Asif Hameed, Hsin-I Huang and Chiu-Chung Young: Allorhizobium terrae sp. nov., isolated from paddy soil, and reclassification of Rhizobium oryziradicis (Zhao et al. 2017) as Allorhizobium oryziradicis comb. nov.. IJSEM 70: 2020 ( DOI 10.1099/ijsem.0.003770 )
#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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Allorhizobium terrae (BCRC 80932, JCM 31228, CC-HIH110)

Name and taxonomic classification