Strain identifier

BacDive ID: 11031

Type strain: Yes

Species: Rhodococcus maanshanensis

Strain Designation: M712

Strain history: CIP <- 2003, JCM <- 2001, Z. Liu: strain M712

NCBI tax ID(s): 1219019 (strain), 183556 (species)

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General

@ref: 11972

BacDive-ID: 11031

DSM-Number: 44675

keywords: genome sequence, 16S sequence, obligate aerobe, mesophilic

description: Rhodococcus maanshanensis M712 is an obligate aerobe, mesophilic prokaryote that was isolated from soil sample.

NCBI tax id

NCBI tax idMatching level
1219019strain
183556species

strain history

@refhistory
11972<- M. Goodfellow, JCM <- JCM <- Z. Liu; M712
67770Z. Liu M712.
120727CIP <- 2003, JCM <- 2001, Z. Liu: strain M712

doi: 10.13145/bacdive11031.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • genus: Rhodococcus
  • species: Rhodococcus maanshanensis
  • full scientific name: Rhodococcus maanshanensis Zhang et al. 2002

@ref: 11972

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus maanshanensis

full scientific name: Rhodococcus maanshanensis Zhang et al. 2002 emend. Nouioui et al. 2018

strain designation: M712

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no93.912
69480100positive
120727nopositiverod-shaped

colony morphology

  • @ref: 120727

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11972TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
33168MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120727CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
120727CIP Medium 116yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=116

culture temp

@refgrowthtypetemperaturerange
11972positivegrowth28mesophilic
33168positivegrowth30mesophilic
67770positivegrowth28mesophilic
120727positivegrowth10-30
120727nogrowth37mesophilic
120727nogrowth41thermophilic
120727nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120727
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.658

halophily

@refsaltgrowthtested relationconcentration
120727NaClpositivegrowth0-4 %
120727NaClnogrowth6 %
120727NaClnogrowth8 %
120727NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-8(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12072716947citrate-carbon source
1207274853esculin+hydrolysis
120727606565hippurate+hydrolysis
12072717632nitrate+reduction
12072716301nitrite-reduction
12072717632nitrate-respiration

antibiotic resistance

  • @ref: 120727
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 120727
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12072715688acetoin-
12072717234glucose-

enzymes

@refvalueactivityec
120727oxidase-
120727beta-galactosidase+3.2.1.23
120727alcohol dehydrogenase-1.1.1.1
120727gelatinase-
120727amylase-
120727DNase-
120727caseinase-3.4.21.50
120727catalase+1.11.1.6
120727tween esterase+
120727gamma-glutamyltransferase-2.3.2.2
120727lecithinase+
120727lipase-
120727lysine decarboxylase-4.1.1.18
120727ornithine decarboxylase-4.1.1.17
120727phenylalanine ammonia-lyase-4.3.1.24
120727protease+
120727tryptophan deaminase-
120727urease+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
120727-+++-++---++---++---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120727-+-----------------------------+-----------------+----------------------+------++---+---+-------+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11972soil sampleAnhui Province, Maanshan MountainChinaCHNAsia
67770SoilMaanshan Mountain, Anhui ProvinceChinaCHNAsia
120727Environment, SoilMaanshan mountain, AnhuiChinaCHNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_3263.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_181;97_445;98_2500;99_3263&stattab=map
  • Last taxonomy: Rhodococcus
  • 16S sequence: KF410342
  • Sequence Identity:
  • Total samples: 4647
  • soil counts: 2840
  • aquatic counts: 421
  • animal counts: 242
  • plant counts: 1144

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
119721Risk group (German classification)
1207271Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Rhodococcus maanshanensis strain DSM 44675 16S ribosomal RNA gene, partial sequenceKF4103421369ena183556
11972Rhodococcus maanshanensis 16S ribosomal RNA gene, partial sequenceAF4165661411ena183556

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rhodococcus maanshanensis NBRC 1006101219019.3wgspatric1219019
66792Rhodococcus maanshanensis strain DSM 44675183556.3wgspatric183556
66792Rhodococcus maanshanensis DSM 446752675903023draftimg183556
67770Rhodococcus maanshanensis NBRC 100610GCA_001894865contigncbi1219019
67770Rhodococcus maanshanensis DSM 44675GCA_900109405contigncbi183556

GC content

@refGC-contentmethod
1197266.2
6777069.2genome sequence analysis
6777066.2thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno63no
motileno94.531no
gram-positiveyes85.373no
anaerobicno99.157no
aerobicyes89.941no
halophileno93.911no
spore-formingno61.076no
glucose-utilyes87.536no
flagellatedno97.683no
thermophileno99.198yes
glucose-fermentno89.453no

External links

@ref: 11972

culture collection no.: DSM 44675, AS 4.1720, CIP 107806, JCM 11374, BCRC 16384, CGMCC 4.1720, KCTC 9961, NBRC 100610

straininfo link

  • @ref: 80284
  • straininfo: 100907

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12508878Rhodococcus maanshanensis sp. nov., a novel actinomycete from soil.Zhang J, Zhang Y, Xiao C, Liu Z, Goodfellow MInt J Syst Evol Microbiol10.1099/00207713-52-6-21212002Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Microscopy, Electron, Scanning, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rhodococcus/*classification/genetics/isolation & purification/metabolism, Soil MicrobiologyGenetics
Metabolism28188209Novel Three-Component Phenazine-1-Carboxylic Acid 1,2-Dioxygenase in Sphingomonas wittichii DP58.Zhao Q, Hu HB, Wang W, Huang XQ, Zhang XHAppl Environ Microbiol10.1128/AEM.00133-172017Dioxygenases/genetics/*metabolism, Escherichia coli/genetics/metabolism, Gene Expression, Gene Expression Profiling, Multienzyme Complexes/genetics/metabolism, Phenazines/metabolism, Pseudomonas putida/genetics/metabolism, Recombinant Proteins/genetics/isolation & purification/*metabolism, Sequence Homology, Amino Acid, Sphingomonas/*enzymology/genetics/isolation & purificationEnzymology
Phylogeny30467662Rhodococcus daqingensis sp. nov., isolated from petroleum-contaminated soil.Wang L, Zhang L, Zhang X, Zhang S, Yang L, Yuan H, Chen J, Liang C, Huang W, Liu J, Zhao Y, Yang QAntonie Van Leeuwenhoek10.1007/s10482-018-1201-y2018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Petroleum/*analysis/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodococcus/classification/genetics/*isolation & purification/metabolism, Soil/chemistry, *Soil MicrobiologyMetabolism
Phylogeny32375931Rhodococcus oryzae sp. nov., a novel actinobacterium isolated from rhizosphere soil of rice (Oryza sativa L.).Li C, Cao P, Jiang M, Hou Y, Du C, Xiang W, Zhao J, Wang XInt J Syst Evol Microbiol10.1099/ijsem.0.0041712020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Oryza/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Rhodococcus/*classification/isolation & purification, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11972Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44675)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44675
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
33168Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5281
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)
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
80284Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100907.1StrainInfo: A central database for resolving microbial strain identifiers
120727Curators of the CIPCollection of Institut Pasteur (CIP 107806)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107806