Draft genome sequence of Enterobacter cloacae ST473 harbouring blaCMH-3 isolated from a human patient diagnosed with recurrent bacteriuria in Nigeria

  1. Ebuka Elijah David
  2. Ikechuku Okorie Igwenyi
  3. Ifeanyichukwu Romanus Iroha
  4. Layla Farage Martins
  5. Guillermo Uceda-Campos
  6. Aline Maria da Silva

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Abstract

Enterobacter cloacae is among the most frequently isolated species described in clinical infections and is commonly associated with a multidrug resistance (MDR) phenotype. We present the draft genome sequence of a MDR E. cloacae isolated in Nigeria from the urine sample of an adult male outpatient diagnosed with symptomatic recurrent bacteriuria. The isolate was found to be resistant to ceftriaxone, cefotaxime, cefepime and levofloxacin. Genome analysis revealed the presence of the beta-lactamase chromosomal gene bla CMH-3, which may be responsible for the antibiotic resistance observed in the recurrent E. cloacae urinary tract infection.

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  1. Version published to 10.1099/acmi.0.000565.v3 on Access Microbiology
  3. Access Microbiology

    Comments to Author

    Thank you for considering my recommendations.

    Please rate the manuscript for methodological rigour

    Good

    Please rate the quality of the presentation and structure of the manuscript

    Good

    To what extent are the conclusions supported by the data?

    Partially support

    Do you have any concerns of possible image manipulation, plagiarism or any other unethical practices?

    No

    Is there a potential financial or other conflict of interest between yourself and the author(s)?

    No

    If this manuscript involves human and/or animal work, have the subjects been treated in an ethical manner and the authors complied with the appropriate guidelines?

    Yes

  4. Access Microbiology

    Comments to Author

    The authors have effectively addressed the feedback provided during the initial review. Given that this article presents a concise communication announcing the genome of a clinically significant bacterium, I highly recommend its publication in the journal. However, I do suggest further refinement of the language to enhance the clarity of the message through a thorough language review.

    Please rate the manuscript for methodological rigour

    Good

    Please rate the quality of the presentation and structure of the manuscript

    Satisfactory

    To what extent are the conclusions supported by the data?

    Strongly support

    Do you have any concerns of possible image manipulation, plagiarism or any other unethical practices?

    No

    Is there a potential financial or other conflict of interest between yourself and the author(s)?

    No

    If this manuscript involves human and/or animal work, have the subjects been treated in an ethical manner and the authors complied with the appropriate guidelines?

    Yes

  5. Version published to 10.1099/acmi.0.000565.v2 on Access Microbiology
  7. Access Microbiology

    Comments to Author

    The article is a genome announcement. The use of genome analysis to identify the resistance mechanism is a commendable approach, as it provides a detailed understanding of the genetic basis of resistance.The presence of the beta-lactamase chromosomal gene blaCMH-3 is an important finding, as it sheds light on the mechanism of resistance to beta-lactam antibiotics in this isolate. The findings of this study could have implications for the management of patients with recurrent urinary tract infections caused by MDR E. cloacae, particularly in regions with limited resources for microbiological testing and antibiotic susceptibility testing. The article does not discuss any potential limitations of the study, such as selection bias, potential contamination of the sample, or limitations of the genome analysis.Such discussion would is of importance to evaluate the robustness of the findings and their implications for clinical practice. Further I have noted some typographical errors Eg; - Enterobacter cloacae is written in different ways eg : 'cloacae' in line 31 and 'cloaca' in line 58, please strict to one correct way In summery, the article comprised of a concise genome announcement which is of a an organism with some clinical implications. I would suggest to expand the article including the potential limitations and to correct the grammar and spelling errors.

    Please rate the manuscript for methodological rigour

    Good

    Please rate the quality of the presentation and structure of the manuscript

    Satisfactory

    To what extent are the conclusions supported by the data?

    Strongly support

    Do you have any concerns of possible image manipulation, plagiarism or any other unethical practices?

    No

    Is there a potential financial or other conflict of interest between yourself and the author(s)?

    No

    If this manuscript involves human and/or animal work, have the subjects been treated in an ethical manner and the authors complied with the appropriate guidelines?

    No: Although a human biological sample is used no identification details mentioned. It has been mentioned that Nigerian guidelines states ethical approval is not necessary, anyway, its better if the authors have given reference ti the said guidelines

  8. Access Microbiology

    Comments to Author

    I have some recommendations: Abstract: The authors say "asimptomatic bacteriuria" in the abstract, and "urinary tract infection" (line 60) in the main text. This is not the same. Which is the correct one? Announcement: Line 40: Enterobacter cloacae complex (italiziced) Line 44: amoxicillin (with clavulanic acid?) Line 45: Please, remove the sentence "as well as to the acquisition of numerous genetic mobile...." Line 65: What year are the CLSI guides used? Please, add it. Line 69: I don't see the result in the text of the modified DDST. Please, could you add it? Line 72: In the "Intermediate resistance to cefepime", please, add the MIC to cefepime. Line 73: The isolate was susceptible to amoxicillin-clavulanic acid?? E. cloacae has intrinsic resistance to this antibiotic. Please, could you explain it? Line 75: It is unusual resistance to levofloxacin and intermediate resistance to ciprofloxacin. Please, confirm it and add the MIC to both antibiotics. Line 109: ESBL phenothype? Is this correct? blaCMH-3 is a class C betalactamase that confers a AmpC phenotype.

    Please rate the manuscript for methodological rigour

    Satisfactory

    Please rate the quality of the presentation and structure of the manuscript

    Good

    To what extent are the conclusions supported by the data?

    Partially support

    Do you have any concerns of possible image manipulation, plagiarism or any other unethical practices?

    No

    Is there a potential financial or other conflict of interest between yourself and the author(s)?

    No

    If this manuscript involves human and/or animal work, have the subjects been treated in an ethical manner and the authors complied with the appropriate guidelines?

    Yes

  9. Version published to 10.1099/acmi.0.000565.v1 on Access Microbiology