Strain identifier

BacDive ID: 136703

Type strain: Yes

Species: Haematobacter massiliensis

Strain Designation: 9

Strain history: CIP <- 2002, G. Greub, Timone Hosp., Marseille, France: strain 9

NCBI tax ID(s): 195105 (species)

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General

@ref: 36214

BacDive-ID: 136703

keywords: genome sequence, Bacteria, microaerophile, mesophilic, Gram-negative, rod-shaped

description: Haematobacter massiliensis 9 is a microaerophile, mesophilic, Gram-negative bacterium of the family Paracoccaceae.

NCBI tax id

  • NCBI tax id: 195105
  • Matching level: species

strain history

@refhistory
362142002, G. Greub, Lab. Raoult, Marseille, France: strain 9
36214CIP <- 2002, G. Greub, Timone Hosp., Marseille, France: strain 9

doi: 10.13145/bacdive136703.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Paracoccaceae
  • genus: Haematobacter
  • species: Haematobacter massiliensis
  • full scientific name: Haematobacter massiliensis (Greub and Raoult 2006) Helsel et al. 2007

  • synonyms

    • @ref: 20215
    • synonym: Rhodobacter massiliensis

@ref: 36214

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Haematobacter

species: Haematobacter massiliensis

strain designation: 9

type strain: yes

Morphology

cell morphology

  • @ref: 36214
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 57936
  • incubation period: 3 days

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
36214MEDIUM 23 - for Afipia and LegionellayesDistilled water make up to (1000.000 ml);Legionella agar (37.000 g);Legionella - enrichment mixture (10.000 ml)
36214CIP Medium 23yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=23

culture temp

@refgrowthtypetemperaturerange
36214positivegrowth37mesophilic
36214positivegrowth5-37
36214nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
57936microaerophile
36214facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
36214NaClpositivegrowth0-4 %
36214NaClnogrowth6 %
36214NaClnogrowth8 %
36214NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3621416947citrate-carbon source
362144853esculin-hydrolysis
3621417234glucose-fermentation
3621417716lactose-fermentation
3621417632nitrate-reduction
3621416301nitrite-reduction
36214132112sodium thiosulfate-builds gas from
3621417234glucose-degradation
3621417632nitrate-respiration

antibiotic resistance

  • @ref: 36214
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 36214
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
3621415688acetoin-
3621417234glucose-

enzymes

@refvalueactivityec
36214oxidase+
36214beta-galactosidase-3.2.1.23
36214alcohol dehydrogenase-1.1.1.1
36214gelatinase-
36214amylase-
36214DNase-
36214caseinase-3.4.21.50
36214catalase+1.11.1.6
36214tween esterase-
36214gamma-glutamyltransferase+2.3.2.2
36214lecithinase-
36214lipase-
36214lysine decarboxylase-4.1.1.18
36214ornithine decarboxylase-4.1.1.17
36214phenylalanine ammonia-lyase-4.3.1.24
36214protease-
36214tryptophan deaminase-
36214urease+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
36214--++-+--------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
36214++--+--------------------------+-----+----------++-----------++++++--------+--++++++---+++++-------

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample typeisolation date
36214MarseilleFranceFRAEurope
57936MarseilleFranceFRAEuropeHuman nose (isolated by amoebal co-culture)
36214MarseilleFranceFRAEuropeHuman, Nose2001

isolation source categories

Cat1Cat2Cat3
#Host Body-Site#Organ#Nose
#Host#Protozoa#Protist
#Engineered#Laboratory#Simulated communities
#Host#Human

Safety information

risk assessment

  • @ref: 36214
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Haematobacter massiliensis CCUG 47968GCA_000740795contigncbi195105
66792Haematobacter massiliensis strain CCUG 47968195105.32wgspatric195105
66792Haematobacter massiliensis CCUG 479682600255081draftimg195105

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno68.831no
gram-positiveno96.889no
anaerobicno97.838yes
aerobicyes86.064yes
halophileno80.811no
spore-formingno95.168no
glucose-utilyes77.673no
flagellatedno94.211no
thermophileno94.417no
glucose-fermentno91.347no

External links

@ref: 36214

culture collection no.: CIP 107725, CCUG 47968

straininfo link

  • @ref: 93795
  • straininfo: 111224

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny14596900Rhodobacter massiliensis sp. nov., a new amoebae-resistant species isolated from the nose of a patient.Greub G, Raoult DRes Microbiol10.1016/j.resmic.2003.08.0022003Acanthamoeba/*microbiology, Animals, Humans, Nose/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacter/classification/genetics/*isolation & purificationPathogenicity
Phylogeny17287332Identification of "Haematobacter," a new genus of aerobic Gram-negative rods isolated from clinical specimens, and reclassification of Rhodobacter massiliensis as "Haematobacter massiliensis comb. nov.".Helsel LO, Hollis D, Steigerwalt AG, Morey RE, Jordan J, Aye T, Radosevic J, Jannat-Khah D, Thiry D, Lonsway DR, Patel JB, Daneshvar MI, Levett PNJ Clin Microbiol10.1128/JCM.01188-062007Anti-Bacterial Agents/pharmacology, Bacteremia/*microbiology, Bacterial Typing Techniques, Base Composition, Base Sequence, Carbohydrate Metabolism, DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Enzymes/analysis, Esculin/metabolism, Fatty Acids/analysis, Gelatin/metabolism, Humans, Microbial Sensitivity Tests, Molecular Sequence Data, Movement, Nitrates/metabolism, Nitrites/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacter/*classification/cytology/isolation & purification/physiology, Rhodobacteraceae/*classification/cytology/isolation & purification/physiology, TemperatureMetabolism
Phylogeny24135316Paenirhodobacter enshiensis gen. nov., sp. nov., a non-photosynthetic bacterium isolated from soil, and emended descriptions of the genera Rhodobacter and Haematobacter.Wang D, Liu H, Zheng S, Wang GInt J Syst Evol Microbiol10.1099/ijs.0.050351-02013Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacter/classification, Rhodobacteraceae/*classification/genetics/isolation & purification, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryGenetics
Phylogeny31613741Solirhodobacter olei gen. nov., sp. nov., a nonphotosynthetic bacterium isolated from oil-contaminated soil.Chu C, Liu B, Lian Z, Zheng H, Chen C, Yue Z, Li L, Sun ZInt J Syst Evol Microbiol10.1099/ijsem.0.0037952020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/isolation & purification, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
36214Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107725Collection of Institut Pasteur (CIP 107725)
57936Curators of the CCUGhttps://www.ccug.se/strain?id=47968Culture Collection University of Gothenburg (CCUG) (CCUG 47968)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
68382Automatically annotated from API zym
93795Reimer, 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 identifiers10.60712/SI-ID111224.1