Skip to main content
SpringerLink
Log in

Proposal of Bacillus ciccensis Liu et al. as a Later Heterotypic Synonym of Cytobacillus solani (Liu et al.) Patel and Gupta Using Comparative Genomic Analysis

  • Published:
Current Microbiology Aims and scope Submit manuscript

Abstract

Bacillus ciccensis and Cytobacillus solani were reported to belong to separate genomic species based on a polyphasic taxonomic approach. However, we found that type strains of B. ciccensis and C. solani should belong to the same genomic species based on the clustering patterns resulting from genome phylogenetic analysis. The average nucleotide identity and digital DNA–DNA hybridization values between the genomes of two type strains were 99.6% and 96.9%, respectively, much higher than 95 ~ 96% and 70% cut-off point proposed and generally accepted species boundary. This result was also supported by a comprehensive comparison of phenotypic characteristics between the two type strains. These results suggested that B. ciccensis and C. solani had the same taxonomic position. Consequently, we propose that B. ciccensis is a later heterotypic synonym of C. solani.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2

Similar content being viewed by others

References

  1. Cohn F (1872) Untersuchung über bakterien. Beiträge zur Biologie der Pflanzen 1:127–224

    Google Scholar 

  2. Liu B, Liu GH, Sengonca C, Schumann P, Ge CB, Wang JP, Cui WD, Lin NQ (2015) Bacillussolani sp. nov., isolated from rhizosphere soil of a potato field. Int J Syst Evol Microbiol 65(11):4066–4071

    Article  CAS  Google Scholar 

  3. Liu Y, Li NN, Eom MK, Schumann P, Zhang X, Cao YH, Ge YY, Xiao M, Zhao JR, Cheng C, Kim SG (2017) Bacillusciccensis sp. nov., isolated from maize (Zeamays L.) seeds. Int J Syst Evol Microbiol 67(11):4606–4611

    Article  CAS  Google Scholar 

  4. Patel S, Gupta RS (2020) A phylogenomic and comparative genomic framework for resolving the polyphyly of the genus Bacillus: proposal for six new genera of Bacillusspecies, peribacillus gen. nov., cytobacillus gen. nov., mesobacillus gen. nov., neobacillus gen. nov., metabacillus gen. nov. and alkalihalobacillus gen. nov. Int J Syst Evol Microbiol 70(1):406–438

    Article  CAS  Google Scholar 

  5. Meier-Kolthoff JP, Göker M (2019) TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 10(1):2182

    Article  Google Scholar 

  6. Lefort V, Desper R, Gascuel O (2015) FastME 2.0: a comprehensive, accurate, and fast distance-based phylogeny inference program. Mol Biol Evol 32(10):2798–2800

    Article  CAS  Google Scholar 

  7. Richter M, RossellóMóra R, Glöckner FO, Peplies J (2015) JspeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 32(6):681–931

    Google Scholar 

  8. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14(1):60

    Article  Google Scholar 

  9. Jensen A, Scholz CFP, Kilian M (2016) Re-evaluation of the taxonomy of the mitis group of the genus Streptococcus based on whole genome phylogenetic analyses, and proposed reclassification of Streptococcus dentisani asStreptococcus oralissubsp. dentisani comb. nov., Streptococcus tigurinus as Streptococcus oralis subsp. tigurinus comb. nov., and Streptococcus oligofermentans as a later synonym of Streptococcus cristatus. Int J Syst Evol Microbiol 66(11):4803–4820

    Article  CAS  Google Scholar 

  10. Rodriguez-R LM, Gunturu S, Harvey WT, Rosselló-Mora R, Tiedje JM, Cole JR, Konstantinidis KT (2018) The microbial genomes atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level. Nucleic Acids Res 46(W1):W282–W288

    Article  CAS  Google Scholar 

  11. Deloger M, El Karoui M, Petit MA (2009) A genomic distance based on MUM indicates discontinuity between most bacterial species and genera. J Bacteriol 191(1):91–99

    Article  CAS  Google Scholar 

  12. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR, da Costa MS, Rooney AP, Yi H, Xu XW, Meyer SD, Trujillo ME (2018) Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 68(1):461–466

    Article  CAS  Google Scholar 

  13. Tamura T, Matsuzawa T, Oji S, Ichikawa N, Hosoyama A, Katsumata H, Yamazoe A, Hamada M, Suzuki KI, Gonoi T, Fujita N (2012) A genome sequence-based approach to taxonomy of the genus Nocardia. Antonie Van Leeuwenhoek 102(3):481–491

    Article  Google Scholar 

  14. Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA–DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 44(4):846–849

    Article  CAS  Google Scholar 

  15. Richter M, Rosselló-Móra R (2009) Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 106(45):19126–19131

    Article  CAS  Google Scholar 

  16. Parker CT, Tindall BJ, Garrity GM (2019) International code of nomenclature of prokaryotes. Int J Syst Evol Microbiol 69(1A):S1–S111

    Article  Google Scholar 

  17. Farris JS (1972) Estimating phylogenetic trees from distance matrices. Am Nat 106(951):645–667

    Article  Google Scholar 

Download references

Acknowledgements

This research was supported by the key scientific research foundation of department of education of Hunan Province, China (No.17A072).

Author information

Authors and Affiliations

  1. School of Life Science, Hunan University of Science and Technology, Xiangtan, 411201, China

    Yihui Guo, Siren Hu, Kaiqin Li, Tang Xinke, Yuandong Sun & Jian Gao

  2. Key Laboratory of Ecological Remediation and Safe Utilization of Heavy Metal-Polluted Soils, College of Hunan Province, Xiangtan, 411201, China

    Jian Gao

Authors
  1. Yihui Guo
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Siren Hu
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Kaiqin Li
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Tang Xinke
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Yuandong Sun
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Jian Gao
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Jian Gao.

Ethics declarations

Conflict of interest

The authors declare that they have no conflict of interest.

Additional information

Publisher's Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Yihui Guo and Siren Hu equally contributed to this work.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Guo, Y., Hu, S., Li, K. et al. Proposal of Bacillus ciccensis Liu et al. as a Later Heterotypic Synonym of Cytobacillus solani (Liu et al.) Patel and Gupta Using Comparative Genomic Analysis. Curr Microbiol 78, 843–847 (2021). https://doi.org/10.1007/s00284-020-02307-6

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00284-020-02307-6

Search

Navigation