Microbispora oryzae sp. nov., isolated from leaves of rice plant (Oryza sativa L.).
Journal
The Journal of antibiotics
ISSN: 1881-1469
Titre abrégé: J Antibiot (Tokyo)
Pays: England
ID NLM: 0151115
Informations de publication
Date de publication:
12 2021
12 2021
Historique:
received:
03
05
2021
accepted:
04
08
2021
revised:
27
07
2021
pubmed:
8
9
2021
medline:
28
12
2021
entrez:
7
9
2021
Statut:
ppublish
Résumé
An endophytic actinomycete, designated strain RL4-1S
Identifiants
pubmed: 34489568
doi: 10.1038/s41429-021-00470-x
pii: 10.1038/s41429-021-00470-x
doi:
Substances chimiques
DNA, Bacterial
0
RNA, Ribosomal, 16S
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
856-862Informations de copyright
© 2021. The Author(s), under exclusive licence to the Japan Antibiotics Research Association.
Références
Nonomura H, Ohara Y. Distribution of actinomycetes in the soil. II. Microbispora, a new genus of the Streptomycetaceae. J Ferment Technol. 1957;35:307–11.
Goodfellow M, Stanton LJ, Simpson KE, Minnikin DE. Numerical and chemical classification of Actinoplanes and some related actinomycetes. J Gen Microbiol. 1990;136:19–36.
doi: 10.1099/00221287-136-1-19
Franco CMM Genus IV. Microbispora Nonomura and Ohara 1957, 307AL emend. Zhang, Wang and Ruan 1998a, 418. In: Whitman WB, Goodfellow M, Kämpfer P, Busse HJ, Trujillo ME et al., editors. Bergey’s Manual of Systematic Bacteriology. 4, 2nd ed. New York: Springer; 2012. p. 1750.
Parte AC. LPSN-list of prokaryotic names with standing in nomenclature (bacterio.net), 20 years on. Int J Syst Evol Microbiol. 2018;68:1825–9.
pubmed: 29724269
doi: 10.1099/ijsem.0.002786
Li C, Zhang Y, Liu C, Wang H, Zhao J, Li L, et al. Microbispora bryophytorum sp. nov., an actinomycete isolated from moss (Bryophyta). Int J Syst Evol Microbiol. 2015;65:1274–9.
pubmed: 25634944
doi: 10.1099/ijs.0.000095
Klykleung N, Yuki M, Kudo T, Ohkuma M, Phongsopitanun W, Pittayakhajonwut P, et al. Microbispora catharanthi sp. nov., a novel endophytic actinomycete isolated from the root of Catharanthus roseus. Int J Syst Evol Microbiol. 2020;70:964–70.
pubmed: 31730033
doi: 10.1099/ijsem.0.003858
Kaewkla O, Koomsiri W, Thamchaipenet A, Franco CMM. Microbispora clausenae sp. nov., an endophytic actinobacterium isolated from the surface-sterilized stem of a Thai medicinal plant, Clausena excavala Burm. f. Int J Syst Evol Microbiol. 2020;70:6213–9.
pubmed: 33095132
doi: 10.1099/ijsem.0.004518
Zhao J, Yu B, Han C, Cao P, Yu Z, Ju H, et al. Microbispora fusca sp. nov., a novel actinomycete isolated from the ear of wheat (Triticum aestivum L.). Int J Syst Evol Microbiol. 2020;70:139–45.
pubmed: 31622227
doi: 10.1099/ijsem.0.003725
Han C, Tian Y, Zhao J, Yu Z, Jiang S, Guo X, et al. Microbispora triticiradicis sp. nov., a novel actinomycete isolated from the root of wheat (Triticum aestivum L.). Int J Syst Evol Microbiol. 2018;68:3600–5.
pubmed: 30247118
doi: 10.1099/ijsem.0.003040
Thawai C, Bunbamrung N, Pittayakhajonwut P, Chongruchiroj S, Pratuangdejkul J, He YW, et al. A novel diterpene agent isolated from Microbispora hainanensis strain CSR-4 and its in vitro and in silico inhibition effects on acetylcholine esterase enzyme. Sci Rep. 2020;10:1–8.
doi: 10.1038/s41598-020-68009-y
Ivanova V, Kolarova M, Aleksieva K, Gräfe U, Dahse HM, Laatsch H. Microbiaeratin, a new natural indole alkaloid from a Microbispora aerata strain, isolated from Livingston Island, Antarctica. Prep Biochem Biotechnol. 2007;37:161–8.
pubmed: 17454826
doi: 10.1080/10826060701199122
Okujo N, Iinuma H, George A, Eim KS, Li TL, Ting NS, et al. Bispolides, novel 20-membered ring macrodiolide antibiotics from Microbispora. J Antibiot. 2007;60:216–19.
doi: 10.1038/ja.2007.26
Indananda C, Igarashi Y, Ikeda M, Oikawa T, Thamchaipenet A. Linfuranone A, a new polyketide from plant-derived Microbispora sp. GMKU 363. J Antibiot. 2013;66:675–7.
doi: 10.1038/ja.2013.67
Muangham S, Lipun K, Matsumoto A, Inahashi Y, Duangmal K. Quadrisphaera oryzae sp. nov., an endophytic actinomycete isolated from leaves of rice plant (Oryza sativa L.). J Antibiot. 2019;72:93–8.
doi: 10.1038/s41429-018-0112-5
Küster E, Williams ST. Selection of media for isolation of streptomycetes. Nature. 1964;202:928–9.
doi: 10.1038/202928a0
Shirling ET, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Evol Microbiol. 1966;16:313–40.
Gordon RE, Barnett DA, Handerhan J, Pang CH-N. Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol. 1974;24:54–63.
doi: 10.1099/00207713-24-1-54
Jones KL. Fresh isolates of actinomycetes in which the presence of sporogenous aerial mycelia is a fluctuating characteristic. J Bacteriol. 1949;57:141–5.
pubmed: 16561658
pmcid: 385488
doi: 10.1128/jb.57.2.141-145.1949
Waksman SA. The Actinomycetes, a summary of current knowledge. New York:Ronald;1967.
Kelly KL. Inter-Society Color Council – National Bureau of Standards Color Name Charts Illustrated with Centroid Colors. Washington DC: US Government Printing Office; 1964.
Himaman W, Thamchaipenet A, Pathom-aree W, Duangmal K. Actinomycetes from Eucalyptus and their biological activities for controlling Eucalyptus leaf and shoot blight. Microbiol Res. 2016;188:42–52.
pubmed: 27296961
doi: 10.1016/j.micres.2016.04.011
Williams ST, Goodfellow M, Alderson G, Wellington EM, Sneath PH, Sackin MJ. Numerical classification of Streptomyces and related genera. J Gen Microbiol. 1983;129:1743–813.
pubmed: 6631406
Becker B, Lechevalier MP, Lechevalier HA. Chemical composition of cell-wall preparations from strains of various form-genera of aerobic actinomycetes. Appl Microbiol. 1965;13:236–43.
pubmed: 14325886
pmcid: 1058228
doi: 10.1128/am.13.2.236-243.1965
Hasegawa T, Takizawa M, Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol. 1983;29:319–22.
doi: 10.2323/jgam.29.319
Staneck JL, Roberts GD. Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol. 1974;28:226–31.
pubmed: 4605116
pmcid: 186691
doi: 10.1128/am.28.2.226-231.1974
Minnikin DE, Patel PV, Alshamaony L, Goodfellow M. Polar lipid composition in the classification of nocardia and related bacteria. Int J Syst Evol Microbiol. 1977;27:104–17.
Tomiyasu I. Mycolic acid composition and thermally adaptative changes in Nocardia asteroides. J Bacteriol. 1982;151:828–37.
pubmed: 7047498
pmcid: 220332
doi: 10.1128/jb.151.2.828-837.1982
Uchida K, Kudo T, Suzuki K-I, Nakase T. A new rapid method of glycolate test by diethyl ether extraction, which is applicable to a small amount of bacterial cells of less than one milligram. J Gen Appl Microbiol. 1999;45:49–56.
pubmed: 12501387
doi: 10.2323/jgam.45.49
Kieser T, Bibb MJ, Buttner MJ, Chater KF, Hopwood DA. Practical Streptomyces Genetics. Norwich: John Innes Foundation; 2000.
Mingma R, Pathom-aree W, Trakulnaleamsai S, Thamchaipenet A, Duangmal K. Isolation of rhizospheric and roots endophytic actinomycetes from Leguminosae plant and their activities to inhibit soybean pathogen, Xanthomonas campestris pv. glycine. World J Microbiol Biotechnol. 2014;30:271–80.
pubmed: 23913026
doi: 10.1007/s11274-013-1451-9
Chun J. Computer Assisted Classification and Identification of Actinomycetes. Doctoral dissertation, Newcastle upon Tyne:Newcastle University;1995.
Yoon S-H, Ha SM, Kwon S, Lim J, Kim Y, Seo H, et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol. 2017;67:1613–7.
pubmed: 28005526
pmcid: 5563544
doi: 10.1099/ijsem.0.001755
Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 1987;4:406–25.
pubmed: 3447015
Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool. 1971;20:406–16.
doi: 10.2307/2412116
Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol. 1981;17:368–76.
pubmed: 7288891
doi: 10.1007/BF01734359
Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution. 1985;39:783–91.
pubmed: 28561359
doi: 10.2307/2408678
Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol. 2017;33:1870–4.
doi: 10.1093/molbev/msw054
Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 2012;19:455–77.
pubmed: 22506599
pmcid: 3342519
doi: 10.1089/cmb.2012.0021
Gurevich A, Saveliev V, Vyahhi N, Tesler G. QUAST: quality assessment tool for genome assemblies. Bioinformatics. 2013;29:1072–5.
pubmed: 23422339
pmcid: 3624806
doi: 10.1093/bioinformatics/btt086
Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP, Zaslavsky L, et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res. 2016;44:6614–24.
pubmed: 27342282
pmcid: 5001611
doi: 10.1093/nar/gkw569
Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics. 2016;32:929–31.
pubmed: 26576653
doi: 10.1093/bioinformatics/btv681
Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinform. 2013;14:1–14.
doi: 10.1186/1471-2105-14-60
Meier-Kolthoff JP, Göker M. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun. 2019;10:2182.
pubmed: 31097708
pmcid: 6522516
doi: 10.1038/s41467-019-10210-3
Blin K, Shaw S, Steinke K, Villebro R, Ziemert N, Lee SY, et al. AntiSMASH 5.0: updates to the secondary metabolite genome mining pipeline. Nucleic Acids Res. 2019;47:W81–7.
pubmed: 31032519
pmcid: 6602434
doi: 10.1093/nar/gkz310
Chun J, Oren A, Ventosa A, Christensen H, Arahal DR, da Costa MS, et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol. 2018;68:461–6.
pubmed: 29292687
doi: 10.1099/ijsem.0.002516
Miyadoh S, Amano S, Tohyama H, Shomura T. A taxonomic review of the genus Microbispora and a proposal to transfer two species to the genus Actinomadura and to combine ten species into Microbispora rosea. J Gen Microbiol. 1990;136:1905–13.
pubmed: 2283505
doi: 10.1099/00221287-136-9-1905