Strain identifier
BacDive ID: 158459
Type strain:
Species: Micromonospora craniellae
Strain Designation: LHW63014
Strain history: <- L. Li, Shanghai Jiao Tong Univ., China; LHW63014
NCBI tax ID(s): 2294034 (species)
General
@ref: 65135
BacDive-ID: 158459
DSM-Number: 106193
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive
description: Micromonospora craniellae LHW63014 is an aerobe, spore-forming, mesophilic bacterium that was isolated from marine sponge.
NCBI tax id
- NCBI tax id: 2294034
- Matching level: species
strain history
- @ref: 65135
- history: <- L. Li, Shanghai Jiao Tong Univ., China; LHW63014
doi: 10.13145/bacdive158459.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micromonosporales
- family: Micromonosporaceae
- genus: Micromonospora
- species: Micromonospora craniellae
- full scientific name: Micromonospora craniellae Li et al. 2019
@ref: 65135
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micromonosporaceae
genus: Micromonospora
species: Micromonospora craniellae
full scientific name: Micromonospora craniellae Li et al. 2019
strain designation: LHW63014
type strain: yes
Morphology
cell morphology
@ref | gram stain | motility | confidence |
---|---|---|---|
67817 | positive | no | |
69480 | positive | 100 |
colony morphology
@ref | colony color | medium used |
---|---|---|
69302 | Daffodil yellow (1007), pastel yellow (1034) | ISP 4 |
69302 | Daffodil yellow (1007), pastel yellow (1034) | suter with tyrosine |
69302 | Daffodil yellow (1007), pastel yellow (1034) | suter without tyrosine |
69302 | Maize yellow (1006) | ISP 7 |
69302 | Signal orange (2010) | ISP 2 |
multicellular morphology
@ref | forms multicellular complex | further description | complex name | medium name |
---|---|---|---|---|
67817 | yes | forms well-developed branched substrate mycelium. Aerial hyphae is absent. | ||
69302 | no | Aerial mycelium | ISP 2 | |
69302 | no | Aerial mycelium | ISP 4 | |
69302 | no | Aerial mycelium | ISP 7 | |
69302 | no | Aerial mycelium | suter with tyrosine | |
69302 | no | Aerial mycelium | suter without tyrosine |
pigmentation
@ref | production | name |
---|---|---|
69302 | no | Melanin |
69302 | no | soluble pigment |
multimedia
- @ref: 65135
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_106193.jpg
- caption: Medium 83 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
65135 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
65135 | CZAPEK PEPTONE AGAR (DSMZ Medium 83) | yes | https://mediadive.dsmz.de/medium/83 | Name: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
65135 | positive | growth | 28 | mesophilic |
67817 | positive | growth | 20-34 |
culture pH
- @ref: 67817
- ability: positive
- type: growth
- pH: 6-9
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 67817
- oxygen tolerance: aerobe
spore formation
@ref | spore description | type of spore | spore formation | confidence |
---|---|---|---|---|
67817 | Single or clustered spherical spores (0.7 µm in diameter) with smooth surface are observed. | spore | yes | |
69480 | yes | 100 | ||
69481 | yes | 100 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
67817 | NaCl | positive | maximum | 4 % |
69302 | NaCl | positive | growth | 0 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
69302 | 22599 | arabinose | + | growth |
67817 | 17632 | nitrate | + | reduction |
67817 | 85146 | carboxymethylcellulose | + | hydrolysis |
67817 | 5291 | gelatin | + | hydrolysis |
67817 | 53423 | tween 40 | + | hydrolysis |
67817 | 53425 | tween 60 | + | hydrolysis |
67817 | 53424 | tween 20 | - | hydrolysis |
67817 | 53426 | tween 80 | - | hydrolysis |
67817 | 4853 | esculin | - | hydrolysis |
67817 | 28017 | starch | - | hydrolysis |
67817 | milk | - | assimilation | |
67817 | 12936 | D-galactose | + | carbon source |
67817 | 17634 | D-glucose | + | carbon source |
67817 | 17716 | lactose | + | carbon source |
67817 | 16024 | D-mannose | + | carbon source |
67817 | 28053 | melibiose | + | carbon source |
67817 | 62345 | L-rhamnose | + | carbon source |
67817 | 17992 | sucrose | + | carbon source |
67817 | 27082 | trehalose | + | carbon source |
67817 | 50144 | sodium pyruvate | + | carbon source |
67817 | 17108 | D-arabinose | - | carbon source |
67817 | 17057 | cellobiose | - | carbon source |
67817 | 16813 | galactitol | - | carbon source |
67817 | 15824 | D-fructose | - | carbon source |
67817 | 17754 | glycerol | - | carbon source |
67817 | 17268 | myo-inositol | - | carbon source |
67817 | 17306 | maltose | - | carbon source |
67817 | 16899 | D-mannitol | - | carbon source |
67817 | 16634 | raffinose | - | carbon source |
67817 | 16988 | D-ribose | - | carbon source |
67817 | 17924 | D-sorbitol | - | carbon source |
67817 | 17151 | xylitol | - | carbon source |
67817 | 65327 | D-xylose | - | carbon source |
67817 | 32954 | sodium acetate | - | carbon source |
67817 | 53258 | sodium citrate | - | carbon source |
67817 | 16467 | L-arginine | + | nitrogen source |
67817 | 15971 | L-histidine | + | nitrogen source |
67817 | 24741 | hydroxyproline | + | nitrogen source |
67817 | 18019 | L-lysine | + | nitrogen source |
67817 | 16977 | L-alanine | - | nitrogen source |
67817 | 17196 | L-asparagine | - | nitrogen source |
67817 | 29991 | L-aspartate | - | nitrogen source |
67817 | 17561 | L-cysteine | - | nitrogen source |
67817 | 29988 | L-glutamate | - | nitrogen source |
67817 | 18050 | L-glutamine | - | nitrogen source |
67817 | 15428 | glycine | - | nitrogen source |
67817 | 15603 | L-leucine | - | nitrogen source |
67817 | 16643 | L-methionine | - | nitrogen source |
67817 | 17295 | L-phenylalanine | - | nitrogen source |
67817 | 17203 | L-proline | - | nitrogen source |
67817 | 17115 | L-serine | - | nitrogen source |
67817 | 16857 | L-threonine | - | nitrogen source |
67817 | 16828 | L-tryptophan | - | nitrogen source |
67817 | 17895 | L-tyrosine | - | nitrogen source |
67817 | 16414 | L-valine | - | nitrogen source |
67817 | 16708 | adenine | - | nitrogen source |
67817 | 17368 | hypoxanthine | - | nitrogen source |
67817 | 15318 | xanthine | - | nitrogen source |
69302 | 62968 | cellulose | - | growth |
69302 | 28757 | fructose | - | growth |
69302 | 17234 | glucose | + | growth |
69302 | 17268 | inositol | +/- | growth |
69302 | 37684 | mannose | - | growth |
69302 | 16634 | raffinose | +/- | growth |
69302 | 26546 | rhamnose | + | growth |
69302 | 17992 | sucrose | + | growth |
69302 | 18222 | xylose | - | growth |
68379 | 17632 | nitrate | - | reduction |
68379 | 4853 | esculin | - | hydrolysis |
68379 | 16199 | urea | - | hydrolysis |
68379 | 5291 | gelatin | - | hydrolysis |
68379 | 17634 | D-glucose | - | fermentation |
68379 | 16988 | D-ribose | - | fermentation |
68379 | 65327 | D-xylose | - | fermentation |
68379 | 16899 | D-mannitol | - | fermentation |
68379 | 17306 | maltose | - | fermentation |
68379 | 17716 | lactose | - | fermentation |
68379 | 17992 | sucrose | - | fermentation |
68379 | 28087 | glycogen | - | fermentation |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
67817 | 89634 | melanin | no |
67817 | 16136 | hydrogen sulfide | no |
enzymes
@ref | value | activity | ec |
---|---|---|---|
67817 | catalase | + | 1.11.1.6 |
68379 | gelatinase | - | |
68379 | urease | - | 3.5.1.5 |
68379 | beta-glucosidase | - | 3.2.1.21 |
68379 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68379 | alpha-glucosidase | - | 3.2.1.20 |
68379 | beta-galactosidase | - | 3.2.1.23 |
68379 | beta-glucuronidase | - | 3.2.1.31 |
68379 | alkaline phosphatase | - | 3.1.3.1 |
68379 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68379 | pyrazinamidase | + | 3.5.1.B15 |
68382 | esterase (C 4) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | trypsin | + | 3.4.21.4 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | acid phosphatase | - | 3.1.3.2 |
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 |
fatty acid profile
fatty acids
@ref fatty acid percentage 67817 C16:0 4 67817 C17:0 6 67817 C18:0 3.8 67817 C19:0 0.7 67817 C15:0 iso 15.7 67817 C16:0 iso 26.5 67817 C17:0 iso 5.2 67817 C18:0 iso 0.6 67817 C15:0 anteiso 1.3 67817 C17:0 anteiso 4.6 67817 C17:1 w8c 12.1 67817 C18:1 w9c 11.7 67817 C17:1 anteiso w9c 0.3 67817 C16:1 w7c / C16:1 w6c or C16:1 w6c / C16:1 w7c 2.7 67817 C19:1 w9c / C19:1 w11c or C19:1 w9c / C19:1 w11c 0.8 67817 10-methyl C16:0 or iso-C17:1w9c 3 - type of FA analysis: whole cell analysis
- incubation medium: ISP2 broth
- agar/liquid: liquid
- incubation temperature: 28
- incubation time: 7
- software version: Sherlock 6.1
- library/peak naming table: TSBA6.1
- system: MIS MIDI
API coryne
@ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
69302 | - | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - |
API zym
@ref | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
69302 | +/- | + | +/- | - | + | - | +/- | + | + | - | +/- | - | - | - | + | - | + | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude | enrichment culture | enrichment culture composition | enrichment culture duration | enrichment culture temperature | isolation procedure |
---|---|---|---|---|---|---|---|---|---|---|---|---|
65135 | marine sponge | Xisha Islands, Hainan Province (16° 45' N, 112° 21' E) | China | CHN | Asia | 16.75 | 112.35 | |||||
67817 | Craniella species sponge (coral reef at 20 m depth) | Xisha Islands | China | CHN | Asia | 16.75 | 112.35 | Streptomyces Isolation Medium | 3 % unrefined sea salt (w/v), 50 mg l-1 cycloheximide and 25 mg l-1 nalidixic acid | 4-12 weeks | 28 | Marine sponge samples were collected by surface-supplied diving and delivered in ice. After being washed in sterile artificial sea water three times, the sponge tissues were cut, ground and spread on Streptomyces Isolation Medium. The plates were incubated at 28°C for 4-12 weeks. |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Host | #Invertebrates (Other) | #Porifera (Sponges) |
Sequence information
16S sequences
- @ref: 65135
- description: Jishengella sp. strain LHW63014 16S ribosomal RNA gene, partial sequence
- accession: MG200153
- length: 1479
- database: ena
- NCBI tax ID: 2294034
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Micromonospora craniellae LHW63014 | GCA_014764405 | complete | ncbi | 2294034 |
66792 | Micromonospora craniellae strain LHW63014 | 2294034.4 | complete | patric | 2294034 |
66792 | Micromonospora craniellae LHW63014 | 2866394982 | draft | img | 2294034 |
67817 | Micromonospora craniellae LHW63014 | GCA_003419945 | contig | ncbi | 2294034 |
GC content
@ref | GC-content | method |
---|---|---|
65135 | 71.0 | |
67817 | 71 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
flagellated | no | 97.538 | yes |
gram-positive | yes | 91.993 | yes |
anaerobic | no | 99.163 | yes |
aerobic | yes | 93.653 | no |
halophile | no | 94.13 | yes |
spore-forming | yes | 94.049 | no |
glucose-util | yes | 87.537 | yes |
thermophile | no | 98.175 | yes |
motile | no | 92.276 | yes |
glucose-ferment | no | 92.889 | yes |
External links
@ref: 65135
culture collection no.: DSM 106193, CCTCC AA 2018012
straininfo link
- @ref: 111257
- straininfo: 401557
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 30605079 | Micromonospora craniellae sp. nov., isolated from a marine sponge, and reclassification of Jishengella endophytica as Micromonospora endophytica comb. nov. | Li L, Zhu HR, Xu QH, Lin HW, Lu YH | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003209 | 2019 | Animals, Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Genes, Bacterial, Micromonospora/*classification/isolation & purification, Micromonosporaceae/classification, Nucleic Acid Hybridization, *Phylogeny, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Genetics | 33160875 | Complete genome sequence of Micromonospora craniellae LHW63014(T), a potential metal ion-chelating agent producer. | Yang X, Zhu ZH, Ji X, Liu ZM, Zhang H, Wei B | Mar Genomics | 10.1016/j.margen.2020.100830 | 2020 | Chelating Agents/*analysis, *Genes, Bacterial, *Genome, Bacterial, Micromonospora/*genetics/metabolism, *Multigene Family, Pacific Ocean, Whole Genome Sequencing | Metabolism |
Phylogeny | 34787539 | Micromonospora tarapacensis sp. nov., a bacterium isolated from a hypersaline lake. | Villalobos AS, Wiese J, Borchert E, Rahn T, Slaby BM, Steiner LX, Kunzel S, Dorador C, Imhoff JF | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005109 | 2021 | Bacterial Typing Techniques, Base Composition, Chile, DNA, Bacterial/genetics, Desert Climate, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lakes/*microbiology, *Micromonospora/classification/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Saline Waters, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
@id | authors | title | doi/url | catalogue | journal |
---|---|---|---|---|---|
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 | ||
65135 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-106193 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 106193) | ||
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 | ||
67817 | Lei Li, Hong-rui Zhu, Qi-hang Xu, Hou-wen Lin, Yan-hua Lu | Micromonospora craniellae sp. nov., isolated from a marine sponge, and reclassification of Jishengella endophytica as Micromonospora endophytica comb. nov. | 10.1099/ijsem.0.003209 | IJSEM 69: 715-720 2019 | |
68379 | Automatically annotated from API Coryne | ||||
68382 | Automatically annotated from API zym | ||||
69302 | Wink, J. | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | https://cdn.dsmz.de/wink/DSM%20106193.pdf | ||
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 | ||
111257 | 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-ID401557.1 |