unclassified bacterium (DSM 14454, NapHS2)

Name: unclassified bacterium (DSM 14454, NapHS2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 23392

Type strain

Strain Designation NapHS2

Culture col. no. DSM 14454 NapHS2

NCBI tax ID(s) 1869227

Special Collections DSMZ

History DSMZ <- A. Galushko, Universität Konstanz, Fakultät für Biologie, Konstanz, Germany; NapHS2 <- A. Galushko; {1997}

unclassified bacterium NapHS2 is an anaerobe prokaryote that was isolated from black anoxic marine sediment.

anaerobe genome sequence 16S sequence

Name and taxonomic classification

Culture Collection Numbers

DSM 14454 NapHS2

@ref 5361

Phylum Not assigned to order

Class Not assigned to order

Order Clostridiales

Family Not assigned to family

Genus unclassified

Species unclassified bacterium

Full scientific name unclassified bacterium

Strain designation NapHS2

Type strain no

BacDive ID	Other strains from unclassified bacterium (64)	Type strain
174674	u. bacterium KA00274, DSM 112988 (type strain)
174675	u. bacterium UPII 610-J, DSM 112989 (type strain)
2511	u. bacterium LD64, DSM 11001
23365	u. bacterium SIO, DSM 2170, ATCC 19263, CCM 326, NCMB ...
23366	u. bacterium 008-523, DSM 3039
23368	u. bacterium Re10, DSM 4661
23369	u. bacterium Wo021, DSM 5672
23370	u. bacterium KN032, DSM 5673
23371	u. bacterium US2, DSM 5848
23374	u. bacterium FlGlyM, DSM 6945
23376	u. bacterium 16AV, DSM 8385
23378	u. bacterium Ia3, DSM 10066
23379	u. bacterium LFR, DSM 10174, ATCC 51258
23386	u. bacterium mXyS1, DSM 12567
23387	u. bacterium PB90-2, DSM 12558
23389	u. bacterium XB90, DSM 12595
23390	u. bacterium 72Chol, DSM 12783
23394	u. bacterium EbS7, DSM 15769
23395	u. bacterium MLMS-1, DSM 17814
23396	u. bacterium 95, DSM 30001, ATCC 19103, IAM 1433
24688	u. bacterium EL-44, DSM 11444
24711	u. bacterium agV6, DSM 13281
24712	u. bacterium AZD10A1, DSM 17878, CCUG 52015
24713	u. bacterium AP57, DSM 18372, CECT 7177
130784	u. bacterium CH 1359, DSM 12902
130785	u. bacterium DSM 14861, HEL Hel43, HEL 43
130786	u. bacterium JWIYJL-CPRB 1, JW/YJL-CPRB1, DSM 17738
130792	u. bacterium G.Slu-02, DSM 21096
130793	u. bacterium L-1031, DSM 22395
130970	u. bacterium CHL6 7, DSM 10147
130971	u. bacterium CHL6 8, DSM 10148
132009	u. bacterium DSM 17195, Jamm 0065
132016	u. bacterium FSW06-301, DSM 27188
132022	u. bacterium SB2, CSURP1926, DSM 100743, CSUR P1926
132029	u. bacterium P2414, CSURP2414, DSM 102218, CSUR P2414
132035	u. bacterium CSURP2434, DSM 102883, CSUR P2434, Marseille-2434
132037	u. bacterium LC8, DSM 103728
139746	u. bacterium CB Cb502, CB 502, DSM 53758
139748	u. bacterium FGR15-07, DSM 26766, KACC 15970
139749	u. bacterium DSM 27371, WR 21
139751	u. bacterium UV 2.5, DSM 100784
139754	u. bacterium 2-bin, DSM 105719, KCTC 32235, CFCC 10925
157746	u. bacterium RS22 G, DSM 23554
157753	u. bacterium HV4-6-A5C, DSM 104144
157759	u. bacterium f-CSY, f_CSY, DSM 107475
157760	u. bacterium f-RGN, f_RGN, DSM 107527
157766	u. bacterium H2-39, H2_39, DSM 108347
159078	u. bacterium DSM 23666, CAT 12a
159091	u. bacterium HV4-5-C5C, DSM 103941
159093	u. bacterium H3_16, DSM 108225
160193	u. bacterium KNH, DSM 24760
169308	u. bacterium D16, 4/1/38B, DSM 27791, BEI HM-79
169310	u. bacterium 7D4C2, DSM 110548
169311	u. bacterium NM08_P-01, NM08, P-01, DSM 110563
174669	u. bacterium ING2-ESF, DSM 28740
174670	u. bacterium F4-6, DSM 29277
174671	u. bacterium MO-YS, DSM 29925
174672	u. bacterium CSURP1934, Mt11, DSM 100589, CSUR P1934
174676	u. bacterium NC2008, DSM 116427
174677	u. bacterium KH1P17, DSM 116970
174678	u. bacterium MA2020, DSM 116971
176606	u. bacterium AN20T, DSM 111154, CCM 9041
176607	u. bacterium AN421T, DSM 111155, CCM 9040
176608	u. bacterium AN502, DSM 111156

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	95.938

Colony morphology

5361

Incubation period>14 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
5361	DESULFOBACTERIUM MEDIUM (DSMZ Medium 383)		Medium recipe at MediaDive	Name: DESULFOBACTERIUM MEDIUM (DSMZ Medium 383; with strain-specific modifications) Composition: NaCl 20.9372 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 2.99103 g/l Na2CO3 0.997009 g/l KCl 0.498504 g/l Na2S x 9 H2O 0.398804 g/l Naphthalene 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l 2,2,4,4,6,8,8-Heptamethylnonane

Culture temp

@ref	Growth	Type	Temperature (°C)
5361	positive	growth	30

Physiology and metabolism

Oxygen tolerance

5361

Oxygen toleranceanaerobe

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Terrestrial	#Sediment
#Condition	#Anoxic (anaerobic)	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
5361	black anoxic marine sediment	North Sea Coast near Wilhelmshaven, Horumersiel	Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence AJ132804 (>99% sequence identity) for Desulfobacteraceae from Microbeatlas

Aquatic Samples	48
Soil Samples	2
Animal Samples	0
Plant Samples	0
Total Samples	50

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM17931v1 assembly for delta proteobacterium NaphS2	contig	GCA_000179315	88274.4	648276759	88274	0

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5361	delta proteobacterium NaphS2 16S rRNA gene	AJ132804	1477		88274

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM17931v1 assembly for delta proteobacterium NaphS2
NCBI: GCA_000179315

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	74.99	no
125439	gram_stain	BacteriaNetⓘ	negative	45.45	no
125439	motility	BacteriaNetⓘ	no	63.08	no
125439	spore_formation	BacteriaNetⓘ	no	68.77	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: delta proteobacterium NaphS2
PATRIC: 88274.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.94	no
125438	anaerobic	anaerobicⓘ	yes	70.88	yes
125438	aerobic	aerobicⓘ	no	74.94	yes
125438	spore-forming	spore-formingⓘ	no	81.45	no
125438	thermophilic	thermophileⓘ	no	87.23	yes
125438	flagellated	motile2+ⓘ	yes	54.04	no

Literature

References

#5361	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14454
#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 .
#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 .

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