Strain identifier
BacDive ID: 133551
Type strain:
Species: Flavobacterium glycines
Strain Designation: Gm-149
Strain history: CIP <- 2010, NBRC
NCBI tax ID(s): 551990 (species)
General
@ref: 29482
BacDive-ID: 133551
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, Gram-negative, motile, rod-shaped
description: Flavobacterium glycines Gm-149 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from Environment, Rhizosphere of field-grown soybean.
NCBI tax id
- NCBI tax id: 551990
- Matching level: species
strain history
@ref | history |
---|---|
42252 | 2010, NBRC |
119699 | CIP <- 2010, NBRC |
doi: 10.13145/bacdive133551.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Flavobacterium
- species: Flavobacterium glycines
- full scientific name: Flavobacterium glycines Madhaiyan et al. 2010
@ref: 29482
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Flavobacterium
species: Flavobacterium glycines
strain designation: Gm-149
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | flagellum arrangement | confidence |
---|---|---|---|---|---|---|---|
29482 | negative | 0.8-1 µm | 0.2-0.3 µm | rod-shaped | yes | gliding | |
69480 | negative | 99.998 | |||||
119699 | negative | rod-shaped | no |
pigmentation
- @ref: 29482
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | composition | link |
---|---|---|---|---|
42252 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
119699 | CIP Medium 566 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566 | |
119699 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
29482 | positive | growth | 10-35 | |
29482 | positive | optimum | 28 | mesophilic |
42252 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
29482 | positive | growth | 06-08 |
29482 | positive | optimum | 06-08 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
29482 | facultative anaerobe |
119699 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
29482 | no | |
69481 | no | 100 |
69480 | no | 99.999 |
observation
- @ref: 29482
- observation: aggregates in chains
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29482 | 22599 | arabinose | + | carbon source |
29482 | 17306 | maltose | + | carbon source |
29482 | 37684 | mannose | + | carbon source |
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | 24265 | gluconate | - | builds acid from |
68371 | 18403 | L-arabitol | - | builds acid from |
68371 | 18333 | D-arabitol | - | builds acid from |
68371 | 28847 | D-fucose | - | builds acid from |
68371 | 16443 | D-tagatose | - | builds acid from |
68371 | 62318 | D-lyxose | - | builds acid from |
68371 | 28066 | gentiobiose | - | builds acid from |
68371 | 17151 | xylitol | - | builds acid from |
68371 | 28087 | glycogen | - | builds acid from |
68371 | 28017 | starch | + | builds acid from |
68371 | 16634 | raffinose | + | builds acid from |
68371 | 6731 | melezitose | + | builds acid from |
68371 | 15443 | inulin | - | builds acid from |
68371 | 27082 | trehalose | + | builds acid from |
68371 | 17992 | sucrose | - | builds acid from |
68371 | 28053 | melibiose | + | builds acid from |
68371 | 17306 | maltose | + | builds acid from |
68371 | 17057 | cellobiose | - | builds acid from |
68371 | 17814 | salicin | - | builds acid from |
68371 | 4853 | esculin | - | builds acid from |
68371 | 18305 | arbutin | - | builds acid from |
68371 | 27613 | amygdalin | - | builds acid from |
68371 | 59640 | N-acetylglucosamine | - | builds acid from |
68371 | 320061 | methyl alpha-D-glucopyranoside | - | builds acid from |
68371 | 43943 | methyl alpha-D-mannoside | - | builds acid from |
68371 | 17924 | D-sorbitol | - | builds acid from |
68371 | 16899 | D-mannitol | - | builds acid from |
68371 | 17268 | myo-inositol | - | builds acid from |
68371 | 16813 | galactitol | - | builds acid from |
68371 | 17266 | L-sorbose | - | builds acid from |
68371 | 16024 | D-mannose | + | builds acid from |
68371 | 15824 | D-fructose | + | builds acid from |
68371 | 17634 | D-glucose | + | builds acid from |
68371 | 12936 | D-galactose | + | builds acid from |
68371 | 74863 | methyl beta-D-xylopyranoside | - | builds acid from |
68371 | 15963 | ribitol | - | builds acid from |
68371 | 65328 | L-xylose | - | builds acid from |
68371 | 65327 | D-xylose | - | builds acid from |
68371 | 16988 | D-ribose | - | builds acid from |
68371 | 30849 | L-arabinose | + | builds acid from |
68371 | 17108 | D-arabinose | + | builds acid from |
68371 | 17113 | erythritol | - | builds acid from |
68371 | 17754 | glycerol | - | builds acid from |
119699 | 17632 | nitrate | + | reduction |
119699 | 16301 | nitrite | - | reduction |
metabolite production
- @ref: 119699
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
29482 | catalase | + | 1.11.1.6 |
29482 | cytochrome oxidase | + | 1.9.3.1 |
119699 | oxidase | + | |
119699 | catalase | + | 1.11.1.6 |
119699 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | - | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | + | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | + | 3.2.1.22 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119699 | - | + | + | - | - | + | + | - | - | + | + | + | + | + | - | + | + | + | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119699 | - | - | + | + | - | - | - | - | - | + | + | + | + | - | +/- | - | - | - | - | - | - | - | - | - | - | - | - | + | +/- | + | - | + | - | + | + | + | - | - | - | +/- | - | - | - | +/- | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 119699
- sample type: Environment, Rhizosphere of field-grown soybean
- geographic location: Tamilnadu
- country: India
- origin.country: IND
- continent: Asia
Safety information
risk assessment
- @ref: 119699
- biosafety level: 1
- biosafety level comment: Risk group (French classification)
Sequence information
16S sequences
- @ref: 29482
- description: Flavobacterium glycines strain Gm-149 16S ribosomal RNA gene, partial sequence
- accession: EU672803
- length: 1403
- database: nuccore
- NCBI tax ID: 551990
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Flavobacterium glycines Gm-149 | GCA_900100165 | scaffold | ncbi | 551990 |
66792 | Flavobacterium glycines NBRC 105008 | GCA_007989005 | contig | ncbi | 551990 |
66792 | Flavobacterium glycines NBRC 105008 | GCA_001686935 | contig | ncbi | 551990 |
66792 | Flavobacterium glycines strain NBRC 105008 | 551990.7 | wgs | patric | 551990 |
66792 | Flavobacterium glycines strain NBRC 105008 | 551990.4 | wgs | patric | 551990 |
66792 | Flavobacterium glycines NBRC 105008 | 2772190675 | draft | img | 551990 |
66792 | Flavobacterium glycines Gm-149 | 2660237900 | draft | img | 551990 |
GC content
- @ref: 29482
- GC-content: 35.6
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 88.82 | no |
flagellated | no | 93.8 | yes |
gram-positive | no | 98.005 | yes |
anaerobic | no | 99.588 | no |
aerobic | yes | 87.812 | no |
halophile | no | 97.423 | no |
spore-forming | no | 94.121 | yes |
glucose-ferment | no | 88.815 | no |
thermophile | no | 98.923 | no |
glucose-util | yes | 86.637 | no |
External links
@ref: 29482
culture collection no.: ICMP 17618, NBRC 105008, CIP 110235
straininfo link
- @ref: 91499
- straininfo: 370653
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 19897620 | Flavobacterium glycines sp. nov., a facultative methylotroph isolated from the rhizosphere of soybean. | Madhaiyan M, Poonguzhali S, Lee JS, Lee KC, Sundaram S | Int J Syst Evol Microbiol | 10.1099/ijs.0.014019-0 | 2009 | Autotrophic Processes, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Flavobacterium/*classification/genetics/*isolation & purification/metabolism, Methanol/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Soybeans/*microbiology | Metabolism |
Phylogeny | 27902211 | Flavobacterium eburneum sp. nov., isolated from reclaimed saline land soil. | Hwang WM, Kim D, Kang K, Ahn TY | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001568 | 2017 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Salinity, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Phylogeny | 27902216 | Flavobacterium gilvum sp. nov., isolated from stream water. | Shin SK, Ha Y, Cho YJ, Kwon S, Yong D, Yi H | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001594 | 2017 | ||
Phylogeny | 30047082 | Flavobacterium parvum sp. nov., isolated from soil polluted by sewer water. | Lee HS, Hwang WM, Kang K, Ahn TY | J Microbiol | 10.1007/s12275-018-8145-9 | 2018 | Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/*isolation & purification/physiology, Hydrogen-Ion Concentration, Korea, Locomotion, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Sodium Chloride/metabolism, *Soil Microbiology, Temperature, Vitamin K 2/analysis | Transcriptome |
Phylogeny | 30320544 | Flavobacterium riviphilum sp. nov., isolated from a freshwater creek. | Sheu SY, Su CL, Chen WM | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003070 | 2018 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, Polyamines/chemistry, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Taiwan, Vitamin K 2/analogs & derivatives/chemistry, Water Microbiology | Transcriptome |
Reference
@id | authors | title | doi/url | ID_cross_reference | pubmed | catalogue |
---|---|---|---|---|---|---|
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 | |||
29482 | 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 | 25882 | 28776041 | |
42252 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/8072 | ||||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
68371 | Automatically annotated from API 50CH acid | |||||
68382 | Automatically annotated from API zym | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
91499 | 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-ID370653.1 | |||
119699 | Curators of the CIP | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110235 | Collection of Institut Pasteur (CIP 110235) |