Strain identifier

BacDive ID: 3198

Type strain: Yes

Species: Corynebacterium appendicis

Strain history: DSM 44531 <-- A. F. Yassin IMMIB R-3491.

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 7 (current version):
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 7 (current version)

General

@ref: 11737

BacDive-ID: 3198

DSM-Number: 44531

keywords: Gram-positive, mesophilic, microaerophile, Bacteria, 16S sequence, genome sequence, pleomorphic-shaped, human pathogen

description: Corynebacterium appendicis DSM 44531 is a microaerophile, mesophilic, Gram-positive human pathogen that was isolated from abdominal swab of a patient with appendicitis.

NCBI tax id

NCBI tax idMatching level
163202species
1161099strain

strain history

doi: 10.13145/bacdive3198.20220920.7

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Corynebacteriaceae
  • genus: Corynebacterium
  • species: Corynebacterium appendicis
  • full scientific name: Corynebacterium appendicis Yassin et al. 2002

@ref: 11737

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium appendicis

full scientific name: Corynebacterium appendicis Yassin et al. 2002 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

  • @ref: 23187
  • gram stain: positive
  • cell shape: pleomorphic-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium usedtype of hemolysiscolony size
20069Beige (1001)10-14 daysISP 2
20069Beige (1001)10-14 daysISP 3
20069Beige (1001)10-14 daysISP 4
20069Beige (1001)10-14 daysISP 5
20069Beige (1001)10-14 daysISP 6
20069Beige (1001)10-14 daysISP 7
23187greyish2 daysColumbia blood agar supplemented with 5% sheep bloodgamma<0.5 mm

multicellular morphology

@refforms multicellular complexmedium name
20069noISP 2
20069noISP 3
20069noISP 4
20069noISP 5
20069noISP 6
20069noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11737TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://bacmedia.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
11737COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://bacmedia.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
20069ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
20069ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
20069ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
20069ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
20069ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
20069ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
23187Columbia blood agar supplemented with 5% sheep bloodyes
40563MEDIUM 45 - for Columbia agar with sheep bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)

culture temp

@refgrowthtypetemperaturerange
20069positiveoptimum37mesophilic
11737positivegrowth37mesophilic
40563positivegrowth37mesophilic
58075positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
11737microaerophile
23187facultative anaerobe
58075microaerophile

spore formation

  • @ref: 23187
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2006917234glucose+
2006922599arabinose-
2006917992sucrose-
2006918222xylose-
2006917268myo-inositol+
2006929864mannitol+
2006928757fructose-
2006926546rhamnose-
2006916634raffinose-
2006962968cellulose+
2318722599arabinose-builds acid from
2318722605arabinitol-builds acid from
2318717057cellobiose-builds acid from
2318728087glycogen-builds acid from
2318715443inulin-builds acid from
2318717716lactose-builds acid from
2318729864mannitol-builds acid from
231876731melezitose-builds acid from
2318728053melibiose-builds acid from
2318727941pullulan-builds acid from
2318716634raffinose-builds acid from
2318726546rhamnose-builds acid from
2318733942ribose-builds acid from
2318717814salicin-builds acid from
2318730911sorbitol-builds acid from
2318717992sucrose-builds acid from
2318733954tagatose-builds acid from
2318727082trehalose-builds acid from
2318718222xylose-builds acid from
2318727897tryptophan-energy source
231874853esculin-hydrolysis
231875291gelatin-hydrolysis
23187606565hippurate-hydrolysis
2318728017starch-hydrolysis
2318717234glucose+builds acid from
2318717306maltose+builds acid from
6837928087glycogen-fermentation
6837917992sucrose-fermentation
6837917716lactose-fermentation
6837917306maltose-fermentation
6837916899D-mannitol-fermentation
6837965327D-xylose-fermentation
6837916988D-ribose-fermentation
6837917634D-glucose-fermentation
683795291gelatin-hydrolysis
6837916199urea+hydrolysis
683794853esculin-hydrolysis
6837917632nitrate-reduction

metabolite production

  • @ref: 23187
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 23187
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
23187acid phosphatase-3.1.3.2
23187alkaline phosphatase+3.1.3.1
23187alpha-fucosidase-3.2.1.51
23187alpha-galactosidase-3.2.1.22
23187alpha-glucosidase-3.2.1.20
23187alpha-mannosidase-3.2.1.24
23187arginine dihydrolase-3.5.3.6
23187beta-galactosidase-3.2.1.23
23187beta-glucosidase-3.2.1.21
23187beta-glucuronidase-3.2.1.31
23187catalase+1.11.1.6
23187chymotrypsin-3.4.4.5
23187cystine arylamidase-3.4.11.3
23187esterase (C 4)-
23187esterase lipase (C 8)-
23187glycyl tryptophan arylamidase-
23187leucine arylamidase-3.4.11.1
23187lipase (C 14)-
23187N-acetyl-beta-glucosaminidase-3.2.1.52
23187naphthol-AS-BI-phosphohydrolase-
23187nitrate reductase-1.7.99.4
23187pyrazinamidase+3.5.1.B15
23187pyroglutamic acid arylamidase-
23187pyrrolidonyl arylamidase-3.4.19.3
23187trypsin-3.4.21.4
23187tryptophan deaminase-4.1.99.1
23187urease+3.5.1.5
23187valine arylamidase-
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
68379gelatinase-
68379urease+3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
20069---------+---------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
20069-++-+-++-----------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11737abdominal swab of a patient with appendicitisHamburgGermanyDEUEurope
23187abdominal swab of a patient with appendicitis accompanied with abscess formation
58075Human abdominal swab,appendicitis and abscessGermanyDEUEurope
67770Abdominal swab of a patient with appendicitis with abscess formation

isolation source categories

Cat1Cat2Cat3
#Infection#Patient#Swab
#Host Body-Site#Gastrointestinal tract#Large intestine
#Host Body-Site#Other#Abdomen
#Host Body-Site#Other#Abscess

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
11737yes, in single cases1Risk group (German classification)
200692German classification

Sequence information

16S sequences

  • @ref: 11737
  • description: Corynebacterium appendicis partial 16S rRNA gene, strain DSM 44531T
  • accession: AJ314919
  • length: 1470
  • database: ena
  • NCBI tax ID: 1161099

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium appendicis CIP 107643 DSM 44531GCA_900156665contigncbi1161099
66792Corynebacterium appendicis CIP 107643 strain DSM 445311161099.3wgspatric1161099
66792Corynebacterium appendicis DSM 445312681813517draftimg1161099
66792Corynebacterium appendicis CIP 1076432512047050draftimg1161099
67770Corynebacterium appendicis CIP 107643 strain DSM 44531, whole genome shotgun sequencing projectFTOF00000000ncbi1161099

GC content

@refGC-contentmethod
1173765.8
6777065.7-65.9high performance liquid chromatography (HPLC)
6777064.3genome sequence analysis

External links

@ref: 11737

culture collection no.: DSM 44531, JCM 11765, NRRL B-24151, CCUG 48298, IMMIB R-3491, CIP 107643

straininfo link

@refpassport
20218http://www.straininfo.net/strains/278373
20218http://www.straininfo.net/strains/337431
20218http://www.straininfo.net/strains/322846

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12148623Corynebacterium appendicis sp. nov.Yassin AF, Steiner U, Ludwig WInt J Syst Evol Microbiol10.1099/00207713-52-4-11652002Appendicitis/*microbiology, Bacterial Typing Techniques, Corynebacterium/chemistry/*classification/genetics/metabolism, Corynebacterium Infections/microbiology, DNA, Ribosomal/analysis, Genes, rRNA, Humans, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAPathogenicity
Phylogeny29148360Corynebacterium godavarianum sp. nov., isolated from the Godavari river, India.Jani K, Khare K, Senik S, Karodi P, Vemuluri VR, Bandal J, Shouche Y, Rale V, Sharma AInt J Syst Evol Microbiol10.1099/ijsem.0.0024912017Bacterial Typing Techniques, Base Composition, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Humans, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Religion, Rivers/*microbiology, Sequence Analysis, DNA, *Water MicrobiologyPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11737Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44531)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44531
20069Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44531.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
23187A F Yassin, U Steiner, W Ludwig10.1099/00207713-52-4-1165Corynebacterium appendicis sp. nov.IJSEM 52: 1165-1169 200212148623
40563Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5101
58075Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48298)https://www.ccug.se/strain?id=48298
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/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym