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Strain identifier

BacDive ID: 2614

Type strain: Yes

Species: Romboutsia lituseburensis

Strain Designation: A25K

Strain history: ATCC 25759 <-- L. DS. Smith VPI 2751.

NCBI tax ID(s): 1121325 (strain), 1537 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 453

BacDive-ID: 2614

DSM-Number: 797

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic

description: Romboutsia lituseburensis A25K is an anaerobe, mesophilic bacterium that was isolated from mud.

NCBI tax id

NCBI tax idMatching level
1537species
1121325strain

strain history

doi: 10.13145/bacdive2614.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Romboutsia
  • species: Romboutsia lituseburensis
  • full scientific name: Romboutsia lituseburensis (Laplanche and Saissac 1948) Gerritsen et al. 2014
  • synonyms

    @refsynonym
    20215Clostridium lituseburense
    20215Inflabilis lituseburense

@ref: 453

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Romboutsia

species: Romboutsia lituseburensis

full scientific name: Romboutsia lituseburensis (Laplanche and Saissac 1948) Gerritsen et al. 2014

strain designation: A25K

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 94.07

colony morphology

  • @ref: 46926
  • incubation period: 1 day

Culture and growth conditions

culture medium

  • @ref: 453
  • name: PY + X MEDIUM (DSMZ Medium 104b)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/104b
  • composition: Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
453positivegrowth37mesophilic
46926positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
453anaerobe
46926anaerobe
69480anaerobe96.038

spore formation

  • @ref: 69480
  • spore formation: yes
  • confidence: 86.499

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 91.162

Isolation, sampling and environmental information

isolation

@refsample type
453mud
46926Mud
67770Mud

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Mud (Sludge)

Safety information

risk assessment

  • @ref: 453
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
453[Clostridium] lituseburense strain ATCC 25759 16S ribosomal RNA gene, partial sequenceM591071510ena1121325
67770Romboutsia lituseburensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 1404LC0071061464ena1537

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Romboutsia lituseburensis A25KGCA_900002825scaffoldncbi1537
66792Romboutsia lituseburensis DSM 7971121325.3wgspatric1121325
66792Romboutsia lituseburensis strain A25K1537.3wgspatric1537
66792Romboutsia lituseburensis DSM 7972634166902draftimg1121325
67770Romboutsia lituseburensis DSM 797 DSM 797GCA_900103615scaffoldncbi1121325
66792Klebsiella pneumoniae WCHKP015003GCA_004310745contigpatric573
66792Escherichia coli 50955GCA_025404725contigpatric562

GC content

@refGC-contentmethod
45327.0
6777027thermal denaturation, midpoint method (Tm)

External links

@ref: 453

culture collection no.: DSM 797, ATCC 25759, BCRC 14536, CCUG 18920, JCM 1404, NCIMB 10637, VTT E-021853, VPI 2751

straininfo link

@refpassport
20218http://www.straininfo.net/strains/132042
20218http://www.straininfo.net/strains/104536
20218http://www.straininfo.net/strains/509780
20218http://www.straininfo.net/strains/132041
20218http://www.straininfo.net/strains/171805
20218http://www.straininfo.net/strains/171807
20218http://www.straininfo.net/strains/799103

literature

topicPubmed-IDtitleauthorsjournalyearmeshtopic2DOI
Phylogeny21090252[Identification and metabolism characterization of a Clostridium lituseburense strain isolated from high-altitude soil].Liu Q, Liu H, Deng Y, Hu G, Zhang HWei Sheng Wu Xue Bao2010*Altitude, Base Composition/genetics, Clostridium/classification/*genetics/*isolation & purification, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil MicrobiologyMetabolism
Phylogeny23163427Characterization of a potentially novel 'blown pack' spoilage bacterium isolated from bovine hide.Moschonas G, Bolton DJJ Appl Microbiol2012Abattoirs, Animals, Cattle/microbiology, Clostridium/*classification/growth & development/isolation & purification, Cold Temperature, Fatty Acids/chemistry, *Food Contamination, *Food Microbiology, Food Preservation, Genes, rRNA, Genotype, Ireland, Meat/*microbiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Spores, Bacterial/genetics, VacuumBiotechnology10.1111/jam.12077
Phylogeny25609678Romboutsia sedimentorum sp. nov., isolated from an alkaline-saline lake sediment and emended description of the genus Romboutsia.Wang Y, Song J, Zhai Y, Zhang C, Gerritsen J, Wang H, Chen X, Li Y, Zhao B, Zhao B, Ruan ZInt J Syst Evol Microbiol2015Bacteria, Anaerobic/classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Glycolipids/chemistry, Gram-Positive Endospore-Forming Rods/*classification/genetics/isolation & purification, Lakes/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNAEnzymology10.1099/ijs.0.000079
Metabolism26027356[Anaerobic bacteria involved in the degradation of aromatic sulfonates to methane].Shcherbakova VA, Laurinavichyus KS, Chuvil'skaya NA, Ryzhmanova YV, Akimenko VKPrikl Biokhim Mikrobiol2015Bacteria, Anaerobic/metabolism, Benzenesulfonates/*metabolism, Clostridium/genetics/isolation & purification/*metabolism, Desulfovibrio/genetics/isolation & purification/*metabolism, Methane/*metabolism, Microbial Consortia, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16SPhylogeny10.7868/s0555109915020191
Phylogeny30226461Romboutsia hominis sp. nov., the first human gut-derived representative of the genus Romboutsia, isolated from ileostoma effluent.Gerritsen J, Umanets A, Staneva I, Hornung B, Ritari J, Paulin L, Rijkers GT, de Vos WM, Smidt HInt J Syst Evol Microbiol2018Bacterial Typing Techniques, Base Composition, Clostridiales/*classification/genetics/isolation & purification, Cyclopropanes/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Humans, Ileostomy, Ileum/*microbiology, Netherlands, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAPathogenicity10.1099/ijsem.0.003012

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
453Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 797)https://www.dsmz.de/collection/catalogue/details/culture/DSM-797
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
46926Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 18920)https://www.ccug.se/strain?id=18920
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/
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)