Name: Nitrosopumilus maritimus ATCC TSD-97
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 141102

Type strain:

Species: Nitrosopumilus maritimus

Culture col. no.: ATCC TSD-97, NCIMB 15022, SCM 1

NCBI tax ID(s): 338192 (species)

Special Collections

Literature strains

Section

Nitrosopumilus maritimus ATCC TSD-97 is an aerobe, chemoautolithotroph, rod-shaped archaeon that was isolated from a tropical marine fish tank at the Seattle Aquarium in Seattle.

rod-shaped
aerobe
chemoautolithotroph
16S sequence
Archaea

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Archaea"
	Phylum	*Nitrososphaerota*
	Class	*Nitrososphaeria*
	Order	*Nitrosopumilales*
	Family	*Nitrosopumilaceae*
	Genus	*Nitrosopumilus*
	Species	**Nitrosopumilus maritimus**
	Full Scientific Name (LPSN)	Nitrosopumilus maritimus Qin et al. 2017

Synonym

"Candidatus Nitrosopumilus maritimus"

Information on morphological and physiological properties Morphology

[Ref.: #44010]	Cell length	0.5-0.9 µm

[Ref.: #44010]	Cell width	0.17-0.22 µm

[Ref.: #44010]	Cell shape	rod-shaped

[Ref.: #44010]	Motility	no

[Ref.: #44010]

Multicellular complex forming ability

Information on culture and growth conditions Culture and growth conditions

[Ref.: #44010]	Culture medium growth
[Ref.: #44010]	Culture medium composition	expand / minimize
		26 g/L NaCl, 5 g/L MgSO4 6H2O, 1.5 g/L CaCl 2x2H2O, 0.1 g/L KBr, 10 ml/L HEPES buffer (1 M HEPES and 0.6 M NaOH), 2 ml/L NaHCO3 (1 M), 5 ml/L KH2PO4 (0.4 g/L), 1 ml/L FeNaEDTA solution (7.5 M), 1 ml/L trace element solution, and 1 ml/L NH 4 Cl (1 M)

	Temperatures	Kind of temperature		Temperature
[Ref.: #44010]			growth	15-35 °C
[Ref.: #44010]			optimum	32 °C

	pH	Kind of pH		pH
[Ref.: #44010]			optimum	7.3
[Ref.: #44010]			growth	6.8-8.1

Information on physiology and metabolism Physiology and metabolism

[Ref.: #44010]

Oxygen tolerance

aerobe

[Ref.: #44010]

Nutrition type

chemoautolithotroph

[Ref.: #44010]

Halophily / tolerance level

moderately halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #44010]		NaCl		optimum	32-37	%

[Ref.: #44010]	Observation	the cell envelope consists of an S-layer with p6 symmetry covering a monolayer cytoplasmic membrane
[Ref.: #44010]	Observation	the minimum generation time is around 19 h
[Ref.: #44010]	Observation	ectoine and hydroxyectoine are synthesized in cells in response to osmotic shock
[Ref.: #44010]	Observation	cells are photosensitive and completely inhibited by continuous illumination
[Ref.: #44010]	Observation	respiratory quinones are saturated and monounsaturated menaquinones with 6 isoprenoid units
[Ref.: #44010]	Observation	free-living in a wide range of marine systems, including surface oceans, hadal oceans, saltwater aquaria, brackish waters, marine and estuarine sediments, salt marshes, and brine-seawater interfaces

[Ref.: #44010]	Name of tolerated compound	ammonia
[Ref.: #44010]	Name of tolerated compound	nitrite

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #44010]	ammonia ChEBI	+	oxidation
[Ref.: #44010]	carbon dioxide ChEBI	+	carbon source
[Ref.: #44010]	urea ChEBI	+	nitrogen source

	Metabolite production	Metabolite	Production
[Ref.: #44010]		cobalamin ChEBI	yes

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #44010]		urease	-	3.5.1.5

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

[Ref.: #44010]	Sample type/isolated from	a tropical marine fish tank at the Seattle Aquarium in Seattle
[Ref.: #44010]	Geographic location (country and/or sea, region)	Washington
[Ref.: #44010]	Country	USA
[Ref.: #44010]	Country ISO 3 Code	USA
[Ref.: #44010]	Continent	North America
* marker position based on {}

Isolation sources categories

#Climate	#Hot	#Tropical
#Engineered	#Built environment	#Water reservoir (Aquarium/pool)
#Environmental	#Aquatic	#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence CP000866 (>99% sequence identity) for Nitrosopumilus from Microbeatlas

Aquatic Samples	3053
Soil Samples	75
Animal Samples	2
Plant Samples	3
Total Samples	3133

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.: #44010]	Nitrosopumilus maritimus SCM1, complete genome	CP000866		GenBank ENA

[Ref.: #44010]

GC-content

34.2 mol%

Availability in culture collections External links

[Ref.: #44010]

Culture collection no.

ATCC TSD-97, NCIMB 15022, SCM 1

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Functional analysis of archaeal MBF1 by complementation studies in yeast.	Marrero Coto J, Ehrenhofer-Murray AE, Pons T, Siebers B	Biol Direct	10.1186/1745-6150-6-18	2011	*
Metabolism	Structural insights into bifunctional thaumarchaeal crotonyl-CoA hydratase and 3-hydroxypropionyl-CoA dehydratase from Nitrosopumilus maritimus.	Destan E, Yuksel B, Tolar BB, Ayan E, Deutsch S, Yoshikuni Y, Wakatsuki S, Francis CA, DeMirci H	Sci Rep	10.1038/s41598-021-02180-8	2021	*
Metabolism	Energy flux controls tetraether lipid cyclization in Sulfolobus acidocaldarius.	Zhou A, Weber Y, Chiu BK, Elling FJ, Cobban AB, Pearson A, Leavitt WD	Environ Microbiol	10.1111/1462-2920.14851	2019	*
Metabolism	Iron requirements and uptake strategies of the globally abundant marine ammonia-oxidising archaeon, Nitrosopumilus maritimus SCM1.	Shafiee RT, Snow JT, Zhang Q, Rickaby REM	ISME J	10.1038/s41396-019-0434-8	2019	*
Genetics	Genomic adaptation to eutrophication of ammonia-oxidizing archaea in the Pearl River estuary.	Zou D, Li Y, Kao SJ, Liu H, Li M	Environ Microbiol	10.1111/1462-2920.14613	2019	*
Phylogeny	Nitrosarchaeum koreense gen. nov., sp. nov., an aerobic and mesophilic, ammonia-oxidizing archaeon member of the phylum Thaumarchaeota isolated from agricultural soil.	Jung MY, Islam MA, Gwak JH, Kim JG, Rhee SK	Int J Syst Evol Microbiol	10.1099/ijsem.0.002926	2018	*
Biotechnology	Genome-scale metabolic model analysis indicates low energy production efficiency in marine ammonia-oxidizing archaea.	Li F, Xie W, Yuan Q, Luo H, Li P, Chen T, Zhao X, Wang Z, Ma H	AMB Express	10.1186/s13568-018-0635-y	2018	*
Metabolism	Primer selection influences abundance estimates of ammonia oxidizing archaea in coastal marine sediments.	Marshall A, Phillips L, Longmore A, Tang C, Heidelberg K, Mele P	Mar Environ Res	10.1016/j.marenvres.2018.06.001	2018	*
Metabolism	Stress response of a marine ammonia-oxidizing archaeon informs physiological status of environmental populations.	Qin W, Amin SA, Lundeen RA, Heal KR, Martens-Habbena W, Turkarslan S, Urakawa H, Costa KC, Hendrickson EL, Wang T, Beck DA, Tiquia-Arashiro SM, Taub F, Holmes AD, Vajrala N, Berube PM, Lowe TM, Moffett JW, Devol AH, Baliga NS, Arp DJ, Sayavedra-Soto LA, Hackett M, Armbrust EV, Ingalls AE, Stahl DA	ISME J	10.1038/ismej.2017.186	2017	*
Phylogeny	Nitrosopumilus maritimus gen. nov., sp. nov., Nitrosopumilus cobalaminigenes sp. nov., Nitrosopumilus oxyclinae sp. nov., and Nitrosopumilus ureiphilus sp. nov., four marine ammonia-oxidizing archaea of the phylum Thaumarchaeota.	Qin W, Heal KR, Ramdasi R, Kobelt JN, Martens-Habbena W, Bertagnolli AD, Amin SA, Walker CB, Urakawa H, Konneke M, Devol AH, Moffett JW, Armbrust EV, Jensen GJ, Ingalls AE, Stahl DA	Int J Syst Evol Microbiol	10.1099/ijsem.0.002416	2017	*
Metabolism	Kinetic analysis of a complete nitrifier reveals an oligotrophic lifestyle.	Kits KD, Sedlacek CJ, Lebedeva EV, Han P, Bulaev A, Pjevac P, Daebeler A, Romano S, Albertsen M, Stein LY, Daims H, Wagner M	Nature	10.1038/nature23679	2017	*
Metabolism	Influence of ammonia oxidation rate on thaumarchaeal lipid composition and the TEX86 temperature proxy.	Hurley SJ, Elling FJ, Konneke M, Buchwald C, Wankel SD, Santoro AE, Lipp JS, Hinrichs KU, Pearson A	Proc Natl Acad Sci U S A	10.1073/pnas.1518534113	2016	*
Phylogeny	The influence of salinity on the abundance, transcriptional activity, and diversity of AOA and AOB in an estuarine sediment: a microcosm study.	Zhang Y, Chen L, Dai T, Tian J, Wen D	Appl Microbiol Biotechnol	10.1007/s00253-015-6804-x	2015	*
Enzymology	[Diversity of thaumarchaeal nitrite reductase (nirK) -like genes in environments].	Huang X, Luo J, Zhao D, Lin W	Wei Sheng Wu Xue Bao		2015	*
Phylogeny	Changes in northern Gulf of Mexico sediment bacterial and archaeal communities exposed to hypoxia.	Devereux R, Mosher JJ, Vishnivetskaya TA, Brown SD, Beddick DL Jr, Yates DF, Palumbo AV	Geobiology	10.1111/gbi.12142	2015	*
Metabolism	The production of nitric oxide by marine ammonia-oxidizing archaea and inhibition of archaeal ammonia oxidation by a nitric oxide scavenger.	Martens-Habbena W, Qin W, Horak RE, Urakawa H, Schauer AJ, Moffett JW, Armbrust EV, Ingalls AE, Devol AH, Stahl DA	Environ Microbiol	10.1111/1462-2920.12677	2015	*
Phylogeny	Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation.	Qin W, Amin SA, Martens-Habbena W, Walker CB, Urakawa H, Devol AH, Ingalls AE, Moffett JW, Armbrust EV, Stahl DA	Proc Natl Acad Sci U S A	10.1073/pnas.1324115111	2014	*
Metabolism	Thermodynamic characterization of proton-ionizable functional groups on the cell surfaces of ammonia-oxidizing bacteria and archaea.	Gorman-Lewis D, Martens-Habbena W, Stahl DA	Geobiology	10.1111/gbi.12075	2014	*
Metabolism	Transcriptional response of the archaeal ammonia oxidizer Nitrosopumilus maritimus to low and environmentally relevant ammonia concentrations.	Nakagawa T, Stahl DA	Appl Environ Microbiol	10.1128/AEM.02028-13	2013	*
Enzymology	Ammonia oxidation kinetics and temperature sensitivity of a natural marine community dominated by Archaea.	Horak RE, Qin W, Schauer AJ, Armbrust EV, Ingalls AE, Moffett JW, Stahl DA, Devol AH	ISME J	10.1038/ismej.2013.75	2013	*
Phylogeny	Life in the dark: metagenomic evidence that a microbial slime community is driven by inorganic nitrogen metabolism.	Tetu SG, Breakwell K, Elbourne LD, Holmes AJ, Gillings MR, Paulsen IT	ISME J	10.1038/ismej.2013.14	2013	*
Metabolism	Mimicking the oxygen minimum zones: stimulating interaction of aerobic archaeal and anaerobic bacterial ammonia oxidizers in a laboratory-scale model system.	Yan J, Haaijer SC, Op den Camp HJ, van Niftrik L, Stahl DA, Konneke M, Rush D, Sinninghe Damste JS, Hu YY, Jetten MS	Environ Microbiol	10.1111/j.1462-2920.2012.02894.x	2012	*
Metabolism	Metagenomic analysis of a complex marine planktonic thaumarchaeal community from the Gulf of Maine.	Tully BJ, Nelson WC, Heidelberg JF	Environ Microbiol	10.1111/j.1462-2920.2011.02628.x	2011	*
Metabolism	Ammonia-oxidizing bacteria dominates over ammonia-oxidizing archaea in a saline nitrification reactor under low DO and high nitrogen loading.	Ye L, Zhang T	Biotechnol Bioeng	10.1002/bit.23211	2011	*
Metabolism	Nitrogen metabolism and kinetics of ammonia-oxidizing archaea.	Martens-Habbena W, Stahl DA	Methods Enzymol	10.1016/B978-0-12-386489-5.00019-1	2011	*
Metabolism	Genomic signatures of fifth autotrophic carbon assimilation pathway in bathypelagic Crenarchaeota.	La Cono V, Smedile F, Ferrer M, Golyshin PN, Giuliano L, Yakimov MM	Microb Biotechnol	10.1111/j.1751-7915.2010.00186.x	2010	*
Metabolism	Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea.	Walker CB, de la Torre JR, Klotz MG, Urakawa H, Pinel N, Arp DJ, Brochier-Armanet C, Chain PS, Chan PP, Gollabgir A, Hemp J, Hugler M, Karr EA, Konneke M, Shin M, Lawton TJ, Lowe T, Martens-Habbena W, Sayavedra-Soto LA, Lang D, Sievert SM, Rosenzweig AC, Manning G, Stahl DA	Proc Natl Acad Sci U S A	10.1073/pnas.0913533107	2010	*
Phylogeny	Nitrososphaera viennensis gen. nov., sp. nov., an aerobic and mesophilic, ammonia-oxidizing archaeon from soil and a member of the archaeal phylum Thaumarchaeota.	Stieglmeier M, Klingl A, Alves RJE, Rittmann SKR, Melcher M, Leisch N, Schleper C	Int J Syst Evol Microbiol	10.1099/ijs.0.063172-0	2014	*
Phylogeny	Low genome content diversity of marine planktonic Thaumarchaeota.	Luo H, Sun Y, Hollibaugh JT, Moran MA	Environ Microbiol Rep	10.1111/1758-2229.12417	2016	*
Metabolism	Enrichment of a novel marine ammonia-oxidizing archaeon obtained from sand of an eelgrass zone.	Matsutani N, Nakagawa T, Nakamura K, Takahashi R, Yoshihara K, Tokuyama T	Microbes Environ	10.1264/jsme2.me10156	2011	*
Phylogeny	Metatranscriptomic analysis of ammonia-oxidizing organisms in an estuarine bacterioplankton assemblage.	Hollibaugh JT, Gifford S, Sharma S, Bano N, Moran MA	ISME J	10.1038/ismej.2010.172	2010	*
Metabolism	Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria.	Martens-Habbena W, Berube PM, Urakawa H, de la Torre JR, Stahl DA	Nature	10.1038/nature08465	2009	*
	An evidence of laccases in archaea.	Sharma KK, Kuhad RC	Indian J Microbiol	10.1007/s12088-009-0039-4	2009	*
	Distribution and Oxidation Rates of Ammonia-Oxidizing Archaea Influenced by the Coastal Upwelling off Eastern Hainan Island.	Liu H, Zhou P, Cheung S, Lu Y, Liu H, Jing H	Microorganisms	10.3390/microorganisms10050952	2022	*
	A Novel Approach to Characterize the Lipidome of Marine Archaeon Nitrosopumilus maritimus by Ion Mobility Mass Spectrometry.	Law KP, He W, Tao J, Zhang C	Front Microbiol	10.3389/fmicb.2021.735878	2021	*
	Characterization of the Exometabolome of Nitrosopumilus maritimus SCM1 by Liquid Chromatography-Ion Mobility Mass Spectrometry.	Law KP, He W, Tao J, Zhang C	Front Microbiol	10.3389/fmicb.2021.658781	2021	*
	A Purple Cupredoxin from Nitrosopumilus maritimus Containing a Mononuclear Type 1 Copper Center with an Open Binding Site.	Hosseinzadeh P, Tian S, Marshall NM, Hemp J, Mullen T, Nilges MJ, Gao YG, Robinson H, Stahl DA, Gennis RB, Lu Y	J Am Chem Soc	10.1021/jacs.5b13128	2016	*

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 )

#44010

Wei Qin, Katherine R. Heal, Rasika Ramdasi, Julia N. Kobelt, Willm Martens-Habbena, Anthony D. Bertagnolli, Shady A. Amin, Christopher B. Walker, Hidetoshi Urakawa, Martin Könneke, Allan H. Devol, James W. Moffett, E. Virginia Armbrust, Grant J. Jensen, Anitra E. Ingalls, David A. Stahl: Nitrosopumilus maritimus gen. nov., sp. nov., Nitrosopumilus cobalaminigenes sp. nov., Nitrosopumilus oxyclinae sp. nov., and Nitrosopumilus ureiphilus sp. nov., four marine ammonia-oxidizing archaea of the phylum Thaumarchaeota. IJSEM 67: 5067 - 5079 2017 ( DOI 10.1099/ijsem.0.002416 , PubMed 29034851 )

#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 .

* These data were automatically processed and therefore are not curated

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