Strain identifier

BacDive ID: 159203

Type strain: Yes

Species: Schaedlerella arabinosiphila

Strain Designation: TLL-A1

Strain history: <- Melissa Zhi Yu Soh, Temasek Life Sciences Laboratory

NCBI tax ID(s): 2044587 (species)

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General

@ref: 66026

BacDive-ID: 159203

DSM-Number: 106076

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, chemoorganotroph, spore-forming, mesophilic, rod-shaped

description: Schaedlerella arabinosiphila TLL-A1 is an anaerobe, chemoorganotroph, spore-forming bacterium that was isolated from fecal Pellet from C57BL/6J mouse.

NCBI tax id

  • NCBI tax id: 2044587
  • Matching level: species

strain history

@refhistory
66026<- M. Z. Y. Soh, Temasek Life Siences Laboratory, Singpore; TLL-A1
67771<- Melissa Zhi Yu Soh, Temasek Life Sciences Laboratory

doi: 10.13145/bacdive159203.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Lachnospiraceae
  • genus: Schaedlerella
  • species: Schaedlerella arabinosiphila
  • full scientific name: Schaedlerella arabinosiphila Soh et al. 2019

@ref: 66026

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Lachnospiraceae

genus: Schaedlerella

species: Schaedlerella arabinosiphila

full scientific name: Schaedlerella arabinosiphila Soh et al. 2019

strain designation: TLL-A1

type strain: yes

Morphology

cell morphology

@refcell shapegram staincell length
67771rod-shaped
67771positive
68228rod-shapedpositive2-5 µm

Culture and growth conditions

culture medium

  • @ref: 66026
  • name: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1203a
  • composition: Name: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) Composition: Fastidious Anaerobe Basal Broth 35.4 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
66026positivegrowth37mesophilic
67771positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
67771anaerobe
68228obligate anaerobe

nutrition type

  • @ref: 68228
  • type: chemoorganotroph

spore formation

  • @ref: 68228
  • spore description: spore staining was not conclusive as only a few cells seem to harbour potential spores
  • spore formation: yes

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6822817992sucrose+growth
6822817057cellobiose+growth
6822817306maltose+growth
6822828053melibiose+growth
6822816634raffinose+growth
6822817716lactose+growth
6822816899D-mannitol+growth
6822828087glycogen+growth
6822875211tannic acid+growth
6822823652dextrin+growth
6822825140maltodextrin+growth
6822815824D-fructose+growth
6822817634D-glucose+growth
6822865327D-xylose+growth
6822812936D-galactose+growth
6822818287L-fucose+growth
6822816988D-ribose+growth
6822817113erythritol+growth
68228506227N-acetyl-D-glucosamine+growth
6822835418n-acetylneuraminate+growth
6822817108D-arabinose+growth
6822830849L-arabinose+growth
6822816000ethanolamine-growth
6822815354choline-growth
6822828017starch-growth
6822862968cellulose-growth
6822816261chitosan-growth
6822815361pyruvate-growth

enzymes

@refvalueactivityec
68228serine arylamidase-
68228glutamyl-glutamate arylamidase-
68228histidine arylamidase-
68228alanine arylamidase-3.4.11.2
68228pyroglutamic acid arylamidase-
68228leucine arylamidase-3.4.11.1
68228phenylalanine arylamidase-
68228proline-arylamidase-3.4.11.5
68228tyrosine arylamidase-
68228leucyl glycin arylamidase-3.4.11.1
68228arginine arylamidase-
68228alkaline phosphatase-3.1.3.1
68228glutamate decarboxylase-4.1.1.15

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentlatitudelongitudeenrichment culture temperature
66026fecal Pellet from C57BL/6J mouseSingaporeSGPAsia1.2943103.777
67771From fecal pellet from C57BL/6J mouseSingaporeSGPAsia
68228faeces of C57BL/6J mice1.29432103.77837

isolation source categories

Cat1Cat2Cat3
#Host Body Product#Gastrointestinal tract#Caecal content
#Host#Mammals#Muridae (Mouse/Rat)

taxonmaps

  • @ref: 69479
  • File name: preview.99_5332.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16;96_2580;97_3162;98_3974;99_5332&stattab=map
  • Last taxonomy: Schaedlerella arabinosiphila subclade
  • 16S sequence: MG182358
  • Sequence Identity:
  • Total samples: 12617
  • soil counts: 93
  • aquatic counts: 68
  • animal counts: 12389
  • plant counts: 67

Sequence information

16S sequences

  • @ref: 66026
  • description: Schaedlerella arabinosiphila strain TLL-A1 16S ribosomal RNA gene, partial sequence
  • accession: MG182358
  • length: 1430
  • database: ena
  • NCBI tax ID: 2044587

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridiaceae bacterium DSM 1060762484868.3wgspatric2044587
67771Schaedlerella arabinosiphila DSM 106076GCA_003885045contigncbi2044587

GC content

@refGC-contentmethod
6602647.9sequence analysis
6822847.9genome sequence analysis
6777147.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes78.457no
gram-positiveyes86.169yes
anaerobicyes99.212no
aerobicno98.704no
halophileno82.516no
spore-formingyes74.545yes
glucose-utilyes91.387yes
flagellatedno62.575no
thermophileno96.264no
glucose-fermentyes69.348no

External links

@ref: 66026

culture collection no.: DSM 106076, KCTC 15657

straininfo link

  • @ref: 111702
  • straininfo: 407519

literature

  • topic: Phylogeny
  • Pubmed-ID: 31502946
  • title: Schaedlerella arabinosiphila gen. nov., sp. nov., a D-arabinose-utilizing bacterium isolated from faeces of C57BL/6J mice that is a close relative of Clostridium species ASF 502.
  • authors: Soh M, Miyake S, Lim A, Ding Y, Seedorf H
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003671
  • year: 2019
  • mesh: Animals, Arabinose/*metabolism, Bacterial Typing Techniques, Base Composition, Clostridiales/*classification/isolation & purification, DNA, Bacterial/genetics, Feces/*microbiology, Mice, Mice, Inbred C57BL/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournal
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
66026Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-106076Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 106076)
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68228Melissa Soh, Sou Miyake, Austin Lim, Yichen Ding and Henning SeedorfSchaedlerella arabinosiphila gen. nov., sp. nov., a D-arabinose-utilizing bacterium isolated from faeces of C57BL/6J mice that is a close relative of Clostridium species ASF 50210.1099/ijsem.0.003671IJSEM 69: 3616-3622 2019
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
111702Reimer, 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-ID407519.1