Strain identifier
BacDive ID: 133514
Type strain: 
Species: Ferruginibacter alkalilentus
Strain Designation: HU1-GD23
Strain history: <- ST Lee, KAIST
NCBI tax ID(s): 563170 (species)
version 8.1 (current version)
General
@ref: 29250
BacDive-ID: 133514
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped
description: Ferruginibacter alkalilentus HU1-GD23 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from freshwater sediment .
NCBI tax id
- NCBI tax id: 563170
- Matching level: species
strain history
- @ref: 67771
- history: <- ST Lee, KAIST
doi: 10.13145/bacdive133514.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Chitinophagia
- order: Chitinophagales
- family: Chitinophagaceae
- genus: Ferruginibacter
- species: Ferruginibacter alkalilentus
- full scientific name: Ferruginibacter alkalilentus Lim et al. 2009
@ref: 29250
domain: Bacteria
phylum: Bacteroidetes
class: Sphingobacteriia
order: Chitinophagales
family: Chitinophagaceae
genus: Ferruginibacter
species: Ferruginibacter alkalilentus
strain designation: HU1-GD23
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility |
|---|---|---|---|---|---|
| 29250 | negative | 2 µm | 0.4 µm | rod-shaped | no |
| 67771 | rod-shaped | no | |||
| 67771 | negative |
pigmentation
- @ref: 29250
- production: no
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 29250 | positive | growth | 18-30 | |
| 67771 | positive | growth | 30 | mesophilic |
culture pH
- @ref: 29250
- ability: positive
- type: growth
- pH: 06-08
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 29250 | aerobe |
| 67771 | aerobe |
spore formation
- @ref: 29250
- spore formation: no
halophily
- @ref: 29250
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <0.5 %
observation
- @ref: 67771
- observation: quinones: MK-7
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29250 | 22599 | arabinose | + | carbon source |
| 29250 | 16947 | citrate | + | carbon source |
| 29250 | 17234 | glucose | + | carbon source |
| 29250 | 28053 | melibiose | + | carbon source |
| 29250 | 16634 | raffinose | + | carbon source |
| 29250 | 27082 | trehalose | + | carbon source |
| 29250 | 17151 | xylitol | + | carbon source |
| 29250 | 18222 | xylose | + | carbon source |
| 29250 | 4853 | esculin | + | hydrolysis |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29250 | catalase | + | 1.11.1.6 |
| 29250 | gelatinase | + | |
| 29250 | cytochrome oxidase | + | 1.9.3.1 |
| 29250 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 29250 | freshwater sediment (river, lake, pond) | ||||
| 67771 | From freshwater sediment | littoral zone of Lake Hakha, Daejeon | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Freshwater |
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Aquatic | #Pond (small) |
| #Environmental | #Aquatic | #River (Creek) |
taxonmaps
- @ref: 69479
- File name: preview.99_58537.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_185;96_18701;97_23145;98_41673;99_58537&stattab=map
- Last taxonomy: Ferruginibacter alkalilentus subclade
- 16S sequence: FJ177530
- Sequence Identity:
- Total samples: 106
- soil counts: 26
- aquatic counts: 72
- animal counts: 7
- plant counts: 1
Sequence information
16S sequences
- @ref: 29250
- description: Sphingobacteriales bacterium HU1-GD23 16S ribosomal RNA gene, partial sequence
- accession: FJ177530
- length: 1470
- database: nuccore
- NCBI tax ID: 563170
GC content
| @ref | GC-content |
|---|---|
| 29250 | 38.5-39.5 |
| 67771 | 39.4 |
External links
@ref: 29250
culture collection no.: KCTC 22306, LMG 4312, LMG 24312
straininfo link
- @ref: 91479
- straininfo: 319129
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 19620358 | Ferruginibacter alkalilentus gen. nov., sp. nov. and Ferruginibacter lapsinanis sp. nov., novel members of the family 'Chitinophagaceae' in the phylum Bacteroidetes, isolated from freshwater sediment. | Lim JH, Baek SH, Lee ST | Int J Syst Evol Microbiol | 10.1099/ijs.0.009480-0 | 2009 | Bacteroidetes/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Fresh Water/*microbiology, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics | Metabolism |
| Phylogeny | 24277861 | Ferruginibacter yonginensis sp. nov., isolated from a mesotrophic artificial lake. | Lee BI, Kang H, Kim H, Joung Y, Joh K | Int J Syst Evol Microbiol | 10.1099/ijs.0.057083-0 | 2013 | Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lakes/*microbiology, Molecular Sequence Data, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 24917388 | Ferruginibacter profundus sp. nov., a novel member of the family Chitinophagaceae, isolated from freshwater sediment of a reservoir. | Jin L, Lee HG, La HJ, Ko SR, Ahn CY, Oh HM | Antonie Van Leeuwenhoek | 10.1007/s10482-014-0202-8 | 2014 | Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/*isolation & purification, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Geologic Sediments/*microbiology, Korea, Molecular Sequence Data, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
| Phylogeny | 25957051 | Ferruginibacter paludis sp. nov., isolated from wetland freshwater, and emended descriptions of Ferruginibacter lapsinanis and Ferruginibacter alkalilentus. | Kang H, Kim H, Joung Y, Jang TY, Joh K | Int J Syst Evol Microbiol | 10.1099/ijs.0.000311 | 2015 | Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fresh Water/*microbiology, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, *Wetlands | Genetics |
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed |
|---|---|---|---|---|---|
| 20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | ||
| 29250 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 25670 | 28776041 |
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | |||
| 69479 | João 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 beta | https://microbeatlas.org/ | ||
| 91479 | Reimer, 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 identifiers | 10.60712/SI-ID319129.1 |