Skip to main content
SpringerLink
Log in

Acinetobacter chinensis, a novel Acinetobacter species, carrying blaNDM-1, recovered from hospital sewage

  • Published:
Journal of Microbiology Aims and scope Submit manuscript

Abstract

Two strains of the genus Acinetobacter, named WCHAc010005 and WCHAc010052, were isolated from hospital sewage at West China Hospital in Chengdu, China. The two strains were found to be resistant to carbapenems due to the presence of carbapenemase gene blaNDM-1. Based on the comparative analysis of the rpoB sequence, the two strains formed a strongly supported and internally coherent cluster (intracluster identity of 98.7%), which was clearly separated from all known Acinetobacter species (≤ 83.4%). The two strains also formed a tight and distinct cluster based on the genuswide comparison of whole-cell mass fingerprints generated by MALDI-TOF mass spectrometry. In addition, the combination of their ability to assimilate malonate but not benzoate, and the inability to grow at 37°C could distinguish the two strains from all known Acinetobacter species. The two strains were subjected to whole genome sequencing using both short-read Illumina HiSeq2500 platform and the longread MinION sequencer. The average nucleotide identity and in silico DNA-DNA hybridization value between the genomes of WCHAc010005 and WCHAc010052 was 96.69% and 74.3% respectively, whereas those between the two genomes and the known Acinetobacter species were < 80% and < 30%, respectively. Therefore, the two strains represent a novel species of the genus Acinetobacter, for which the name Acinetobacter chinensis sp. nov. is proposed, and the type strain is WCHAc- 010005T (= GDMCC 1.1232T = KCTC 61813T).

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

Similar content being viewed by others

References

  • CLSI (Clinical and Laboratory Standards Institute). 2017. Performance standards for antimicrobial susceptibility testing; wentythird informational supplement. M100-S27. Wayne, PA, USA.

    Google Scholar 

  • Doughari, H.J., Ndakidemi, P.A., Human, I.S., and Benade, S. 2011. The ecology, biology and pathogenesis of Acinetobacter spp.: an overview. Microbes Environ. 26, 101–112.

    Article  PubMed  Google Scholar 

  • Hu, Y., Feng, Y., Qin, J., Radolfova-Krizova, L., Maixnerova, M., Zhang, X., Nemec, A., and Zong, Z. 2018. Acinetobacter wuhouensis sp. nov., isolated from hospital sewage. Int. J. Syst. Evol. Microbiol. 68, 3212–3216.

    Article  CAS  PubMed  Google Scholar 

  • Hu, Y., Feng, Y., Zhang, X., and Zong, Z. 2017. Acinetobacter defluvii sp. nov., recovered from hospital sewage. Int. J. Syst. Evol. Microbiol. 67, 1709–1713.

    Article  CAS  PubMed  Google Scholar 

  • Krawczyk, B., Lewandowski, K., and Kur, J. 2002. Comparative studies of the Acinetobacter genus and the species identification method based on the recA sequences. Mol. Cell. Probes 16, 1–11.

    Article  CAS  PubMed  Google Scholar 

  • Krizova, L., Maixnerova, M., Sedo, O., and Nemec, A. 2015. Acinetobacter albensis sp. nov., isolated from natural soil and water ecosystems. Int. J. Syst. Evol. Microbiol. 65, 3905–3912.

    Article  CAS  PubMed  Google Scholar 

  • Lane, D. 1991. 16S/23S rRNA sequencing, pp. 115–175. In Stackebrandt, E. and Goodfellow, M. (eds.), Nucleic acid techniques in bacterial systematics. John Wiley and Sons, Chichester, UK.

    Google Scholar 

  • Meier-Kolthoff, J.P., Auch, A.F., Klenk, H.P., and Goker, M. 2013. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14, 60.

    Article  PubMed  PubMed Central  Google Scholar 

  • Nemec, A., Musilek, M., Maixnerova, M., De Baere, T., van der Reijden, T.J., Vaneechoutte, M., and Dijkshoorn, L. 2009. Acinetobacter beijerinckii sp. nov. and Acinetobacter gyllenbergii sp. nov., haemolytic organisms isolated from humans. Int. J. Syst. Evol. Microbiol. 59, 118–124.

    Article  CAS  PubMed  Google Scholar 

  • Perez, F., Hujer, A.M., Hujer, K.M., Decker, B.K., Rather, P.N., and Bonomo, R.A. 2007. Global challenge of multidrug-resistant Acinetobacter baumannii. Antimicrob. Agents Chemother. 51, 3471–3484.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Poirel, L. and Nordmann, P. 2006. Carbapenem resistance in Acinetobacter baumannii: mechanisms and epidemiology. Clin. Microbiol. Infect. 12, 826–836.

    Article  CAS  PubMed  Google Scholar 

  • Radolfova-Krizova, L., Maixnerova, M., and Nemec, A. 2016. Acinetobacter celticus sp. nov., a psychrotolerant species widespread in natural soil and water ecosystems. Int. J. Syst. Evol. Microbiol. 66, 5392–5398.

    Article  CAS  PubMed  Google Scholar 

  • Richter, M. and Rossello-Mora, R. 2009. Shifting the genomic gold standard for the prokaryotic species definition. Proc. Natl. Acad. Sci. USA 106, 19126–19131.

    Article  PubMed  PubMed Central  Google Scholar 

  • Rolain, J.M., Parola, P., and Cornaglia, G. 2010. New Delhi metallo-β-lactamase (NDM-1): towards a new pandemia? Clin. Microbiol. Infect. 16, 1699–1701.

    Article  CAS  PubMed  Google Scholar 

  • Rossello-Mora, R. and Amann, R. 2015. Past and future species definitions for bacteria and archaea. Syst. Appl. Microbiol. 38, 209–216.

    Article  PubMed  Google Scholar 

  • Stamatakis, A. 2014. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30, 1312–1313.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Walker, B.J., Abeel, T., Shea, T., Priest, M., Abouelliel, A., Sakthikumar, S., Cuomo, C.A., Zeng, Q., Wortman, J., Young, S.K., et al. 2014. Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement. PLoS One 9, e112963.

    Article  CAS  Google Scholar 

  • Wick, R.R., Judd, L.M., Gorrie, C.L., and Holt, K.E. 2017. Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads. PLoS Comput. Biol. 13, e1005595.

    Article  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Center of Infectious Diseases, West China Hospital, Sichuan University, Chengdu, 610041, P. R. China

    Yiyi Hu, Yu Feng, Jiayuan Qin, Xiaoxia Zhang & Zhiyong Zong

  2. Division of Infectious Diseases, State Key Laboratory of Biotherapy, Chengdu, 610041, P. R. China

    Yiyi Hu, Yu Feng, Jiayuan Qin, Xiaoxia Zhang & Zhiyong Zong

  3. Center for Pathogen Research, West China Hospital, Sichuan University, Chengdu, 610041, P. R. China

    Zhiyong Zong

Authors
  1. Yiyi Hu
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Yu Feng
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Jiayuan Qin
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Xiaoxia Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Zhiyong Zong
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Zhiyong Zong.

Additional information

Supplemental material for this article may be found at http://www.springerlink.com/content/120956.

Electronic supplementary material

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Hu, Y., Feng, Y., Qin, J. et al. Acinetobacter chinensis, a novel Acinetobacter species, carrying blaNDM-1, recovered from hospital sewage. J Microbiol. 57, 350–355 (2019). https://doi.org/10.1007/s12275-019-8485-0

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12275-019-8485-0

Keywords

Search

Navigation