Strain identifier

BacDive ID: 11270

Type strain: Yes

Species: Marinomonas mediterranea

Strain Designation: MMB-1

Strain history: CIP <- 1999, A. Sanchez Amat, Dpt Genetica y Microbiol., Fac. Biologia, Murcia, Spain: strain MMB-1 <- M. Jansa

NCBI tax ID(s): 119864 (species)

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General

@ref: 17262

BacDive-ID: 11270

DSM-Number: 23531

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, motile, rod-shaped

description: Marinomonas mediterranea MMB-1 is a mesophilic, Gram-negative, motile bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 119864
  • Matching level: species

strain history

@refhistory
17262<- CECT <- A. Sanchez-Amat, Univ. Murcia, Spain <- M. Jansá
67770IAM 14944 <-- ATCC 700492 <-- A. S. Amat MMB-1.
120872CIP <- 1999, A. Sanchez Amat, Dpt Genetica y Microbiol., Fac. Biologia, Murcia, Spain: strain MMB-1 <- M. Jansa

doi: 10.13145/bacdive11270.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Oceanospirillales
  • family: Oceanospirillaceae
  • genus: Marinomonas
  • species: Marinomonas mediterranea
  • full scientific name: Marinomonas mediterranea Solano and Sanchez-Amat 1999

@ref: 17262

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Oceanospirillaceae

genus: Marinomonas

species: Marinomonas mediterranea

full scientific name: Marinomonas mediterranea Solano and Sanchez-Amat 1999

strain designation: MMB-1

type strain: yes

Morphology

cell morphology

  • @ref: 120872
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17262MARINE BROTH (ROTH CP73) (DSMZ Medium 514f)yeshttps://mediadive.dsmz.de/medium/514fName: MARINE BROTH (ROTH CP73) (DSMZ Medium 514f) Composition: NaCl 19.4 g/l Agar 15.0 g/l MgCl2 8.8 g/l Peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
38610Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
120872CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
17262positivegrowth25mesophilic
38610positivegrowth25mesophilic
67770positivegrowth25mesophilic
120872positivegrowth15-30
120872nogrowth5psychrophilic
120872nogrowth37mesophilic
120872nogrowth41thermophilic

Physiology and metabolism

compound production

  • @ref: 67770
  • compound: Polyphenol oxidases (PPOs)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1208724853esculin-hydrolysis
12087217632nitrate+reduction
12087216301nitrite-reduction

metabolite production

  • @ref: 120872
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12087215688acetoin-
12087217234glucose-

enzymes

@refvalueactivityec
120872oxidase-
120872alcohol dehydrogenase-1.1.1.1
120872gelatinase-
120872amylase-
120872caseinase-3.4.21.50
120872catalase-1.11.1.6
120872tween esterase+
120872gamma-glutamyltransferase+2.3.2.2
120872lecithinase-
120872lysine decarboxylase-4.1.1.18
120872ornithine decarboxylase-4.1.1.17
120872phenylalanine ammonia-lyase-4.3.1.24
120872protease-
120872tryptophan deaminase-
120872urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120872-+-+-+----++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120872++--+-------------+----------------+---------+---------+----------------+------++---------++------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
17262seawaterMediterranean Sea, south-eastern Spanish coast, region of MurciaSpainESPEurope
67770Seawater from the Mediterranean coast of southern Spain
120872Environment, Mediterranean seaMurciaSpainESPEurope1995

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_3768.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_113;96_1936;97_2328;98_2872;99_3768&stattab=map
  • Last taxonomy: Marinomonas mediterranea
  • 16S sequence: AB681908
  • Sequence Identity:
  • Total samples: 616
  • soil counts: 43
  • aquatic counts: 524
  • animal counts: 24
  • plant counts: 25

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
172621Risk group (German classification)
1208721Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
17262Marinomonas mediterranea strain MMB-1 16S ribosomal RNA gene, complete sequenceAF0630271534ena717774
67770Marinomonas mediterranea gene for 16S rRNA, partial sequence, strain: NBRC 103028AB6819081421ena119864

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinomonas mediterranea MMB-1GCA_000192865completencbi717774
66792Marinomonas mediterranea MMB-1717774.3completepatric717774
66792Marinomonas mediterranea MMB-1, ATCC 7004922506210002completeimg717774
66792Marinomonas mediterranea MMB-1GCA_028472825completencbi717774

GC content

@refGC-contentmethod
1726246.3±0.9high performance liquid chromatography (HPLC)
6777046.3high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes94.719no
flagellatedyes93.046no
gram-positiveno98.271no
anaerobicno98.487no
aerobicyes91.727no
halophileyes74.756no
spore-formingno92.627no
glucose-utilyes90.446no
thermophileno99.786yes
glucose-fermentno79.785no

External links

@ref: 17262

culture collection no.: DSM 23531, ATCC 700492, CECT 4803, JCM 21426, CIP 106128, IAM 14944, NBRC 103028

straininfo link

  • @ref: 80503
  • straininfo: 43956

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10425786Studies on the phylogenetic relationships of melanogenic marine bacteria: proposal of Marinomonas mediterranea sp. nov.Solano F, Sanchez-Amat AInt J Syst Bacteriol10.1099/00207713-49-3-12411999Bacterial Typing Techniques, Catechol Oxidase/*metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Gram-Negative Bacteria/*classification/cytology/*enzymology/genetics, Melanins/*metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNAMetabolism
Enzymology10850991Marinomonas mediterranea MMB-1 transposon mutagenesis: isolation of a multipotent polyphenol oxidase mutant.Solano F, Lucas-Elio P, Fernandez E, Sanchez-Amat AJ Bacteriol10.1128/JB.182.13.3754-3760.20002000Base Sequence, DNA Transposable Elements, DNA, Bacterial, Gram-Negative Bacteria/*enzymology/genetics, Laccase, Molecular Sequence Data, Monophenol Monooxygenase/*genetics/metabolism, Mutagenesis, Insertional, Oxidoreductases/genetics/metabolism, Sequence Analysis, DNAGenetics
Pathogenicity16903830Influence of lipopolysaccharides and lipids A from some marine bacteria on spontaneous and Escherichia coli LPS-induced TNF-alpha release from peripheral human blood cells.Vorobeva EV, Krasikova IN, Solov'eva TFBiochemistry (Mosc)10.1134/s000629790607008x2006Animals, Dose-Response Relationship, Drug, Endotoxins/antagonists & inhibitors, Enzyme-Linked Immunosorbent Assay, Escherichia coli/cytology/metabolism, Gram-Negative Bacteria/cytology/*metabolism, Humans, Leukocytes, Mononuclear/drug effects/*immunology, Lipid A/chemistry/*pharmacology/toxicity, Lipopolysaccharides/antagonists & inhibitors/*pharmacology/toxicity, Mice, Tumor Necrosis Factor-alpha/*metabolismMetabolism
Phylogeny19648336Taxonomic study of Marinomonas strains isolated from the seagrass Posidonia oceanica, with descriptions of Marinomonas balearica sp. nov. and Marinomonas pollencensis sp. nov.Espinosa E, Marco-Noales E, Gomez D, Lucas-Elio P, Ordax M, Garcias-Bonet N, Duarte CM, Sanchez-Amat AInt J Syst Evol Microbiol10.1099/ijs.0.008607-02009Alismatales/*microbiology, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Marinomonas/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyMetabolism
Enzymology20599635Determination of plasma and serum L-lysine using L-lysine epsilon-oxidase from Marinomonas mediterranea NBRC 103028(T).Matsuda M, Asano YAnal Biochem10.1016/j.ab.2010.06.0452010Amino Acid Oxidoreductases/isolation & purification/*metabolism, Biocatalysis, Blood Chemical Analysis/*methods, Humans, Lysine/*blood/*metabolism, Marinomonas/*enzymology, Oxidation-Reduction, Substrate SpecificityMetabolism
Enzymology22194352Purification and characterization of antibacterial compounds of Pseudoalteromonas flavipulchra JG1.Yu M, Wang J, Tang K, Shi X, Wang S, Zhu WM, Zhang XHMicrobiology (Reading)10.1099/mic.0.055970-02011Anti-Bacterial Agents/chemistry/*isolation & purification/*pharmacology, Bacterial Proteins/chemistry/genetics/isolation & purification/pharmacology, Chromatography, Liquid, DNA, Bacterial/chemistry/genetics, Magnetic Resonance Spectroscopy, Mass Spectrometry, Microbial Sensitivity Tests, Molecular Sequence Data, Molecular Weight, Pseudoalteromonas/*chemistry, Sequence Analysis, DNA, Sequence Homology, Amino Acid, Vibrio/drug effects/growth & developmentPhylogeny
Genetics22675599Complete genome sequence of the melanogenic marine bacterium Marinomonas mediterranea type strain (MMB-1(T)).Lucas-Elio P, Goodwin L, Woyke T, Pitluck S, Nolan M, Kyrpides NC, Detter JC, Copeland A, Teshima H, Bruce D, Detter C, Tapia R, Han S, Land ML, Ivanova N, Mikhailova N, Johnston AW, Sanchez-Amat AStand Genomic Sci10.4056/sigs.25457432012
Phylogeny26917774Direct CRISPR spacer acquisition from RNA by a natural reverse transcriptase-Cas1 fusion protein.Silas S, Mohr G, Sidote DJ, Markham LM, Sanchez-Amat A, Bhaya D, Lambowitz AM, Fire AZScience10.1126/science.aad42342016Bacterial Proteins/classification/genetics/*metabolism, Base Sequence, CRISPR-Associated Proteins/classification/genetics/*metabolism, *CRISPR-Cas Systems, *Clustered Regularly Interspaced Short Palindromic Repeats, DNA/genetics, Introns/genetics, Marinomonas/*enzymology/genetics, Molecular Sequence Data, Mutant Chimeric Proteins/classification/genetics/*metabolism, Phylogeny, Protein Structure, Tertiary, RNA/genetics/*metabolism, RNA Splicing, RNA-Directed DNA Polymerase/classification/genetics/*metabolismMetabolism
Metabolism34663886A histidine kinase and a response regulator provide phage resistance to Marinomonas mediterranea via CRISPR-Cas regulation.Lucas-Elio P, Molina-Quintero LR, Xu H, Sanchez-Amat ASci Rep10.1038/s41598-021-99740-92021Bacterial Proteins/metabolism, Bacteriophages/*genetics, CRISPR-Cas Systems, Gene Expression, Histidine Kinase/genetics/*metabolism, Marinomonas/genetics/*metabolism, RNA-Binding Proteins/metabolism, Repressor Proteins/genetics, Transcription Factors/metabolism
Enzymology34914355Ecological Role of 6OH-BDE47: Is It a Chemical Offense Molecule Mediated by Enoyl-ACP Reductases?Sun J, Barrett H, Hall DR, Kutarna S, Wu X, Wang Y, Peng HEnviron Sci Technol10.1021/acs.est.1c057182021Anti-Bacterial Agents, *Escherichia coli, Halogenated Diphenyl Ethers/chemistry, *Oxidoreductases, RNA, Ribosomal, 16SPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17262Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23531)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23531
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
38610Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18225
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
80503Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID43956.1StrainInfo: A central database for resolving microbial strain identifiers
120872Curators of the CIPCollection of Institut Pasteur (CIP 106128)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106128