Pannonibacter carbonis (CGMCC 1.15703, KCTC 52466, Q4.6)

Name: Pannonibacter carbonis (CGMCC 1.15703, KCTC 52466, Q4.6)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 159698

Type strain

Strain Designation Q4.6

Culture col. no. CGMCC 1.15703 KCTC 52466 Q4.6

NCBI tax ID(s) 2067569

Special Collections KCTC Literature strains

History <- Lijun Xi, Qingdao Economic and Technical Development Zone

Links

Pannonibacter carbonis Q4.6 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from coal mine water sample.

Gram-negative motile rod-shaped facultative anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 288106

KCTC 52466

@ref 20215

Last LPSN update 2026-02-09 11:38:43

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Stappiaceae

Genus Pannonibacter

Species Pannonibacter carbonis

Full scientific name Pannonibacter carbonis Xi et al. 2018

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
66564	negative	1.8-3 µm	0.3-0.7 µm	rod-shaped	monotrichous, polar
125439	negative					98.7
125438	negative					98.5

Colony morphology

@ref	Colony size	Colony color	Medium used
66564	1-1.6 mm	cream	Tryptic Soy Agar

Culture and growth conditions

Culture medium

@ref	Name	Growth
66564	tryptic soy agar (TSA)

Culture temp

@ref	Growth	Type	Temperature (°C)
66564	positive	optimum	30-35
66564	positive	growth	4-55
67771	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
66564	positive	optimum	6.5-8
66564	positive	growth	3.5-10.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
66564	facultative anaerobe
67771	aerobe
125439	aerobe	91.1

Spore formation

@ref	Spore formation	Confidence
125439		98.8
125438		94.401

Halophily

@ref	Salt	Growth	Tested relation	Concentration
66564	NaCl	positive	growth	0-5.5 %(w/v)
66564	NaCl	positive	optimum	0-2 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
66564	17128 ChEBI	adipate	+	builds acid from
66564	17128 ChEBI	adipate	-	carbon source
66564	22599 ChEBI	arabinose	-	carbon source
66564	29016 ChEBI	arginine	+	carbon source
66564	12936 ChEBI	D-galactose	+	builds acid from
66564	12936 ChEBI	D-galactose	+	carbon source
66564	17634 ChEBI	D-glucose	+	builds acid from
66564	17634 ChEBI	D-glucose	+	carbon source
66564	65327 ChEBI	D-xylose	+	builds acid from
66564	65327 ChEBI	D-xylose	+	carbon source
66564	17113 ChEBI	erythritol	-	carbon source
66564	5291 ChEBI	gelatin	+	hydrolysis
66564	17716 ChEBI	lactose	+	builds acid from
66564	17716 ChEBI	lactose	-	carbon source
66564	25094 ChEBI	lysine	+	carbon source
66564	17306 ChEBI	maltose	+	carbon source
66564	29864 ChEBI	mannitol	+	carbon source
66564	37684 ChEBI	mannose	+	builds acid from
66564	37684 ChEBI	mannose	-	carbon source
66564	17268 ChEBI	myo-inositol	-	carbon source
66564	17632 ChEBI	nitrate	-	reduction
66564		O-nitrophenyl-beta-D-galactopyranosid	+	carbon source
66564	18257 ChEBI	ornithine	+	carbon source
66564	32032 ChEBI	potassium gluconate	+	builds acid from
66564	32032 ChEBI	potassium gluconate	+	carbon source
66564	53258 ChEBI	sodium citrate	+	carbon source
66564	30911 ChEBI	sorbitol	+	builds acid from
66564	30911 ChEBI	sorbitol	+	carbon source
66564	28017 ChEBI	starch	-	carbon source
66564	17992 ChEBI	sucrose	+	assimilation
66564	27082 ChEBI	trehalose	+	carbon source
66564	53426 ChEBI	tween 80	-	hydrolysis
66564	17151 ChEBI	xylitol	+	builds acid from
66564	17151 ChEBI	xylitol	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite
66564	15688 ChEBI	acetoin
66564	30033 ChEBI	Bacteriochlorophyll alpha
66564	16136 ChEBI	hydrogen sulfide
66564	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
66564	15688 ChEBI	acetoin	+

Enzymes

@ref	Value	Activity	Ec
66564	catalase	+	1.11.1.6
66564	cytochrome oxidase	+	1.9.3.1
66564	urease	+	3.5.1.5

Fatty acid profile

Metadata FA analysis

@ref

66564

Fatty acid	Percentage	ECL
C18:1 w7c	75.1
Unknown 18.814	4.3	18.814
C18:0	3.7
11-methyl C18:1 w7c	3
C20:1 w9c	2.3
C16:0	2
C18:0 3OH	1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Geologic
#Engineered	#Other	#Mine

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture duration	Enrichment culture temperature	Isolation procedure
66564	coal mine water sample	coal-producing well in Jinchen, Shanxi Province	China	CHN	Asia	35.5	110.917 35.5/110.917	coal mine water agar	7 days	30	serial dilution technique
67771	From Coalbed water	Shanxi Jincheng	China	CHN	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM301293v1 assembly for Pannonibacter carbonis Q4.6	scaffold	GCA_003012935	2067569.3	2833391513	2067569	72.91

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
66564	Pannonibacter carbonis strain Q4.6 16S ribosomal RNA gene, partial sequence	KX953219	1441		2067569

GC content

@ref	GC-content (mol%)	Method
66564	63.6	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pannonibacter carbonis Q4.6
NCBI: GCA_003012935

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.80	no
125439	motility	BacteriaNetⓘ	yes	70.60	no
125439	gram_stain	BacteriaNetⓘ	negative	98.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	91.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pannonibacter carbonis Q4.6
NCBI: GCA_003012935.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	no
125438	anaerobic	anaerobicⓘ	no	92.97	yes
125438	aerobic	aerobicⓘ	yes	81.70	no
125438	spore-forming	spore-formingⓘ	no	94.40	no
125438	thermophilic	thermophileⓘ	no	96.99	yes
125438	flagellated	motile2+ⓘ	yes	74.10	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Cloning, expression, and characterization of a novel nitrilase, PaCNit, from Pannonibacter carbonis Q4.6.	Liu D, Xi L, Han D, Dou K, Su S, Liu J	Biotechnol Lett	10.1007/s10529-019-02661-x	2019
Phylogeny	Pannonibacter tanglangensis sp. nov., a New Species Isolated from Pond Sediment.	Wang L, Cheng Y, Yang P, Zhang J, Zhang G, Zhang S, Yang J, Zhang Z, Hu L, Pu J, Yang Y, Lai XH, Xu J, Li Y, Hu Q.	J Microbiol	10.1007/s12275-024-00151-y	2024
Phylogeny	Pannonibacter carbonis sp. nov., isolated from coal mine water.	Xi L, Qiao N, Liu D, Li J, Zhang J, Liu J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002794	2018

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 )
#66564	Lijun Xi, Nenghu Qiao, Dejian Liu, Jing Li, Jingjing Zhang, Jianguo Liu: Pannonibacter carbonis sp. nov., isolated from coal mine water. IJSEM 68: 2042 - 2047 2018 ( DOI 10.1099/ijsem.0.002794 , PubMed 29693544 )
#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) .
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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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Pannonibacter carbonis (CGMCC 1.15703, KCTC 52466, Q4.6)

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

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Fatty acid profile

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_003012935

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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