Strain identifier
BacDive ID: 14708
Type strain:
Species: Lactococcus piscium
Strain Designation: HR1A-68
Strain history: DSM 6634 <-- NCFB 2778 <-- J. L. Fryer <-- R. A. Holt HR1A-68.
NCBI tax ID(s): 1364 (species)
General
@ref: 2640
BacDive-ID: 14708
DSM-Number: 6634
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Lactococcus piscium HR1A-68 is an anaerobe, mesophilic bacterium that was isolated from diseased Rainbow yearling.
NCBI tax id
- NCBI tax id: 1364
- Matching level: species
strain history
@ref | history |
---|---|
2640 | <- NCFB <- J.L. Fryer <- R.A. Holt, HR1A-68 |
67770 | DSM 6634 <-- NCFB 2778 <-- J. L. Fryer <-- R. A. Holt HR1A-68. |
doi: 10.13145/bacdive14708.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Streptococcaceae
- genus: Lactococcus
- species: Lactococcus piscium
- full scientific name: Lactococcus piscium Williams et al. 1990
@ref: 2640
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Streptococcaceae
genus: Lactococcus
species: Lactococcus piscium
full scientific name: Lactococcus piscium Williams et al. 1990
strain designation: HR1A-68
type strain: yes
Morphology
colony morphology
- @ref: 51145
- incubation period: >2 days
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
2640 | ACETOMICROBIUM FAECALIS MEDIUM (DSMZ Medium 412) | yes | https://mediadive.dsmz.de/medium/412 | Name: ACETOMICROBIUM FAECALIS MEDIUM (DSMZ Medium 412) Composition: NaHCO3 6.0 g/l Na-acetate 5.0 g/l Glucose 4.0 g/l Yeast extract 2.0 g/l Trypticase peptone 2.0 g/l L-Cysteine HCl x H2O 0.5 g/l KH2PO4 0.255 g/l (NH4)2SO4 0.255 g/l K2HPO4 0.225 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l CoSO4 x 7 H2O 0.0018 g/l ZnSO4 x 7 H2O 0.0018 g/l FeSO4 x 7 H2O 0.001 g/l Resazurin 0.001 g/l CaCl2 x 2 H2O 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l Na2MoO4 x 2 H2O 0.0001 g/l H3BO3 0.0001 g/l Pyridoxine hydrochloride 0.0001 g/l CuSO4 x 5 H2O 0.0001 g/l Nicotinic acid 5e-05 g/l (DL)-alpha-Lipoic acid 5e-05 g/l Thiamine HCl 5e-05 g/l Riboflavin 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 1e-06 g/l Distilled water |
2640 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
2640 | positive | growth | 30 | mesophilic |
2640 | positive | growth | 28 | mesophilic |
51145 | positive | growth | 25 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
2640 | anaerobe |
51145 | aerobe |
murein
- @ref: 2640
- murein short key: A11.05
- type: A3alpha L-Lys-L-Ala2
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
2640 | diseased Rainbow yearling | ||||
51145 | Trout,diseased rainbow trout | ||||
67770 | Diseased yearling rainbow trout | Hood River, OR | USA | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Disease | |
#Host | #Fishes | #Salmonidae |
taxonmaps
- @ref: 69479
- File name: preview.99_3069.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_58;96_1605;97_1917;98_2358;99_3069&stattab=map
- Last taxonomy: Lactococcus piscium subclade
- 16S sequence: LC519868
- Sequence Identity:
- Total samples: 24593
- soil counts: 3484
- aquatic counts: 4463
- animal counts: 15578
- plant counts: 1068
Safety information
risk assessment
- @ref: 2640
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Lactococcus piscium strain CCUG 32732 16S ribosomal RNA gene, partial sequence | DQ343754 | 1436 | ena | 1364 |
20218 | Lactococcus piscium 16S rRNA | X53905 | 1483 | ena | 1364 |
67770 | Lactococcus piscium JCM 16647 gene for 16S rRNA, partial sequence | LC519868 | 1479 | ena | 1364 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Lactococcus piscium DSM 6634 | GCA_002441695 | scaffold | ncbi | 1364 |
66792 | Lactococcus piscium strain DSM 6634 | 1364.33 | wgs | patric | 1364 |
66792 | Lactococcus piscium DSM 6634 | 2871629740 | draft | img | 1364 |
GC content
@ref | GC-content | method |
---|---|---|
2640 | 39.0 | thermal denaturation, midpoint method (Tm) |
67770 | 38.5 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 97.408 | no |
gram-positive | yes | 94.703 | no |
anaerobic | no | 93.669 | no |
aerobic | no | 97.869 | no |
halophile | yes | 78.662 | no |
spore-forming | no | 92.548 | no |
thermophile | no | 99.896 | yes |
glucose-util | yes | 88.831 | no |
motile | no | 95.25 | no |
glucose-ferment | yes | 90.679 | no |
External links
@ref: 2640
culture collection no.: DSM 6634, CIP 104371, JCM 16647, NCFB 2778, CCUG 32732, LMG 11463, JCM 11055, ATCC 700018, CCM 4494, CECT 4493, KCTC 3639, LMG 23383, NBRC 100935, NCIMB 13196
straininfo link
- @ref: 83827
- straininfo: 3458
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 1692000 | Lactococcus piscium sp. nov. a new Lactococcus species from salmonid fish. | Williams AM, Fryer JL, Collins MD | FEMS Microbiol Lett | 10.1016/0378-1097(90)90134-c | 1990 | Animals, Base Sequence, DNA, Bacterial/analysis, Fatty Acids/analysis, Molecular Sequence Data, RNA, Bacterial/analysis, RNA, Ribosomal, 16S/analysis, Salmonidae/microbiology, Sequence Homology, Nucleic Acid, Streptococcus/*classification/genetics | Genetics |
Phylogeny | 29300157 | Lactococcus reticulitermitis sp. nov., isolated from the gut of the subterranean termite Reticulitermes speratus. | Yuki M, Sakamoto M, Nishimura Y, Ohkuma M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002549 | 2018 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gastrointestinal Tract/*microbiology, Isoptera/*microbiology, Lactococcus/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Phylogeny | 32614762 | Lactococcus insecticola sp. nov. and Lactococcus hodotermopsidis sp. nov., isolated from the gut of the wood-feeding lower termite Hodotermopsis sjostedti. | Noda S, Koyama F, Aihara C, Ikeyama N, Yuki M, Ohkuma M, Sakamoto M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004309 | 2020 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gastrointestinal Tract/*microbiology, Genes, Bacterial, Isoptera/*microbiology, Lactococcus/*classification/isolation & purification, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Wood | Transcriptome |
Biotechnology | 35190348 | Comparative genome analysis, predicted lifestyle and antimicrobial strategies of Lactococcus carnosus and Lactococcus paracarnosus isolated from meat. | Werum V, Ehrmann M, Vogel R, Hilgarth M | Microbiol Res | 10.1016/j.micres.2022.126982 | 2022 | Animals, *Anti-Infective Agents/metabolism, Food Microbiology, *Food Packaging, Lactococcus, Meat/microbiology, Phylogeny | Phylogeny |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
2640 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6634) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6634 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
51145 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 32732) | https://www.ccug.se/strain?id=32732 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
83827 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID3458.1 | StrainInfo: A central database for resolving microbial strain identifiers |