Caulobacter flavus (DSM 29968, CGMCC 1.15093, JCM 30763)

Name: Caulobacter flavus (DSM 29968, CGMCC 1.15093, JCM 30763)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131555

Type strain

Strain Designation RHGG3

Culture col. no. DSM 29968 CGMCC 1.15093 JCM 30763 KCTC 42581 RHGG3

NCBI tax ID(s) 1679497

Special Collections DSMZ JCM KCTC

History <- L. Sun, Anhui Univ., Hefei, China; RHGG3 L. Sun; Sch. of Life Sci., Anhui Agric. Univ., China; RHGG3.

Links

Caulobacter flavus RHGG3 is a bacterium that was isolated from rhizosphere soil of a cultivated watermelon .

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 400762

KCTC 42581,JCM 30763,DSM 29968

@ref 20215

Last LPSN update 2026-02-09 11:31:29

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Caulobacterales

Family Caulobacteraceae

Genus Caulobacter

Species Caulobacter flavus

Full scientific name Caulobacter flavus Sun et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	97.302

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22782	CAULOBACTER MEDIUM (DSMZ Medium 595)		Medium recipe at MediaDive	Name: CAULOBACTER MEDIUM (DSMZ Medium 595) Composition: Agar 15.0 g/l Bacto peptone 2.0 g/l Yeast extract 1.0 g/l MgSO4 x 7 H2O 0.2 g/l Tap water

Culture temp

@ref	Growth	Type	Temperature (°C)
22782	positive	growth	28
67770	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	96.1

Spore formation

@ref	Spore formation	Confidence
125439		94.4

Observation

67770

Observationquinones: Q-10

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
22782	rhizosphere soil of a cultivated watermelon (Citrullus lanatus)	Citrullus lanatus	Hefei	China	CHN	Asia
67770	Rhizosphere soil of cultivated watermelon (Citrullus lanatus)	Citrullus lanatus	Hefei	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence KR086403 (>99% sequence identity) for Caulobacter from Microbeatlas

Aquatic Samples	132
Soil Samples	72
Animal Samples	69
Plant Samples	191
Total Samples	464

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22782	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	ASM372233v1 assembly for Caulobacter flavus RHGG3	complete	GCA_003722335	1679497.6	2843744320	1679497	95.53

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22782	Caulobacter flavus strain RHGG3 16S ribosomal RNA gene, partial sequence	KR086403	1404		1679497

GC content

@ref	GC-content (mol%)	Method
22782	70	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Caulobacter flavus RHGG3
IMG: 2843744320

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	94.40	no
125439	motility	BacteriaNetⓘ	yes	72.50	no
125439	gram_stain	BacteriaNetⓘ	negative	80.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Caulobacter flavus RHGG3
NCBI: GCA_003722335.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.30	no
125438	anaerobic	anaerobicⓘ	no	98.40	no
125438	aerobic	aerobicⓘ	yes	86.70	no
125438	spore-forming	spore-formingⓘ	no	88.31	no
125438	thermophilic	thermophileⓘ	no	98.50	yes
125438	flagellated	motile2+ⓘ	yes	75.35	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete genome sequence of Caulobacter flavus RHGG3(T), a type species of the genus Caulobacter with plant growth-promoting traits and heavy metal resistance.	Yang E, Sun L, Ding X, Sun D, Liu J, Wang W	3 Biotech	10.1007/s13205-019-1569-z	2019
Phylogeny	Caulobacter soli sp. nov., isolated from soil sampled at Jiri Mountain, Republic of Korea.	Yang Y, Jin CZ, Jin FJ, Li T, Lee JM, Kim CJ, Lee HG, Jin L	Int J Syst Evol Microbiol	10.1099/ijsem.0.004264	2020
Phylogeny	Caulobacter zeae sp. nov. and Caulobacter radicis sp. nov., novel endophytic bacteria isolated from maize root (Zea mays L.).	Gao JL, Sun P, Sun XH, Tong S, Yan H, Han ML, Mao XJ, Sun JG	Syst Appl Microbiol	10.1016/j.syapm.2018.08.010	2018
Phylogeny	Caulobacter rhizosphaerae sp. nov., a stalked bacterium isolated from rhizosphere soil.	Sun LN, Yang ED, Hou XT, Wei JC, Yuan ZX, Wang WY	Int J Syst Evol Microbiol	10.1099/ijsem.0.001860	2017
Phylogeny	Caulobacter flavus sp. nov., a stalked bacterium isolated from rhizosphere soil.	Sun LN, Yang ED, Wei JC, Tang XY, Cao YY, Han GM	Int J Syst Evol Microbiol	10.1099/ijsem.0.000585	2015
Phylogeny	Caulobacter endophyticus sp. nov., an endophytic bacterium harboring three lasso peptide biosynthetic gene clusters and producing indoleacetic acid isolated from maize root.	Gao JL, Sun P, Sun YC, Xue J, Wang G, Wang LW, Du Y, Zhang X, Sun JG	Antonie Van Leeuwenhoek	10.1007/s10482-021-01593-9	2021

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 )
#22782	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29968
#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 )

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Caulobacter flavus (DSM 29968, CGMCC 1.15093, JCM 30763)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003722335

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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