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Streptomycetaceae

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Streptomycetaceae
Slide culture of a Streptomyces species
Scientific classification Edit this classification
Domain: Bacteria
Phylum: Actinomycetota
Class: Actinomycetia
Order: Streptomycetales
Cavalier-Smith 2002[2]
Family: Streptomycetaceae
Waksman and Henrici 1943 (Approved Lists 1980)[1]
Genera[3]

See text

Synonyms
  • "Actinosporangiaceae" Couch 1955
  • Allostreptomycetaceae Salam et al. 2020

Streptomycetaceae is a family of the class Actinomycetota, making up the monotypic order Streptomycetales. It includes the important genus Streptomyces. This was the original source of many antibiotics, namely streptomycin, the first antibiotic against tuberculosis.

Genomics

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Sequence alignments of actinomycetotal genomes have led to the identification of three conserved signature indels which are unique to the order Streptomycetales. The enzyme PBGD contains a four-amino-acid insertion which is present in all Streptomyces species and Kitasatospora setae, but not any other Actinomycetota. Similarly, a one- amino-acid insertion is present in a conserved region of adenylate kinase and is found in all Streptomyces species and K. setae, but is not found in any other Actinomycetota. Five conserved signature proteins have also been identified which are present in various sequenced Streptomyces species, but not in K. setae; however, as the complete genome of K. setae has not yet been sequenced, these proteins may be present in K. setae. Additionally, 11 conserved signature proteins have been identified which are found in all sequenced Streptomyces species and K. setae. These proteins are believed to be unique to the Streptomycetales order, thus provide molecular markers which can be used to distinguish this group from the rest of the Actinomycetota. Phylogenetic trees indicate that the order Catenulisporales is closely related to the order Streptomycetales. This inference is supported by a one-amino-acid conserved signature indel which is uniquely found in all Streptomycetales species and Catenulisporales acidiphilia, the only Catenulisporales species whose complete genome has been sequenced. Additionally, three conserved signature proteins have been identified which are found in all Streptomycetales species and C. acidiphilia. Both the conserved signature indel and the conserved signature proteins provide evidence that the orders Streptomycetales and Catenulisporales are closely related.[4]

Phylogeny

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The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN)[3] and National Center for Biotechnology Information (NCBI)[5]

Whole-genome analysis[6][a] 16S rRNA based LTP_08_2023[7][8][9] 120 marker proteins based GTDB 08-RS214[10][11][12]

Catenulisporales

Motilibacterales
Streptomycetales

Allostreptomyces

Streptomyces burgazadensis Saricaoglu et al. 2014

Yinghuangia soli

Embleya

Yinghuangia

Streptomyces [incl. Kitasatospora;
Mangrovactinospora; Peterkaempfera;
Phaeacidiphilus; Streptacidiphilus; Wenjunlia; Actinacidiphila; Streptantibioticus]

Streptomycetaceae
Catenulisporales

Catenulisporaceae

Streptomycetales
Carbonactinosporaceae

Carbonactinospora thermoautotrophica
(Gadkari et al. 1991) Volpiano et al. 2021

Streptomycetaceae

Embleya Nouioui et al. 2018

Yinghuangia Nouioui et al. 2018

Allostreptomyces Huang et al. 2017

Mangrovactinospora Madhaiyan et al. 2022

Phaeacidiphilus Madhaiyan et al. 2022

Streptacidiphilus Kim et al. 2003

Peterkaempfera Madhaiyan et al. 2022

Kitasatospora corrig. Ōmura et al. 1983

Wenjunlia Madhaiyan et al. 2022

Streptomyces Waksman and Henrici 1943 [inc. Actinacidiphila Madhaiyan et al. 2022; Streptantibioticus Madhaiyan et al. 2022]

Genera incertae sedis:

  • "Marinispora" Kwon et al. 2006
  • "Parastreptomyces" Nichols et al. 2005
  • "Trichotomospora" Lian, Liu & Zhang 1985
  • "Verticillomyces Shinobu 1965

See also

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Notes

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  1. ^ Allostreptomyces is not included in this phylogenetic tree.

References

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  1. ^ Waksman SA, Henrici AT (1943). "The Nomenclature and Classification of the Actinomycetes". J Bacteriol. 46 (4): 337–341. doi:10.1128/jb.46.4.337-341.1943. PMC 373826. PMID 16560709. S2CID 8824754.
  2. ^ Cavalier-Smith T. (2002). "The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification". Int J Syst Evol Microbiol. 52 (Pt 1): 7–76. doi:10.1099/00207713-52-1-7. PMID 11837318.
  3. ^ a b A.C. Parte; et al. "Streptomycetaceae". List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved 2023-09-09.
  4. ^ Gao, B.; Gupta, R. S. (2012). "Phylogenetic Framework and Molecular Signatures for the Main Clades of the Phylum Actinobacteria". Microbiology and Molecular Biology Reviews. 76 (1): 66–112. doi:10.1128/MMBR.05011-11. PMC 3294427. PMID 22390973.
  5. ^ Sayers; et al. "Streptomycetaceae". National Center for Biotechnology Information (NCBI) taxonomy database. Retrieved 2023-09-09.
  6. ^ Nouioui I, Carro L, García-López M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Markus Göker M (2018). "Genome-Based Taxonomic Classification of the Phylum Actinobacteria". Front. Microbiol. 9: 2007. doi:10.3389/fmicb.2018.02007. PMC 6113628. PMID 30186281.
  7. ^ "The LTP". Retrieved 20 November 2023.
  8. ^ "LTP_all tree in newick format". Retrieved 20 November 2023.
  9. ^ "LTP_08_2023 Release Notes" (PDF). Retrieved 20 November 2023.
  10. ^ "GTDB release 08-RS214". Genome Taxonomy Database. Retrieved 10 May 2023.
  11. ^ "bac120_r214.sp_label". Genome Taxonomy Database. Retrieved 10 May 2023.
  12. ^ "Taxon History". Genome Taxonomy Database. Retrieved 10 May 2023.
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Data related to Streptomycetaceae at Wikispecies

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