Name: Cupriavidus sp. USMAA2-4
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 158069

Type strain:

Species: Cupriavidus sp.

Strain Designation: USMAA2-4

Culture col. no.: DSM 19379

Strain history: <- A. Al-Ashraf Abdullah, University Sains Malaysia, Minden, Penang, Malaysia; USMAA2-4

NCBI tax ID(s): 1873897 (species)

SI-ID 401935

DSM 19379

Special Collections

DSMZ

Other strains from Cupriavidus sp.

Section

When using BacDive for research please cite our paper

Cupriavidus sp. USMAA2-4 is a mesophilic bacterium that was isolated from river water.

mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	*Burkholderiaceae*
	Genus	*Cupriavidus*
	Full Scientific Name (LPSN)	Cupriavidus Makkar and Casida 1987

Information on morphological and physiological properties Morphology

[Ref.: #125439]	Gram stain	negative Confidence in %96.3
[Ref.: #125438]	Gram stain	negative Confidence in %95.485

Information on culture and growth conditions Culture and growth conditions

[Ref.: #64643]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #64643]

Culture medium growth

[Ref.: #64643]

Culture medium link

Medium recipe at MediaDive

[Ref.: #64643]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #64643]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125438]

Oxygen tolerance

aerobe Confidence in %91.396

[Ref.: #125439]	Ability of spore formation	no Confidence in %97.8
[Ref.: #125438]	Ability of spore formation	no Confidence in %90.132

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #64643]	Sample type/isolated from	river water
[Ref.: #64643]	Geographic location (country and/or sea, region)	Penang, River Sg. Pinang
[Ref.: #64643]	Country	Malaysia
[Ref.: #64643]	Country ISO 3 Code	MYS
[Ref.: #64643]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#River (Creek)

What are isolation sources categories?

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #64643]	Cupriavidus sp. USMAA2-4 16S ribosomal RNA gene, complete sequence	KF460029	1515	GenBank ENA	876364 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Cupriavidus sp. USMAA2-4	GCA_001854305	complete	GenBank ENA	876364 tax ID	*
[Ref.: #66792]	Cupriavidus sp. USMAA2-4	876364.3	complete	PATRIC	876364 tax ID	*
[Ref.: #66792]	Cupriavidus sp. USMAA2-4	876364.4	plasmid	PATRIC	876364 tax ID	*
[Ref.: #66792]	Cupriavidus sp. USMAA2-4	2728369403	complete	JGI IMG/M	876364 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Cupriavidus sp. USMAA2-4 USMAA2-4 NCBI: GCA_001854305.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	95.485	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	98.082	no
[Ref.: #125438]	aerobic	aerobicⓘ	yes	91.396	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	90.132	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	98.238	no
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	82.216	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Cupriavidus sp. USMAA2-4 NCBI: GCA_001854305
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	97.8
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	82.5
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	96.3
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	aerobe	89.3

Availability in culture collections External links

[Ref.: #64643]

Culture collection no.

DSM 19379

[Ref.: #110913]

SI-ID 401935

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Biotechnology	Biotechnological Production of Poly(3-Hydroxybutyrate-co-4-Hydroxybutyrate-co-3-Hydroxyvalerate) Terpolymer by Cupriavidus sp. DSM 19379.	Kucera D, Novackova I, Pernicova I, Sedlacek P, Obruca S	Bioengineering (Basel)	10.3390/bioengineering6030074	2019	*
Biotechnology	A fed-batch strategy to produce high poly(3-hydroxybutyrate-co-3-hydroxyvalerate-co-4-hydroxybutyrate) terpolymer yield with enhanced mechanical properties in bioreactor.	Aziz NA, Huong KH, Sipaut CS, Amirul AA	Bioprocess Biosyst Eng	10.1007/s00449-017-1820-0	2017	*
Metabolism	Synthesis of high 4-hydroxybutyrate copolymer by Cupriavidus sp. transformants using one-stage cultivation and mixed precursor substrates strategy.	Syafiq IM, Huong KH, Shantini K, Vigneswari S, Aziz NA, Amirul AA, Bhubalan K	Enzyme Microb Technol	10.1016/j.enzmictec.2016.11.011	2016	*
Genetics	Complete Genome Sequences of Three Cupriavidus Strains Isolated from Various Malaysian Environments.	Shafie NA, Lau NS, Ramachandran H, Amirul AA	Genome Announc	10.1128/genomeA.01498-16	2017	*
Metabolism	Influence of Feeding and Controlled Dissolved Oxygen Level on the Production of Poly(3-Hydroxybutyrate-co-3-Hydroxyvalerate) Copolymer by Cupriavidus sp. USMAA2-4 and Its Characterization.	Shantini K, Yahya AR, Amirul AA	Appl Biochem Biotechnol	10.1007/s12010-015-1648-5	2015	*
Metabolism	Studies on the microbial synthesis and characterization of polyhydroxyalkanoates containing 4-hydroxyvalerate using gamma-valerolactone.	Muzaiyanah AR, Amirul AA	Appl Biochem Biotechnol	10.1007/s12010-013-0247-6	2013	*
Metabolism	Biosynthesis and characterization of poly (3-hydroxybutyrate-co-3-hydroxyvalerate-co-4-hydroxybutyrate) terpolymer with various monomer compositions by Cupriavidus sp. USMAA2-4.	Ramachandran H, Iqbal NM, Sipaut CS, Abdullah AA	Appl Biochem Biotechnol	10.1007/s12010-011-9180-8	2011	*
Metabolism	Biosynthesis of poly(3-hydroxybutyrate-co-3-hydroxyvalerate) and characterisation of its blend with oil palm empty fruit bunch fibers.	Salim YS, Abdullah AA, Nasri CS, Ibrahim MN	Bioresour Technol	10.1016/j.biortech.2010.11.020	2010	*
Metabolism	Factors influencing the release of Mitragyna speciosa crude extracts from biodegradable P(3HB-co-4HB).	Chee JW, Amirul AA, Majid MI, Mansor SM	Int J Pharm	10.1016/j.ijpharm.2008.05.007	2008	*

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 )

#64643

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19379

#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) .

#110913

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID401935.1 )

#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 .

* These data were automatically processed and therefore are not curated

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Cupriavidus sp. USMAA2-4 USMAA2-4

Cupriavidus sp. USMAA2-4

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