in

Amycolatopsis acididurans sp. nov., isolated from peat swamp forest soil in Thailand

  • 1.

    Salam N, Jiao J-Y, Zhang X-T, Li W-J. Update on the classification of higher ranks in the phylum Actinobacteria. Int J Syst Evol Microbiol. 2020;70:1331–55.

    CAS  Article  Google Scholar 

  • 2.

    Ningsih F, et al. Gandjariella thermophila gen. nov., sp. nov., a new member of the family Pseudonocardiaceae, isolated from forest soil in a geothermal area. Int J Syst Evol Microbiol. 2019;69:3080–6.

    CAS  Article  Google Scholar 

  • 3.

    Nouioui I, et al. Genome-based taxonomic classification of the phylum Actinobacteria. Front Microbiol. 2018;9:2007.

    Article  Google Scholar 

  • 4.

    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.

    Article  Google Scholar 

  • 5.

    Alanjary M, Steinke K, Ziemert N. AutoMLST: an automated web server for generating multi-locus species trees highlighting natural product potential. Nucleic Acids Res. 2019;47:W276–82.

    CAS  Article  Google Scholar 

  • 6.

    Teo WFA, Srisuk N, Duangmal K. Amycolatopsis acidicola sp. nov., isolated from peat swamp forest soil. Int J Syst Evol Microbiol. 2020;70:1547–54.

    CAS  Article  Google Scholar 

  • 7.

    Niu M-M, et al. Amycolatopsis nivea sp. nov., isolated from a Yellow River sample. Int J Syst Evol Microbiol. 2020;70:3084–90.

    CAS  Article  Google Scholar 

  • 8.

    Narsing Rao MP, et al. Amycolatopsis alkalitolerans sp. nov., isolated from Gastrodia elata Blume. J Antibiot. 2020;73:35–39.

    CAS  Article  Google Scholar 

  • 9.

    Mingma R, Inahashi Y, Matsumoto A, Takahashi Y, Duangmal K. Amycolatopsis pithecelloba sp. nov., a novel actinomycete isolated from roots of Pithecellobium dulce in Thailand. J Antibiot. 2020;73:230–5.

    CAS  Article  Google Scholar 

  • 10.

    Wang H-F, et al. Amycolatopsis anabasis sp. nov., a novel endophytic actinobacterium isolated from roots of Anabasis elatior. Int J Syst Evol Microbiol. 2020;70:3391–8.

    CAS  Article  Google Scholar 

  • 11.

    Sangal V, et al. Revisiting the taxonomic status of the biomedically and industrially important genus Amycolatopsis, using a phylogenomic approach. Front Microbiol. 2018;9:2281.

    Article  Google Scholar 

  • 12.

    Adamek M, et al. Comparative genomics reveals phylogenetic distribution patterns of secondary metabolites in Amycolatopsis species. BMC Genomics. 2018;19:426.

    Article  Google Scholar 

  • 13.

    Waksman SA. The Actinomycetes: their nature, occurrence, activities, and importance. Waltham, Massachusetts: Chronica Botanica Company; 1950.

  • 14.

    Donadio S, Cavaletti L, Monciardini P. Genus I Actinospica Cavaletti, Monciardini, Schumann, Rohde, Bamonte, Busti, Sosio and Donadio 2006, 1751VP. In: Goodfellow M, et al., editors. Bergey’s Manual of Systematic Bacteriology. 2nd. New York: Springer; 2012. p. 232–4.

  • 15.

    Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol. 1966;16:313–40.

    Article  Google Scholar 

  • 16.

    Tan GYA, Ward AC, Goodfellow M. Exploration of Amycolatopsis diversity in soil using genus-specific primers and novel selective media. Syst Appl Microbiol. 2006;29:557–69.

    CAS  Article  Google Scholar 

  • 17.

    Williams ST, Davies FL, Mayfield CI, Khan MR. Studies on the ecology of actinomycetes in soil—II: The pH requirements of streptomycetes from two acid soils. Soil Biol Biochem. 1971;3:187–95.

    CAS  Article  Google Scholar 

  • 18.

    Flowers TH, Williams ST. Nutritional requirements of acidophilic streptomycetes. Soil Biol Biochem. 1977;9:225–6.

    CAS  Article  Google Scholar 

  • 19.

    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.

    CAS  Article  Google Scholar 

  • 20.

    Hasegawa T, Takizawa M, Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol. 1983;29:319–22.

    CAS  Article  Google Scholar 

  • 21.

    Staneck JL, Roberts GD. Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol. 1974;28:226–31.

    CAS  Article  Google Scholar 

  • 22.

    Tomiyasu I. Mycolic acid composition and thermally adaptative changes in Nocardia asteroides. J Bacteriol. 1982;151:828–37.

    CAS  Article  Google Scholar 

  • 23.

    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.

    CAS  Google Scholar 

  • 24.

    Kieser T, Bibb MJ, Buttner MJ, Chater KF, Hopwood DA. Practical Streptomyces Genetics. Norwich: John Innes Foundation; 2000.

  • 25.

    Bankevich A, et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol. 2012;19:455–77.

    CAS  Article  Google Scholar 

  • 26.

    Gurevich A, Saveliev V, Vyahhi N, Tesler G. QUAST: quality assessment tool for genome assemblies. Bioinformatics. 2013;29:1072–5.

    CAS  Article  Google Scholar 

  • 27.

    Tatusova T, et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res. 2016;44:6614–24.

    CAS  Article  Google Scholar 

  • 28.

    Cosentino S, Voldby Larsen M, Møller Aarestrup F, Lund O. PathogenFinder—distinguishing friend from foe using bacterial whole genome sequence data. PLoS ONE. 2013;8:e77302.

    CAS  Article  Google Scholar 

  • 29.

    Blin K, et al. AntiSMASH 5.0: updates to the secondary metabolite genome mining pipeline. Nucleic Acids Res. 2019;47:W81–7.

    CAS  Article  Google Scholar 

  • 30.

    Chun J, 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.

    CAS  Article  Google Scholar 

  • 31.

    Yoon S-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.

    CAS  Article  Google Scholar 

  • 32.

    Tarlachkov SV, Starodumova IP. TaxonDC: calculating the similarity value of the 16S rRNA gene sequences of prokaryotes or ITS regions of fungi. J Bioinf Genom. 2017;3:1–4.

    Google Scholar 

  • 33.

    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.

    CAS  Article  Google Scholar 

  • 34.

    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.

    Article  Google Scholar 

  • 35.

    Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol. 2017;33:1870–4.

    Article  Google Scholar 

  • 36.

    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.

    Article  Google Scholar 

  • 37.

    Lechevalier MP, De Bievre C, Lechevalier H. Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol. 1977;5:249–60.

    CAS  Article  Google Scholar 

  • 38.

    Lechevalier MP, Lechevalier H. Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Evol Microbiol. 1970;20:435–43.

    CAS  Google Scholar 

  • 39.

    Seyedsayamdost MR, Traxler MF, Zheng S-L, Kolter R, Clardy J. Structure and biosynthesis of amychelin, an unusual mixed-ligand siderophore from Amycolatopsis sp. AA4. J Am Chem Soc. 2011;133:11434–7.

    CAS  Article  Google Scholar 

  • 40.

    Kodani S, Komaki H, Suzuki M, Hemmi H, Ohnishi-Kameyama M. Isolation and structure determination of new siderophore albachelin from Amycolatopsis alba. BioMetals. 2015;28:381–9.

    CAS  Article  Google Scholar 


  • Source: Ecology - nature.com

    Saudi Arabia faces increased heat, humidity, precipitation extremes by mid-century

    Technique reveals deeper insights into the makeup of nacre, a natural material