Strain identifier

BacDive ID: 158632

Type strain: Yes

Species: Chryseobacterium glaciei

Strain history: A. Gulati; CSIR-Inst. of Himalayan Bioresour. Technol., India; IHBB 10212.

NCBI tax ID(s): 1685010 (species)

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General

@ref: 65357

BacDive-ID: 158632

keywords: genome sequence, 16S sequence, Bacteria, Gram-negative, rod-shaped, colony-forming

description: Chryseobacterium glaciei MTCC 12457 is a Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from top-surface soil of a glacier.

NCBI tax id

  • NCBI tax id: 1685010
  • Matching level: species

strain history

  • @ref: 67770
  • history: A. Gulati; CSIR-Inst. of Himalayan Bioresour. Technol., India; IHBB 10212.

doi: 10.13145/bacdive158632.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Weeksellaceae
  • genus: Chryseobacterium
  • species: Chryseobacterium glaciei
  • full scientific name: Chryseobacterium glaciei Pal et al. 2018

@ref: 65357

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Chryseobacterium

species: Chryseobacterium glaciei

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
65357negativerod-shapedno
125438no90.5
125438negative98.5
125439negative99.8

colony morphology

  • @ref: 65357
  • colony color: yellow
  • colony shape: circular
  • incubation period: 2 days
  • medium used: tryptic soy agar

pigmentation

  • @ref: 65357
  • production: yes
  • name: flexirubin-type pigments

Culture and growth conditions

culture medium

@refnamegrowth
65357tryptic soy agaryes
65357MacConkey agarno

culture temp

@refgrowthtypetemperature
65357positivegrowth10-28
65357positiveoptimum25
67770positivegrowth25

culture pH

@refabilitytypepH
65357positivegrowth6-8
65357positiveoptimum6.5-7

Physiology and metabolism

oxygen tolerance

  • @ref: 125439
  • oxygen tolerance: obligate aerobe
  • confidence: 93.8

spore formation

@refspore formationconfidence
65357no
125439no96.9

halophily

  • @ref: 65357
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2 %

observation

  • @ref: 67770
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6535716651(S)-lactate-assimilation
653571 % sodium lactate+assimilation
65357581435-dehydro-D-gluconate-assimilation
6535715963ribitol-assimilation
65357casein+hydrolysis
6535717057cellobiose-assimilation
6535716947citrate-assimilation
6535723399coumarate-assimilation
6535715824D-fructose+assimilation
6535718024D-galacturonic acid+assimilation
6535717634D-glucose-assimilation
6535716024D-mannose-assimilation
6535716024D-mannose+assimilation
6535716523D-serine+assimilation
6535717924D-sorbitol-assimilation
6535716443D-tagatose-assimilation
6535723652dextrin+assimilation
653575291gelatin+assimilation
653575291gelatin+hydrolysis
6535717234glucose-fermentation
6535718403L-arabitol-assimilation
6535717464L-galactonic acid gamma-lactone+assimilation
6535715971L-histidine-assimilation
6535715589L-malate-assimilation
6535762345L-rhamnose+assimilation
6535725094lysine+assimilation
6535715792malonate-assimilation
6535717306maltose-assimilation
6535717306maltose+assimilation
6535744337N-acetyl-L-glutamate+assimilation
6535717632nitrate-reduction
6535718257ornithine+assimilation
6535718394palatinose-assimilation
6535717309pectin+assimilation
6535728044phenylalanine+assimilation
6535730031succinate-assimilation
6535717992sucrose-assimilation
6535727082trehalose-assimilation
6535727082trehalose+assimilation

enzymes

@refvalueactivityec
65357beta-galactosidase-3.2.1.23
65357N-acetyl-beta-glucosaminidase-3.2.1.52
65357glutamyl arylamidase pNA-
65357gamma-glutamyltransferase-2.3.2.2
65357beta-xylosidase-
65357beta-alanine arylamidase pNA-
65357lipase-
65357proline-arylamidase-3.4.11.5
65357beta-N-acetylgalactosaminidase-
65357alpha-galactosidase-3.2.1.22
65357glycin arylamidase-
65357ornithine decarboxylase-4.1.1.17
65357lysine decarboxylase-4.1.1.18
65357beta-glucuronidase-3.2.1.31
65357glu–gly–arg-arylamidase-
65357beta-glucosidase+3.2.1.21
65357tyrosine arylamidase+
65357urease+3.5.1.5
65357alpha-glucosidase+3.2.1.20
65357tripeptide aminopeptidase+3.4.11.4
65357pyrrolidonyl arylamidase-3.4.19.3

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedure
65357top-surface soil of a glacierKunzum Pass located in the cold desert of Lahaul-SpitiIndiaINDAsia32.39877.62911/10 strenght tryptic soy agar3 days28serial soil dilution
67770Glacier near the Kunzum Pass located in the Lahaul-Spiti in the North-Western Himalayas of India

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Glacier
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_6965.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_206;97_2215;98_5117;99_6965&stattab=map
  • Last taxonomy: Chryseobacterium glaciei subclade
  • 16S sequence: KR233779
  • Sequence Identity:
  • Total samples: 1606
  • soil counts: 193
  • aquatic counts: 494
  • animal counts: 850
  • plant counts: 69

Sequence information

16S sequences

  • @ref: 65357
  • description: Chryseobacterium glaciei strain IHBB 10212 16S ribosomal RNA gene, partial sequence
  • accession: KR233779
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chryseobacterium sp. IHB B 102121685010.5completepatric1685010
66792Chryseobacterium sp. IHBB 102121685010.9plasmidpatric1685010
66792Chryseobacterium sp. IHBB 102121685010.8plasmidpatric1685010
67770Chryseobacterium glaciei IHBB 10212GCA_001648155completencbi1685010

GC content

  • @ref: 67770
  • GC-content: 34.08
  • method: genome sequence analysis

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno98.5yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.863no
125438spore-formingspore-formingAbility to form endo- or exosporesno89.469yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes89.397no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno99.5yes
125438motile2+flagellatedAbility to perform flagellated movementno90.5no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno96.9
125439BacteriaNetmotilityAbility to perform movementno73.7
125439BacteriaNetgram_stainReaction to gram-stainingnegative99.8
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe93.8

External links

@ref: 65357

culture collection no.: MTCC 12457, JCM 31156, KACC 19170, IHBB 10212

literature

  • topic: Phylogeny
  • Pubmed-ID: 29458480
  • title: Chryseobacterium glaciei sp. nov., isolated from the surface of a glacier in the Indian trans-Himalayas.
  • authors: Pal M, Kumari M, Kiran S, Salwan R, Mayilraj S, Chhibber S, Gulati A
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002600
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover/*microbiology, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
65357Mohinder Pal, Munesh Kumari, Shashi Kiran, Richa Salwan, Shanmugam Mayilraj, Sanjay Chhibber, Arvind GulatiChryseobacterium glaciei sp. nov., isolated from the surface of a glacier in the Indian trans-Himalayas10.1099/ijsem.0.002600IJSEM 68: 865-870 201829458480
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG