Kaistia terrae (DSM 21341, KACC 12910, 5YN7-3)

Name: Kaistia terrae (DSM 21341, KACC 12910, 5YN7-3)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13566

Type strain

Strain Designation 5YN7-3

Culture col. no. DSM 21341 KACC 12910 5YN7-3

NCBI tax ID(s) 537017

Special Collections DSMZ Literature strains

History <- S.-W. Kwon, KACC; 5YN7-3 <- H.-Y. Weon

Links

Kaistia terrae 5YN7-3 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from wetland soil.

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

Name and taxonomic classification

SI-ID 404202

DSM 21341

@ref 20215

Last LPSN update 2026-02-09 11:21:11

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Kaistiaceae

Genus Kaistia

Species Kaistia terrae

Full scientific name Kaistia terrae Kim et al. 2010

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
29378	negative	1.2-1.4 µm	0.8-0.9 µm	rod-shaped
125439	negative				98.1
125438	negative				97.333

Pigmentation

29378

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
15627	R2A MEDIUM (DSMZ Medium 830)		Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
15627	positive	growth	28
29378	positive	growth	05-35
29378	positive	optimum	30

Culture pH

@ref	Ability	Type	PH
29378	positive	optimum	7
29378	positive	growth	05-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
29378	aerobe
125439	obligate aerobe	97

Spore formation

@ref	Spore formation	Confidence
125439		98

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29378	NaCl	positive	growth	0-1 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29378	16808 ChEBI	2-dehydro-D-gluconate	+	carbon source
29378	58143 ChEBI	5-dehydro-D-gluconate	+	carbon source
29378	16449 ChEBI	alanine	+	carbon source
29378	22599 ChEBI	arabinose	+	carbon source
29378	4853 ChEBI	esculin	+	hydrolysis
29378	33984 ChEBI	fucose	+	carbon source
29378	17234 ChEBI	glucose	+	carbon source
29378	28087 ChEBI	glycogen	+	carbon source
29378	24996 ChEBI	lactate	+	carbon source
29378	17306 ChEBI	maltose	+	carbon source
29378	29864 ChEBI	mannitol	+	carbon source
29378	37684 ChEBI	mannose	+	carbon source
29378	28053 ChEBI	melibiose	+	carbon source
29378	26546 ChEBI	rhamnose	+	carbon source
29378	33942 ChEBI	ribose	+	carbon source
29378	17814 ChEBI	salicin	+	carbon source
29378	30911 ChEBI	sorbitol	+	carbon source
29378	17992 ChEBI	sucrose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
29378	catalase	+	1.11.1.6
29378	cytochrome oxidase	+	1.9.3.1
29378	urease	+	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Environmental	#Terrestrial	#Wetland (Swamp)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
15627	wetland soil	Yongneup	Republic of Korea	KOR	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
15627	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2634400v1 assembly for Kaistia terrae DSM 21341	contig	GCA_026344005	537017.3	8048741453	537017	63.6
124043	ASM4265554v1 assembly for Kaistia terrae KACC 12910	contig	GCA_042655545			537017	53.32

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
15627	Kaistia terrae strain 5YN7-3 16S ribosomal RNA gene, partial sequence	EU723082	1371		537017

GC content

@ref	GC-content (mol%)	Method
15627	66.5	high performance liquid chromatography (HPLC)
29378	66.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Kaistia terrae DSM 21341
NCBI: GCA_026344005

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.00	no
125439	motility	BacteriaNetⓘ	yes	67.20	no
125439	gram_stain	BacteriaNetⓘ	negative	98.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kaistia terrae DSM 21341
NCBI: GCA_026344005.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.33	yes
125438	anaerobic	anaerobicⓘ	no	97.04	yes
125438	aerobic	aerobicⓘ	yes	85.43	no
125438	spore-forming	spore-formingⓘ	no	87.52	no
125438	thermophilic	thermophileⓘ	no	98.57	yes
125438	flagellated	motile2+ⓘ	no	64.94	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Kaistia defluvii sp. nov., isolated from river sediment.	Jin L, Kim KK, Lee HG, Ahn CY, Oh HM	Int J Syst Evol Microbiol	10.1099/ijs.0.038687-0	2012
Phylogeny	Kaistia geumhonensis sp. nov. and Kaistia dalseonensis sp. nov., two members of the class Alphaproteobacteria.	Jin L, Kim KK, Baek SH, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.028894-0	2010
Phylogeny	Kaistia terrae sp. nov., isolated from a wetland in Korea.	Kim SJ, Weon HY, Kim YS, Anandham R, Yoo SH, Park IC, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.011924-0	2009

References

#15627	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21341
#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 )
#25786	IJSEM 949 2010 ( DOI 10.1099/ijs.0.011924-0 , PubMed 19661503 )
#29378	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25786
#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) .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Kaistia terrae (DSM 21341, KACC 12910, 5YN7-3)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_026344005

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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