Paraburkholderia acidipaludis (NBRC 101816, VTCC D6-6, SA33)

Name: Paraburkholderia acidipaludis (NBRC 101816, VTCC D6-6, SA33)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133586

Type strain

Strain Designation SA33

Culture col. no. NBRC 101816 VTCC D6-6 SA33

NCBI tax ID(s) 1218074 660537

Special Collections Literature strains

Links

Paraburkholderia acidipaludis SA33 is an aerobe, Gram-negative, rod-shaped prokaryote that was isolated from Chinese water chestnut growing in acidic swamps.

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

Name and taxonomic classification

SI-ID 28341

BCRC 80192,NBRC 101816

@ref 20215

Last LPSN update 2025-12-16 10:01:49

Domain Pseudomonadati

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Paraburkholderia

Species Paraburkholderia acidipaludis

Full scientific name Paraburkholderia acidipaludis (Aizawa et al. 2010) Sawana et al. 2017

Synonyms (1)

Burkholderia acidipaludis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
29666	negative	1.3-1.7 µm	0.6-0.7 µm	rod-shaped
125438	negative				98.5
125439	negative				96.5

Pigmentation

29666

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
29666	positive	growth	17-37
29666	positive	optimum	28-32	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
29666	positive	optimum	04-07
29666	positive	growth	03-08	acidophile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
29666	aerobe
125439	obligate aerobe	93.9

Spore formation

@ref	Spore formation	Confidence
29666
125438		90.69
125439		97.7

Observation

29666

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29666	22599 ChEBI	arabinose	+	carbon source
29666	22653 ChEBI	asparagine	+	carbon source
29666	35391 ChEBI	aspartate	+	carbon source
29666	28757 ChEBI	fructose	+	carbon source
29666	33984 ChEBI	fucose	+	carbon source
29666	28260 ChEBI	galactose	+	carbon source
29666	24265 ChEBI	gluconate	+	carbon source
29666	17234 ChEBI	glucose	+	carbon source
29666	29987 ChEBI	glutamate	+	carbon source
29666	27570 ChEBI	histidine	+	carbon source
29666	18403 ChEBI	L-arabitol	+	carbon source
29666	24996 ChEBI	lactate	+	carbon source
29666	29864 ChEBI	mannitol	+	carbon source
29666	37684 ChEBI	mannose	+	carbon source
29666	51850 ChEBI	methyl pyruvate	+	carbon source
29666	17632 ChEBI	nitrate	+	reduction
29666	28044 ChEBI	phenylalanine	+	carbon source
29666	26271 ChEBI	proline	+	carbon source
29666	26546 ChEBI	rhamnose	+	carbon source
29666	15963 ChEBI	ribitol	+	carbon source
29666	30911 ChEBI	sorbitol	+	carbon source
29666	30031 ChEBI	succinate	+	carbon source
29666	26986 ChEBI	threonine	+	carbon source

Enzymes

@ref	Value	Activity	Ec
29666	acid phosphatase	+	3.1.3.2
29666	alkaline phosphatase	+	3.1.3.1
29666	catalase	+	1.11.1.6
29666	cytochrome oxidase	+	1.9.3.1
29666	urease	+	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Wetland (Swamp)
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Condition	#Acidic	-

Isolation

29666

Sample typeChinese water chestnut growing in acidic swamps

Taxonmaps

69479

Global distribution of 16S sequence AB513180 (>99% sequence identity) for Paraburkholderia acidipaludis subclade from Microbeatlas

Aquatic Samples	30
Soil Samples	156
Animal Samples	137
Plant Samples	11
Total Samples	334

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM68497v1 assembly for Paraburkholderia acidipaludis NBRC 101816	contig	GCA_000684975	1218074.4	2582580767	1218074	66.08

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
29666	Burkholderia acidipaludis gene for 16S ribosomal RNA, partial sequence, strain: SA33	AB513180	1495		1218074
124043	Burkholderia acidipaludis gene for 16S ribosomal RNA, partial sequence, strain: NBRC 101816.	AB537485	1456		1218074

GC content

29666

GC-content (mol%)64

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Paraburkholderia acidipaludis NBRC 101816
NCBI: GCA_000684975

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.70	no
125439	motility	BacteriaNetⓘ	yes	71.60	no
125439	gram_stain	BacteriaNetⓘ	negative	96.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	93.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Burkholderia acidipaludis NBRC 101816
PATRIC: 1218074.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	yes
125438	anaerobic	anaerobicⓘ	no	96.08	no
125438	spore-forming	spore-formingⓘ	no	90.69	yes
125438	aerobic	aerobicⓘ	yes	86.21	no
125438	thermophilic	thermophileⓘ	no	97.99	no
125438	flagellated	motile2+ⓘ	yes	88.75	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	New variochelins from soil-isolated Variovorax sp. H002.	Haedar JR, Yoshimura A, Wakimoto T.	Beilstein J Org Chem	10.3762/bjoc.20.63	2024
	List of new names and new combinations previously effectively, but not validly, published.	Oren A, Garrity GM.	Int J Syst Evol Microbiol	10.1099/ijsem.0.002278	2017
	Molecular signatures and phylogenomic analysis of the genus Burkholderia: proposal for division of this genus into the emended genus Burkholderia containing pathogenic organisms and a new genus Paraburkholderia gen. nov. harboring environmental species.	Sawana A, Adeolu M, Gupta RS.	Front Genet	10.3389/fgene.2014.00429	2014
	Bacterial nitrite production oxidizes Fe(II) bioremediating acidic abandoned coal mine drainage.	Vietmeier A, Valkanas M, Lamagna N, Flett S, Gulliver D, Trun N.	Appl Environ Microbiol	10.1128/aem.00405-25	2025
Metabolism	Calcium regulates the mycophagous ability of Burkholderia gladioli strain NGJ1 in a type III secretion system-dependent manner.	Yadav SK, Das J, Kumar R, Jha G.	BMC Microbiol	10.1186/s12866-020-01897-2	2020
Phylogeny	Burkholderia diazotrophica sp. nov., isolated from root nodules of Mimosa spp.	Sheu SY, Chou JH, Bontemps C, Elliott GN, Gross E, Dos Reis Junior FB, Melkonian R, Moulin L, James EK, Sprent JI, Young JPW, Chen WM.	Int J Syst Evol Microbiol	10.1099/ijs.0.039859-0	2013
Phylogeny	Actinoallomurus oryzae sp. nov., an endophytic actinomycete isolated from roots of a Thai jasmine rice plant.	Indananda C, Thamchaipenet A, Matsumoto A, Inahashi Y, Duangmal K, Takahashi Y.	Int J Syst Evol Microbiol	10.1099/ijs.0.022509-0	2011
Phylogeny	Burkholderia susongensis sp. nov., a mineral-weathering bacterium isolated from weathered rock surface.	Gu JY, Zang SG, Sheng XF, He LY, Huang Z, Wang Q	Int J Syst Evol Microbiol	10.1099/ijs.0.000059	2015
Phylogeny	Burkholderia monticola sp. nov., isolated from mountain soil.	Baek I, Seo B, Lee I, Yi H, Chun J	Int J Syst Evol Microbiol	10.1099/ijs.0.066001-0	2014
Phylogeny	Burkholderia acidipaludis sp. nov., aluminum-tolerant bacteria isolated from Chinese water chestnut (Eleocharis dulcis) growing in highly acidic swamps in South-East Asia.	Aizawa T, Bao Ve N, Vijarnsorn P, Nakajima M, Sunairi M	Int J Syst Evol Microbiol	10.1099/ijs.0.018283-0	2009

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 )
#26053	IJSEM 2036 2010 ( DOI 10.1099/ijs.0.018283-0 , PubMed 19819996 )
#29666	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 #26053
#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) .
#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 .
#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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Paraburkholderia acidipaludis (NBRC 101816, VTCC D6-6, SA33)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_000684975

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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