{"paper_id":"3fd83a3e-e788-45d0-8b0d-7d4bfc10206c","body_text":"Review Tool reports\nUNDERSTANDING AND CONTEXTUALIZING THE REPORTS\nReaders of these automated manuscript Review Tool reports are encouraged to use them to support them in performing their \nown assessment and ‘health check’ on a preprint prior to it completing peer review.\nHowever, these should only be used as a guide, read within the overall context of the article itself, and should never replace \nfull peer review. Please ensure you read the article fully alongside these and familiarize yourself with the tools and how they \nwork, using the links provided below.\nThese reports are published under the terms of the Creative Commons Attribution License\nSCISCORE® REPORTS: MDAR CHECKLIST FOR AUTHORS AND SCISCORE CORE REPORT\nSciScore® (https://sciscore.com) scans the methodology section of an article for important scientific rigour criteria and key \nbiological resources and highlights if these are accessible or have problems associated. The Materials, Design, Analysis, and \nReporting (MDAR) report and Core report generated from this are included here for transparency and can be cited \nindependently using the DOI below.\n•    Information on the MDAR report: https://sciscore.com/reports/MDAR-Report.php\n•    Information on the Core report: https://sciscore.com/reports/Core-Report.php\nHow to cite the SciScore reports for this article:\nMusah HS, Addy F , Dufailu OA. SciScore reports for: Antimicrobial resistance and molecular characteristics of N. gonorrhoea \nisolates in Ghana. Access Microbiology. 2023. https://doi.org/10.1099/acmi.0.000689.v1.1\nITHENTICATE® REPORT\niThenticate® (https://www.ithenticate.com) checks the submitted article against an extensive database of articles from the \ninternet and scholarly publications and highlights where similar sentences or phrases have been used previously, including in \nthe author’s own published work. Each individual match is given a percentage score based on how much it overlaps with the \npreviously existing work, and an overall similarity score is given. The report generated from this are included here for \ntransparency and can be cited independently using the DOI below.\n•    FAQs: https://www.ithenticate.com/products/faqs\n•    Help pages: https://help.turnitin.com/ithenticate/ithenticate-user/ithenticate-user.htm#TheSimilarityReport\nHow to cite the iThenticate report for this article:\nMusah HS, Addy F , Dufailu OA. iThenticate report for: Antimicrobial resistance and molecular characteristics of N. \ngonorrhoea isolates in Ghana. Access Microbiology. 2023. https://doi.org/10.1099/acmi.0.000689.v1.2\n\nSciScore: 2\nWhat's this?\nDocument Identifier: 2281_64d790b6422720.49447682\nSciScore Report\nBelow you will find your SciScore report containing three tables. Your score is calculated based on\nadherence to scientific rigor criteria (Table 1) and identification of key biological resources (Table 2).\nTable 3 contains statistical tests and oligonucleotides but is not scored. If SciScore makes any mistakes,\nplease contact us  to help us learn and improve.\nTable 1: Rigor Adherence Table\nEthics\nnot detected.\nInclusion and Exclusion Criteria\nnot required.\nAttrition\nnot required.\nSex as a biological variable\nnot detected.\nSubject Demographics\nAge: not detected.\nWeight: not detected.\nRandomization\nnot detected.\nBlinding\nnot detected.\nPower Analysis\nnot detected.\nReplication\nnot required.\nData Information\nAvailability: Data Availability statement: Molecular data has been deposited on Genbank with accompanying\naccession numbers as stated earlier.\n\nTable 2: Key Resources Table\nYour Sentences REAGENT or\nRESOURCE\nSOURCE IDENTIFIER\nExperimental Models: Organisms/Strains\nBriefly , gonococcal DNA sequences\nwere trimmed at consensus regions\nstarting from nucleotide ( nt ) 445\nin reference to N . gonorrhoea strain\nMS11 to yield 490 base pair ( bp )\nfor porB and for tbpB , from nt 1118\nreference to strain UU1008 to yield\n390 bp . nt 1118\nSoftware and Algorithms\nLtd , South Africa using Sanger\nsequencing technology on an ABI\nGenetic Analyser 3500XL ( Thermo\nFisher Scientific® , UK) .\nThermo Fisher\nScientific®\nSuggestion: (Thermo Fisher\nScientific, RRID:SCR_008452)(\nlink)\nMEGA XMEGA X software was employed\nto align sequences using ClustalW\nand to draw the phylogenetic tree\nusing the maximum composite\nlikelihood model while employing\n1000 bootstrap replications to test the\nconfidence of the tree. ClustalW\nSuggestion: (ClustalW,\nRRID:SCR_017277)( link)\nSciScore is an automated tool that is designed to assist expert reviewers by finding and presenting\nformulaic information scattered throughout a paper in a standard, easy to digest format. SciScore is\nnot a substitute for expert review. SciScore also checks for the presence and correctness of several\nunique identifiers, including RRIDs (research resource identifiers) in the manuscript, detects sentences\nthat appear to be missing RRIDs, and can even suggest RRIDs under certain circumstances. All RRID\nsuggestions should be verified; only the author can know whether the suggestions are correct.\nFor a full description of scored criteria and tips for improving your score, please see https://\nwww.scicrunch.com/sciscorereport-faq\n\nMaterials Design Analysis Reporting (MDAR) Checklist for Authors\nThe MDAR framework establishes a minimum set of requirements in transparent reporting applicable to studies\nin the life sciences (see Statement of Task: doi:10.31222/osf.oio/9sm4x.). The MDAR checklist is a tool for\nauthors, editors and others seeking to adopt the MDAR framework for transparent reporting in manuscripts\nand other outputs. Please refer to the MDAR Elaboration Document for additional context for the MDAR\nframework.\nReport provided by SciScore | August 12, 2023 | Based on DocumentID 2281_64d790b6422720.49447682\n\nMaterials\nAntibodies Yes (indicate where provided: page no/section/legend) n/a\nFor commercial reagents, provide supplier name,\ncatalogue number and RRID, if available\nNo antibodes detected.\nPlease add identifiers for all resources where possible\nCell Materials Yes (indicate where provided: page no/section/legend) n/a\nCell lines: Provide species information, strain.\nProvide accession number in repository OR supplier\nname, catalog number, clone number, OR RRID\nNo cell lines detected\nPlease add identifiers for all resources where possible\nPrimary cultures: Provide species, strain, sex of\norigin, genetic modification status.\nNot currently checked by SciScore\nExperimental Animals Yes (indicate where provided: page no/section/legend) n/a\nLaboratory animals: Provide species, strain, sex,\nage, genetic modification status. Provide accession\nnumber in repository OR supplier name, catalog\nnumber, clone number, OR RRID\nYes, 1 organism detected, 0 RRID provided\n:  nt 1118\nPlease add identifiers for all resources where possible\nAnimal observed in or captured from the field: \nProvide species, sex and age where possible\nNot currently checked by SciScore\nModel organisms: Provide Accession number in\nrepository (where relevant) OR RRID\nSee laboratory animals section for information.\nPlants and microbes Yes (indicate where provided: page no/section/legend) n/a\nPlants: provide species and strain, unique accession\nnumber if available, and source (including location for\ncollected wild specimens)\nNot currently checked by SciScore\nMicrobes: provide species and strain, unique\naccession number if available, and source\nNot currently checked by SciScore\nHuman research participants Yes (indicate where provided: page no/section/legend) n/a\nIdentify authority granting ethics approval (IRB or\nequivalent committee(s), provide reference number for\napproval.\nNot detected.\nProvide statement confirming informed consent\nobtained from study participants.\nNot detected.\nReport on age and sex for all study participants. Age:not detected.\nSex:not detected.\nReport provided by SciScore | August 12, 2023 | Based on DocumentID 2281_64d790b6422720.49447682\n\nDesign\nStudy protocol Yes (indicate where provided: page no/section/legend) n/a\nFor clinical trials, provide the trial registration number\nOR cite DOI in manuscript.\nNot detected.\nLaboratory protocol Yes (indicate where provided: page no/section/legend) n/a\nProvide DOI or other citation details if detailed step-\nby-step protocols are available.\nNot detected.\nExperimental study design (statistics details) Yes (indicate where provided: page no/section/legend) n/a\nState whether and how the following have been done,\nor if they were not carried out\n \nSample size determination not detected.\nRandomization not detected.\nBlinding not detected.\ninclusion/exclusion criteria not required.\nSample definition and in-laboratory replication Yes (indicate where provided: page no/section/legend) n/a\nState number of times the experiment was replicated\nin laboratory\nNot detected.\nDefine whether data describe technical or biological\nreplicates\nNot detected.\nEthics Yes (indicate where provided: page no/section/legend) n/a\nStudies involving human participants: State details of\nauthority granting ethics approval (IRB or equivalent\ncommittee(s), provide reference number for approval.\nNot detected.\nStudies involving experimental animals: State\ndetails of authority granting ethics approval (IRB or\nequivalent committee(s), provide reference number for\napproval.\nNot detected.\nStudies involving specimen and field samples: State if\nrelevant permits obtained, provide details of authority\napproving study; if none were required, explain why.\nNot detected.\nDual Use Research of Concern (DURC) Yes (indicate where provided: page no/section/legend) n/a\nIf study is subject to dual use research of concern,\nstate the authority granting approval and reference\nnumber for the regulatory approval\nNot currently checked by SciScore\nReport provided by SciScore | August 12, 2023 | Based on DocumentID 2281_64d790b6422720.49447682\n\nAnalysis\nAttrition Yes (indicate where provided: page no/section/legend) n/a\nState if sample or data point from the analysis is\nexcluded, and whether the criteria for exclusion were\ndetermined and specified in advance.\nnot required.\nStatistics Yes (indicate where provided: page no/section/legend) n/a\nDescribe statistical tests used and justify choice of\ntests.\nNot detected.\nData availability Yes (indicate where provided: page no/section/legend) n/a\nState whether newly created datasets are available,\nincluding protocols for access or restriction on access.\nData Availability statement: Molecular data has been\ndeposited on Genbank with accompanying accession\nnumbers as stated earlier.\nIf data are publicly available, provide accession\nnumber in repository or DOI or URL.\nNot detected.\nIf publicly available data are reused, provide accession\nnumber in repository or DOI or URL, where possible.\nNot detected.\nCode availability Yes (indicate where provided: page no/section/legend) n/a\nFor all newly generated code and software essential\nfor replicating the main findings of the study:\n \nState whether the code or software is available. Not detected.\nIf code is publicly available, provide accession\nnumber in repository, or DOI or URL.\nNot detected.\nReport provided by SciScore | August 12, 2023 | Based on DocumentID 2281_64d790b6422720.49447682\n\nAnalysis\nAdherence to community standards Yes (indicate where provided: page no/section/legend) n/a\nMDAR framework recommends adoption of\ndiscipline-specific guidelines, established and\nendorsed through community initiatives. Journals have\ntheir own policy about requiring specific guidelines\nand recommendations to complement MDAR.\n \nState if relevant guidelines (eg., ICMJE, MIBBI,\nARRIVE) have been followed, and whether a\nchecklist (eg., CONSORT, PRISMA, ARRIVE) is\nprovided with the manuscript.\nNot currently checked by SciScore\nReport provided by SciScore | August 12, 2023 | Based on DocumentID 2281_64d790b6422720.49447682\n\nACMI-S-23-00255.pdf\nBy Haris Musah\nWORD COUNT 5745 TIME SUBMITTED 12-AUG-2023 03:00PM\nPAPER ID 101945729\n\n5\n\n\n4\n5\n1 4\n1 4\n\n\n1\n5\n1 2\n2 0\n2 6\n2 8\n\n\n1\n8\n8\n8\n1 5\n3 0\n\n\n1\n1\n1\n1\n2\n1 5\n\n\n1\n1\n1\n2\n9\n1 1\n1 6\n\n\n1 0\n1 9\n\n\n\n\n\n\n9\n1 3\n2 2\n\n\n\n\n2 7\n\n\n\n\n3\n\n\n7\n7\n7\n2 1\n2 9\n3 1\n\n\n1 7\n1 8\n2 5\n\n\n2 3\n\n\n1\n1\n1\n1 2\n2 4\n\n\n1\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n6\n3 2\n\n\n19%\nSIMILARITY INDEX\n1\n2\n3\n4\n5\n6\n7\nACMI-S-23-00255.pdf\nORIGINALITY REPORT\nPRIMARY SOURCES\nwww.researchsquare.com\nInternet\nassets.researchsquare.com\nInternet\nwww.tandfonline.com\nInternet\nIddrisu Baba Yabasin, Mohammed Mohammed\nIbrahim, Abass Adam, Sam-Awortwi Wilfred et al.\n\"Anticancer effects of vecuronium bromide and cisatracurium\nbesylate on lung cancer cells (A549), in vitro\", Biomedicine &\nAging Pathology, 2014\nCrossref\nwww.science.gov\nInternet\ndiagnostics.roche.com\nInternet\nAna Paula Ramalho da Costa-Lourenço, A.\nJeanine Abrams, Késia Thaís Barros dos Santos,\nIsabella Campelo Vilardi Argentino et al. \"Phylogeny and\nantimicrobial resistance in Neisseria gonorrhoeae isolates from\nRio de Janeiro, Brazil\", Infection, Genetics and Evolution, 2018\nCrossref\n309 words — 7%\n84 words — 2%\n48 words — 1%\n31 words — 1%\n24 words — 1%\n23 words — 1%\n21 words — < 1%\n\n8\n9\n10\n11\n12\n13\n14\nJosé Luis Rodrigues Martins, Emerith Mayra\nHungria Pinto, Salomão Antonio Oliveira,\nFernanda Almeida Costa Gomes et al. \"Treatment of Sexually\nTransmitted Infections (STIs) Caused by Neisseria gonorrhoeae\nand the Global Shortage of Antibiotics\", Venereology, 2022\nCrossref\ndocksci.com\nInternet\nwww.aloki.hu\nInternet\njvm.vam.org.my\nInternet\nA.C Fluit, F.J Schmitz, J Verhoef. \"Multi-resistance\nto antimicrobial agents for the ten most\nfrequently isolated bacterial pathogens\", International Journal\nof Antimicrobial Agents, 2001\nCrossref\nHelmy Mohamed El-Bahar, Nadia Gabr Ali,\nIbrahim Mohamed Aboyadak, Samy Abd El Salam\nKhalil, Madiha Salah Ibrahim. \"Virulence genes contributing to\nAeromonas hydrophila pathogenicity in Oreochromis niloticus\",\nInternational Microbiology, 2019\nCrossref\nSunil Sethi, Daniel Golparian, Manju Bala, Dorji\nDorji, Muhammad Ibrahim, Kausar Jabeen,\nMagnus Unemo. \"Antimicrobial susceptibility and genetic\ncharacteristics of Neisseria gonorrhoeae isolates from India,\nPakistan and Bhutan in 2007–2011\", BMC Infectious Diseases,\n2013\nCrossref\n21 words — < 1%\n20 words — < 1%\n17 words — < 1%\n16 words — < 1%\n14 words — < 1%\n13 words — < 1%\n13 words — < 1%\n\n15\n16\n17\n18\n19\n20\n21\n22\n23\nHaris Sualah Musah, Francis Addy, Osman Adamu\nDufailu. \"Surveillance of N. gonorrhoea in Tamale,\nNorthern Region of Ghana\", Research Square Platform LLC,\n2022\nCrossref Posted Content\nwww.biorxiv.org\nInternet\nstudyres.com\nInternet\nrepo.lib.semmelweis.hu\nInternet\nD. M. Whiley. \"Neisseria gonorrhoeae multi-\nantigen sequence typing using non-cultured clinical\nspecimens\", Sexually Transmitted Infections, 02/01/2010\nCrossref\nRita Tinoco Torres, Mónica V. Cunha, Helena\nFerreira, Carlos Fonseca, Josman Dantas Palmeira.\n\"A high-risk carbapenem-resistant Pseudomonas aeruginosa\nclone detected in red deer (Cervus elaphus) from Portugal\",\nScience of The Total Environment, 2022\nCrossref\njournals.plos.org\nInternet\nwww.ijpir.com\nInternet\nL. Monfort, V. Caro, Z. Devaux, A.-S. Delannoy, S.\nBrisse, P. Sednaoui. \"First Neisseria gonorrhoeae\nGenotyping Analysis in France: Identification of a Strain Cluster\n12 words — < 1%\n12 words — < 1%\n11 words — < 1%\n10 words — < 1%\n9 words — < 1%\n9 words — < 1%\n9 words — < 1%\n9 words — < 1%\n8 words — < 1%\n\n24\n25\n26\n27\n28\n29\n30\nwith Reduced Susceptibility to Ceftriaxone\", Journal of Clinical\nMicrobiology, 2009\nCrossref\nT. A. Ogunnusi, O. Olorunfemi. \"Isolation and\nIdentification of Proteolytic and Lipolytic Bacteria\nin Cow Dung and Abattoir Effluent from Ekiti General Abattoir,\nEkiti State, Nigeria\", Journal of Advances in Microbiology, 2018\nCrossref\nir.jkuat.ac.ke\nInternet\nmdpi-res.com\nInternet\ntheses.ncl.ac.uk\nInternet\nwww.mjhid.org\nInternet\nM. Unemo. \"High-level cefixime- and ceftriaxone-\nresistant N. gonorrhoeae in Europe (France): novel\npenA mosaic allele in a successful international clone causes\ntreatment failure\", Antimicrobial Agents and Chemotherapy,\n12/12/2011\nCrossref\nBeata Mlynarczyk-Bonikowska, Cezary Kowalewski,\nAneta Krolak-Ulinska, Wojciech Marusza.\n\"Molecular Mechanisms of Drug Resistance and Epidemiology\nof Multidrug-Resistant Variants of Neisseria gonorrhoeae\",\nInternational Journal of Molecular Sciences, 2022\nCrossref\n8 words — < 1%\n8 words — < 1%\n8 words — < 1%\n8 words — < 1%\n8 words — < 1%\n7 words — < 1%\n6 words — < 1%\n\n31\n32\nEXCLUDE QUOTES OFF\nEXCLUDE BIBLIOGRAPHY ON\nEXCLUDE SOURCES OFF\nEXCLUDE MATCHES OFF\nIrene Martin. \"Emergence and Characterization of\nNeisseria gonorrhoeae Isolates With Decreased\nSusceptibilities to Ceftriaxone and Cefixime in Canada: 2001–\n2010 :\", Sexually Transmitted Diseases, 12/2011\nCrossref\nwrap.warwick.ac.uk\nInternet\n6 words — < 1%\n4 words — < 1%","source_license":"CC-BY-4.0","license_restricted":false}