{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,25]],"date-time":"2026-04-25T09:28:34Z","timestamp":1777109314133,"version":"3.51.4"},"reference-count":55,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2024,8,1]],"date-time":"2024-08-01T00:00:00Z","timestamp":1722470400000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/501100010747","name":"CONCYTEC","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100010747","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Journal of Microbiological Methods"],"published-print":{"date-parts":[[2024,8]]},"DOI":"10.1016\/j.mimet.2024.106979","type":"journal-article","created":{"date-parts":[[2024,6,27]],"date-time":"2024-06-27T07:07:03Z","timestamp":1719472023000},"page":"106979","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":6,"special_numbering":"C","title":["Quantification of early biofilm growth in microtiter plates through a novel image analysis software"],"prefix":"10.1016","volume":"223","author":[{"given":"Anderson J.","family":"Castilla-Sedano","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jos\u00e9","family":"Zapana-Garc\u00eda","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Erika","family":"Valdivia-Del \u00c1guila","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pierre G.","family":"Padilla-Huamantinco","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Daniel G.","family":"Guerra","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"issue":"12","key":"10.1016\/j.mimet.2024.106979_bb0005","doi-asserted-by":"crossref","first-page":"3251","DOI":"10.1099\/00221287-131-12-3251","article-title":"Pyoverdine production by Pseudomonas fluorescens in synthetic media with various sources of nitrogen","volume":"131","author":"Albesa","year":"1985","journal-title":"Microbiology"},{"key":"10.1016\/j.mimet.2024.106979_bb0010","doi-asserted-by":"crossref","first-page":"5061","DOI":"10.2147\/IDR.S379502","article-title":"Biofilm-associated multi-drug resistance in hospital-acquired infections: a review","volume":"15","author":"Assefa","year":"2022","journal-title":"Infect. Drug Resist."},{"issue":"3","key":"10.1016\/j.mimet.2024.106979_bb0015","doi-asserted-by":"crossref","first-page":"313","DOI":"10.1080\/1040841X.2016.1208146","article-title":"Critical review on biofilm methods","volume":"43","author":"Azeredo","year":"2017","journal-title":"Crit. Rev. Microbiol."},{"key":"10.1016\/j.mimet.2024.106979_bb0020","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1016\/j.mimet.2017.06.021","article-title":"Understanding the fundamental mechanisms of biofilms development and dispersal: BIAM (biofilm intensity and architecture measurement), a new tool for studying biofilms as a function of their architecture and fluorescence intensity","volume":"140","author":"Baudin","year":"2017","journal-title":"J. Microbiol. Methods"},{"issue":"9","key":"10.1016\/j.mimet.2024.106979_bb0025","doi-asserted-by":"crossref","first-page":"517","DOI":"10.1016\/j.tim.2014.05.002","article-title":"Biofilms, flagella, and mechanosensing of surfaces by bacteria","volume":"22","author":"Belas","year":"2014","journal-title":"Trends Microbiol."},{"issue":"1","key":"10.1016\/j.mimet.2024.106979_bb0030","doi-asserted-by":"crossref","DOI":"10.1038\/s41597-020-00706-9","article-title":"A large-scale optical microscopy image dataset of potato tuber for deep learning based plant cell assessment","volume":"7","author":"Biswas","year":"2020","journal-title":"Sci Data"},{"issue":"5","key":"10.1016\/j.mimet.2024.106979_bb0035","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0193267","article-title":"Fast and simple tool for the quantification of biofilm-embedded cells sub-populations from fluorescent microscopic images","volume":"13","author":"Bogachev","year":"2018","journal-title":"PLoS One"},{"key":"10.1016\/j.mimet.2024.106979_bb0040","series-title":"Usability Evaluation in Industry","first-page":"189","article-title":"SUS: A quick and dirty usability scale","author":"Brooke","year":"1996"},{"key":"10.1016\/j.mimet.2024.106979_bb0045","article-title":"Xiaomi Redmi Note 7 review","author":"Cameron","year":"2024","journal-title":"TechRadar"},{"issue":"15","key":"10.1016\/j.mimet.2024.106979_bb0050","doi-asserted-by":"crossref","DOI":"10.3390\/ijms20153794","article-title":"Testing anti-biofilm polymeric surfaces: where to start?","volume":"20","author":"Catt\u00f2","year":"2019","journal-title":"Int. J. Mol. Sci."},{"issue":"7","key":"10.1016\/j.mimet.2024.106979_bb0055","article-title":"The \u20ac100 lab: a 3D-printable open-source platform for fluorescence microscopy, optogenetics, and accurate temperature control during behaviour of zebrafish, Drosophila, and Caenorhabditis elegans\u2019","volume":"15","author":"Chagas","year":"2017","journal-title":"PLoS Biol."},{"issue":"2","key":"10.1016\/j.mimet.2024.106979_bb0060","doi-asserted-by":"crossref","first-page":"523","DOI":"10.1016\/j.jmb.2019.09.004","article-title":"A Skeptic\u2019s guide to bacterial Mechanosensing","volume":"432","author":"Chawla","year":"2020","journal-title":"J. Mol. Biol."},{"issue":"10","key":"10.1016\/j.mimet.2024.106979_bb0065","doi-asserted-by":"crossref","DOI":"10.1038\/s41579-022-00682-4","article-title":"Tolerance and resistance of microbial biofilms","volume":"20","author":"Ciofu","year":"2022","journal-title":"Nat. Rev. Microbiol."},{"key":"10.1016\/j.mimet.2024.106979_bb0070","doi-asserted-by":"crossref","first-page":"82","DOI":"10.1038\/s41522-022-00346-4","article-title":"Biofilm antimicrobial susceptibility through an experimental evolutionary lens","volume":"8","author":"Coenye","year":"2022","journal-title":"NPJ Biofilms Microbiomes"},{"key":"10.1016\/j.mimet.2024.106979_bb0075","doi-asserted-by":"crossref","first-page":"631","DOI":"10.1007\/978-1-4939-0473-0_48","article-title":"Biofilm formation in the 96-well microtiter plate","volume":"1149","author":"Coffey","year":"2014","journal-title":"Methods Mol. Biol."},{"issue":"2","key":"10.1016\/j.mimet.2024.106979_bb0080","doi-asserted-by":"crossref","first-page":"200","DOI":"10.1111\/j.1462-2920.2005.00880.x","article-title":"Daime, a novel image analysis program for microbial ecology and biofilm research","volume":"8","author":"Daims","year":"2006","journal-title":"Environ. Microbiol."},{"issue":"5","key":"10.1016\/j.mimet.2024.106979_bb0085","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0127603","article-title":"Characterization of the newly isolated lytic bacteriophages KTN6 and KT28 and their efficacy against Pseudomonas aeruginosa biofilm","volume":"10","author":"Danis-Wlodarczyk","year":"2015","journal-title":"PLoS One"},{"issue":"4","key":"10.1016\/j.mimet.2024.106979_bb0090","doi-asserted-by":"crossref","DOI":"10.1038\/s41579-019-0158-9","article-title":"Bacteria and archaea on Earth and their abundance in biofilms","volume":"17","author":"Flemming","year":"2019","journal-title":"Nat. Rev. Microbiol."},{"issue":"9","key":"10.1016\/j.mimet.2024.106979_bb0095","doi-asserted-by":"crossref","first-page":"563","DOI":"10.1038\/nrmicro.2016.94","article-title":"Biofilms: an emergent form of bacterial life","volume":"14","author":"Flemming","year":"2016","journal-title":"Nat. Rev. Microbiol."},{"issue":"5","key":"10.1016\/j.mimet.2024.106979_bb0100","doi-asserted-by":"crossref","DOI":"10.1038\/nrmicro3432","article-title":"Urinary tract infections: epidemiology, mechanisms of infection and treatment options","volume":"13","author":"Flores-Mireles","year":"2015","journal-title":"Nat. Rev. Microbiol."},{"issue":"9","key":"10.1016\/j.mimet.2024.106979_bb0105","doi-asserted-by":"crossref","first-page":"889","DOI":"10.1038\/nmeth.2114","article-title":"Imaging without lenses: achievements and remaining challenges of wide-field on-chip microscopy","volume":"9","author":"Greenbaum","year":"2012","journal-title":"Nat. Methods"},{"issue":"2","key":"10.1016\/j.mimet.2024.106979_bb0110","article-title":"Quantitative image analysis of microbial communities with BiofilmQve image analysis of microbial communities with BiofilmQ","volume":"6","author":"Hartmann","year":"2021","journal-title":"Nat. Microbiol."},{"key":"10.1016\/j.mimet.2024.106979_bb0115","series-title":"Microbially Influenced Corrosion of Materials. Scientific and Engineering Aspects","author":"Heitz","year":"1996"},{"issue":"10","key":"10.1016\/j.mimet.2024.106979_bb0120","doi-asserted-by":"crossref","first-page":"2395","DOI":"10.1099\/00221287-146-10-2395","article-title":"Quantification of biofilm structures by the novel computer program COMSTAT","volume":"146","author":"Heydorn","year":"2000","journal-title":"Microbiology"},{"issue":"7054","key":"10.1016\/j.mimet.2024.106979_bb0125","doi-asserted-by":"crossref","first-page":"1171","DOI":"10.1038\/nature03912","article-title":"Aminoglycoside antibiotics induce bacterial biofilm formation","volume":"436","author":"Hoffman","year":"2005","journal-title":"Nature"},{"issue":"6","key":"10.1016\/j.mimet.2024.106979_bb0130","doi-asserted-by":"crossref","first-page":"659","DOI":"10.1111\/mmi.15064","article-title":"Single-cell segmentation in bacterial biofilms with an optimized deep learning method enables tracking of cell lineages and measurements of growth rates","volume":"119","author":"Jelli","year":"2023","journal-title":"Mol. Microbiol."},{"issue":"4","key":"10.1016\/j.mimet.2024.106979_bb0135","doi-asserted-by":"crossref","DOI":"10.1099\/acmi.0.000343","article-title":"Antibiofilm properties of Clitoria ternatea flower anthocyanin-rich fraction towards Pseudomonas aeruginosa","volume":"4","author":"Jeyaraj","year":"2022","journal-title":"Access Microbiol"},{"key":"10.1016\/j.mimet.2024.106979_bb0140","series-title":"Woodhead Publishing Series in Energy","first-page":"3","article-title":"\u20181 - cost of corrosion\u2019, in trends in oil and gas corrosion research and Technologies","author":"Koch","year":"2017"},{"issue":"1","key":"10.1016\/j.mimet.2024.106979_bb0145","doi-asserted-by":"crossref","first-page":"16","DOI":"10.1016\/0003-2697(89)90710-0","article-title":"Quantification of cells cultured on 96-well plates","volume":"182","author":"Kueng","year":"1989","journal-title":"Anal. Biochem."},{"key":"10.1016\/j.mimet.2024.106979_bb0150","doi-asserted-by":"crossref","first-page":"100243","DOI":"10.1109\/ACCESS.2019.2930111","article-title":"A state-of-the-art survey for microorganism image segmentation methods and future potential","volume":"7","author":"Kulwa","year":"2019","journal-title":"IEEE Access"},{"key":"10.1016\/j.mimet.2024.106979_bb0155","doi-asserted-by":"crossref","first-page":"150","DOI":"10.1016\/j.mimet.2014.10.004","article-title":"A simple and low-cost biofilm quantification method using LED and CMOS image sensor","volume":"107","author":"Kwak","year":"2014","journal-title":"J. Microbiol. Methods"},{"issue":"3","key":"10.1016\/j.mimet.2024.106979_bb0160","doi-asserted-by":"crossref","first-page":"999","DOI":"10.1007\/s00216-015-9195-z","article-title":"A method for rapid quantitative assessment of biofilms with biomolecular staining and image analysis","volume":"408","author":"Larimer","year":"2016","journal-title":"Anal. Bioanal. Chem."},{"issue":"4","key":"10.1016\/j.mimet.2024.106979_bb0165","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1007\/s10856-018-6051-7","article-title":"Evaluation of combined growth media for in vitro cultivation of oropharyngeal biofilms on prosthetic silicone","volume":"29","author":"Leonhard","year":"2018","journal-title":"J. Mater. Sci. Mater. Med."},{"key":"10.1016\/j.mimet.2024.106979_bb0170","doi-asserted-by":"crossref","DOI":"10.1016\/j.corsci.2020.108641","article-title":"Microbially influenced corrosion\u2014any progress?","volume":"170","author":"Little","year":"2020","journal-title":"Corros. Sci."},{"key":"10.1016\/j.mimet.2024.106979_bb0175","article-title":"The Regulation of Bacterial Biofilm Formation by cAMP-CRP: A Mini-Review","volume":"11","author":"Liu","year":"2020","journal-title":"Front. Microbiol."},{"issue":"1","key":"10.1016\/j.mimet.2024.106979_bb0180","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0084837","article-title":"Reproducible biofilm cultivation of chemostat-grown Escherichia coli and investigation of bacterial adhesion on biomaterials using a non-constant-depth film fermenter","volume":"9","author":"L\u00fcdecke","year":"2014","journal-title":"PLoS One"},{"issue":"3","key":"10.1016\/j.mimet.2024.106979_bb0185","doi-asserted-by":"crossref","DOI":"10.1128\/CMR.00138-18","article-title":"Cystic fibrosis and Pseudomonas aeruginosa: the host-microbe Interface","volume":"32","author":"Malhotra","year":"2019","journal-title":"Clin. Microbiol. Rev."},{"issue":"14","key":"10.1016\/j.mimet.2024.106979_bb0190","doi-asserted-by":"crossref","first-page":"1176","DOI":"10.1001\/jama.1907.25320140022001f","article-title":"The nephelometer:an instrument for estimating the number of bacteria in suspensions used for calculating the opsonic index and for vaccines","volume":"XLIX","author":"Mcfarland","year":"1907","journal-title":"JAMA"},{"issue":"1","key":"10.1016\/j.mimet.2024.106979_bb0195","doi-asserted-by":"crossref","DOI":"10.1038\/s41522-021-00214-7","article-title":"Biofilm viability checker: an open-source tool for automated biofilm viability analysis from confocal microscopy images","volume":"7","author":"Mountcastle","year":"2021","journal-title":"npj Biofilms Microbiomes"},{"issue":"1","key":"10.1016\/j.mimet.2024.106979_bb0200","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/1472-6785-6-1","article-title":"Analysis of a marine phototrophic biofilm by confocal laser scanning microscopy using the new image quantification software PHLIP","volume":"6","author":"Mueller","year":"2006","journal-title":"BMC Ecol."},{"issue":"47","key":"10.1016\/j.mimet.2024.106979_bb0205","article-title":"Microtiter dish biofilm formation assay","author":"O\u2019Toole","year":"2011","journal-title":"JoVE"},{"issue":"1","key":"10.1016\/j.mimet.2024.106979_bb0210","doi-asserted-by":"crossref","first-page":"62","DOI":"10.1109\/TSMC.1979.4310076","article-title":"A threshold selection method from gray-level histograms","volume":"9","author":"Otsu","year":"1979","journal-title":"IEEE Trans. Syst. Man Cybern."},{"issue":"1","key":"10.1016\/j.mimet.2024.106979_bb0215","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1146\/annurev-bioeng-092515-010849","article-title":"Lensless Imaging and Sensing","volume":"18","author":"Ozcan","year":"2016","journal-title":"Annu. Rev. Biomed. Eng."},{"issue":"1","key":"10.1016\/j.mimet.2024.106979_bb0220","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-020-15165-4","article-title":"Dynamics of bacterial population growth in biofilms resemble spatial and structural aspects of urbanization","volume":"11","author":"Paula","year":"2020","journal-title":"Nat. Commun."},{"issue":"2","key":"10.1016\/j.mimet.2024.106979_bb0225","doi-asserted-by":"crossref","first-page":"157","DOI":"10.1016\/j.mimet.2007.11.010","article-title":"Comparison of multiple methods for quantification of microbial biofilms grown in microtiter plates","volume":"72","author":"Peeters","year":"2008","journal-title":"J. Microbiol. Methods"},{"key":"10.1016\/j.mimet.2024.106979_bb0230","doi-asserted-by":"crossref","DOI":"10.1016\/j.bioflm.2024.100187","article-title":"Critical analysis of methods to determine growth, control and analysis of biofilms for potential non-submerged antibiofilm surfaces and coatings","volume":"7","author":"Redfern","year":"2024","journal-title":"Biofilm"},{"issue":"10","key":"10.1016\/j.mimet.2024.106979_bb0235","doi-asserted-by":"crossref","first-page":"3270","DOI":"10.1002\/jemt.24200","article-title":"A review on low-cost microscopes for Open Science","volume":"85","author":"Salido","year":"2022","journal-title":"Microsc. Res. Tech."},{"issue":"11","key":"10.1016\/j.mimet.2024.106979_bb0240","doi-asserted-by":"crossref","DOI":"10.1371\/journal.ppat.1008149","article-title":"Modulation of flagellar rotation in surface-attached bacteria: a pathway for rapid surface-sensing after flagellar attachment","volume":"15","author":"Schniederberend","year":"2019","journal-title":"PLoS Pathog."},{"key":"10.1016\/j.mimet.2024.106979_bb0245","doi-asserted-by":"crossref","first-page":"14123","DOI":"10.1038\/ncomms14123","article-title":"Optimality and sub-optimality in a bacterial growth law","volume":"8","author":"Towbin","year":"2017","journal-title":"Nat. Commun."},{"issue":"2","key":"10.1016\/j.mimet.2024.106979_bb0250","doi-asserted-by":"crossref","first-page":"377","DOI":"10.1351\/PAC-REC-10-12-04","article-title":"Terminology for biorelated polymers and applications (IUPAC recommendations 2012)","volume":"84","author":"Vert","year":"2012","journal-title":"Pure Appl. Chem."},{"key":"10.1016\/j.mimet.2024.106979_bb0255","doi-asserted-by":"crossref","DOI":"10.1016\/j.ibiod.2022.105532","article-title":"The role of standards in biofilm research and industry innovation","volume":"177","author":"Wade","year":"2023","journal-title":"Int. Biodeterior. Biodegradation"},{"key":"10.1016\/j.mimet.2024.106979_bb0260","doi-asserted-by":"crossref","first-page":"78","DOI":"10.1038\/s41522-023-00436-x","article-title":"The accumulation and growth of Pseudomonas aeruginosa on surfaces is modulated by surface mechanics via cyclic-di-GMP signaling","volume":"9","author":"Wang","year":"2023","journal-title":"NPJ Biofilms Microbiomes"},{"issue":"4","key":"10.1016\/j.mimet.2024.106979_bb0265","article-title":"Quantitative and qualitative assessment methods for biofilm growth: a Mini-review","volume":"6","author":"Wilson","year":"2017","journal-title":"Res. Rev J. Eng. Technol."},{"issue":"2","key":"10.1016\/j.mimet.2024.106979_bb0270","doi-asserted-by":"crossref","first-page":"109","DOI":"10.1016\/S0167-7012(99)00097-4","article-title":"Quantifying biofilm structure using image analysis","volume":"39","author":"Yang","year":"2000","journal-title":"J. Microbiol. Methods"},{"issue":"4","key":"10.1016\/j.mimet.2024.106979_bb0275","doi-asserted-by":"crossref","first-page":"403","DOI":"10.30699\/ijp.2021.524220.2584","article-title":"Evaluating of the effects of sub-MIC concentrations of gentamicin on biofilm formation in clinical isolates of Pseudomonas aeruginosa","volume":"16","author":"Yousefpour","year":"2021","journal-title":"Iran. J. Pathol."}],"container-title":["Journal of Microbiological Methods"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0167701224000915?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0167701224000915?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2024,7,17]],"date-time":"2024-07-17T22:51:35Z","timestamp":1721256695000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0167701224000915"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,8]]},"references-count":55,"alternative-id":["S0167701224000915"],"URL":"https:\/\/doi.org\/10.1016\/j.mimet.2024.106979","relation":{},"ISSN":["0167-7012"],"issn-type":[{"value":"0167-7012","type":"print"}],"subject":[],"published":{"date-parts":[[2024,8]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Quantification of early biofilm growth in microtiter plates through a novel image analysis software","name":"articletitle","label":"Article Title"},{"value":"Journal of Microbiological Methods","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.mimet.2024.106979","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2024 Elsevier B.V. All rights are reserved, including those for text and data mining, AI training, and similar technologies.","name":"copyright","label":"Copyright"}],"article-number":"106979"}}