{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,2]],"date-time":"2026-06-02T05:02:01Z","timestamp":1780376521461,"version":"3.54.1"},"reference-count":55,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2025,11,1]],"date-time":"2025-11-01T00:00:00Z","timestamp":1761955200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2025,11,1]],"date-time":"2025-11-01T00:00:00Z","timestamp":1761955200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2025,9,22]],"date-time":"2025-09-22T00:00:00Z","timestamp":1758499200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["1 DP2GM149553-01"],"award-info":[{"award-number":["1 DP2GM149553-01"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000078","name":"National Science Foundation Division of Materials Research","doi-asserted-by":"publisher","award":["DMR-2104731"],"award-info":[{"award-number":["DMR-2104731"]}],"id":[{"id":"10.13039\/100000078","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Chemical Engineering Journal"],"published-print":{"date-parts":[[2025,11]]},"DOI":"10.1016\/j.cej.2025.168770","type":"journal-article","created":{"date-parts":[[2025,9,23]],"date-time":"2025-09-23T02:35:58Z","timestamp":1758594958000},"page":"168770","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":2,"special_numbering":"C","title":["Tunable lysis of functionalized nanocultures for efficient microbial and nucleic acid recovery"],"prefix":"10.1016","volume":"523","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-9820-7397","authenticated-orcid":false,"given":"Shanna-Leigh","family":"Davidson","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3484-1794","authenticated-orcid":false,"given":"Lisa M.","family":"Stabryla","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0005-0529-1104","authenticated-orcid":false,"given":"Shakira M.","family":"Mart\u00ednez V\u00e1squez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jennifer","family":"Dootz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0005-5490-2557","authenticated-orcid":false,"given":"Monique E.","family":"Hunter","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3018-5419","authenticated-orcid":false,"given":"Tagbo H.R.","family":"Niepa","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.cej.2025.168770_bb0005","doi-asserted-by":"crossref","first-page":"6386","DOI":"10.1128\/AEM.01309-07","article-title":"Incubation of environmental samples in a diffusion chamber increases the diversity of recovered isolates","volume":"73","author":"Bollmann","year":"2007","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0010","doi-asserted-by":"crossref","first-page":"1127","DOI":"10.1126\/science.1070633","article-title":"Isolating \u201cuncultivable\u201d microorganisms in pure culture in a simulated natural environment","volume":"296","author":"Kaeberlein","year":"2002","journal-title":"Science"},{"key":"10.1016\/j.cej.2025.168770_bb0015","doi-asserted-by":"crossref","first-page":"237","DOI":"10.1128\/CMR.00014-14","article-title":"The rebirth of culture in microbiology through the example of culturomics to study human gut microbiota","volume":"28","author":"Lagier","year":"2015","journal-title":"Clin. Microbiol. Rev."},{"key":"10.1016\/j.cej.2025.168770_bb0020","doi-asserted-by":"crossref","DOI":"10.1002\/adma.201900284","article-title":"Artificial microbial arenas: materials for observing and manipulating microbial consortia","volume":"31","author":"Wondraczek","year":"2019","journal-title":"Adv. Mater."},{"key":"10.1016\/j.cej.2025.168770_bb0025","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2021.745835","article-title":"Micro-technologies for assessing microbial dynamics in controlled environments","volume":"12","author":"Davidson","year":"2022","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0030","doi-asserted-by":"crossref","first-page":"10","DOI":"10.1038\/nchembio.749","article-title":"Sociomicrobiology in engineered landscapes","volume":"8","author":"Connell","year":"2012","journal-title":"Nat. Chem. Biol."},{"key":"10.1016\/j.cej.2025.168770_bb0035","doi-asserted-by":"crossref","first-page":"16203","DOI":"10.1038\/nmicrobiol.2016.203","article-title":"Culture of previously uncultured members of the human gut microbiota by culturomics","volume":"1","author":"Lagier","year":"2016","journal-title":"Nat. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0040","doi-asserted-by":"crossref","first-page":"2445","DOI":"10.1128\/AEM.01754-09","article-title":"Use of iChip for high-throughput in situ cultivation of \u201cuncultivable\u201d microbial species","volume":"76","author":"Nichols","year":"2010","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0045","doi-asserted-by":"crossref","first-page":"455","DOI":"10.1038\/nature14098","article-title":"A new antibiotic kills pathogens without detectable resistance","volume":"517","author":"Ling","year":"2015","journal-title":"Nature"},{"key":"10.1016\/j.cej.2025.168770_bb0050","doi-asserted-by":"crossref","first-page":"2232","DOI":"10.1038\/nprot.2017.074","article-title":"In situ cultivation of previously uncultivable microorganisms using the iChip","volume":"12","author":"Berdy","year":"2017","journal-title":"Nat. Protoc."},{"key":"10.1016\/j.cej.2025.168770_bb0055","doi-asserted-by":"crossref","first-page":"7333","DOI":"10.1007\/s00253-018-9193-0","article-title":"Antibiotic discovery: combining isolation chip (iChip) technology and co-culture technique","volume":"102","author":"Lodhi","year":"2018","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"10.1016\/j.cej.2025.168770_bb0060","doi-asserted-by":"crossref","first-page":"303","DOI":"10.18433\/J30894","article-title":"Application of iChip to grow \u201cuncultivable\u201d microorganisms and its impact on antibiotic discovery","volume":"18","author":"Sherpa","year":"2015","journal-title":"J. Pharm. Pharm. Sci."},{"key":"10.1016\/j.cej.2025.168770_bb0065","doi-asserted-by":"crossref","first-page":"3954","DOI":"10.1002\/smll.201403125","article-title":"Monodisperse emulsion drop microenvironments for bacterial biofilm growth","volume":"11","author":"Chang","year":"2015","journal-title":"Small"},{"key":"10.1016\/j.cej.2025.168770_bb0070","doi-asserted-by":"crossref","first-page":"2286","DOI":"10.1039\/b908978k","article-title":"SlipChip","volume":"9","author":"Du","year":"2009","journal-title":"Lab Chip"},{"key":"10.1016\/j.cej.2025.168770_bb0075","doi-asserted-by":"crossref","first-page":"4","DOI":"10.1186\/2049-2618-1-4","article-title":"Microbe observation and cultivation array (MOCA) for cultivating and analyzing environmental microbiota","volume":"1","author":"Gao","year":"2013","journal-title":"Microbiome"},{"key":"10.1016\/j.cej.2025.168770_bb0080","doi-asserted-by":"crossref","first-page":"18217","DOI":"10.1073\/pnas.0701693104","article-title":"The micro-Petri dish, a million-well growth chip for the culture and high-throughput screening of microorganisms","volume":"104","author":"Ingham","year":"2007","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.cej.2025.168770_bb0085","doi-asserted-by":"crossref","first-page":"2210","DOI":"10.1128\/AEM.03588-15","article-title":"High-throughput single-cell cultivation on microfluidic streak plates","volume":"82","author":"Jiang","year":"2016","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0090","doi-asserted-by":"crossref","first-page":"622","DOI":"10.1038\/nmat1435","article-title":"Multipurpose microfluidic probe","volume":"4","author":"Juncker","year":"2005","journal-title":"Nat. Mater."},{"key":"10.1016\/j.cej.2025.168770_bb0095","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.00331-13","article-title":"High-throughput nano-biofilm microarray for antifungal drug discovery","volume":"4","author":"Srinivasan","year":"2013","journal-title":"mBio"},{"key":"10.1016\/j.cej.2025.168770_bb0100","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.mib.2018.05.002","article-title":"Go with the flow or solitary confinement: a look inside the single-cell toolbox for isolation of rare and uncultured microbes","volume":"44","author":"Huys","year":"2018","journal-title":"Curr. Opin. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0105","doi-asserted-by":"crossref","first-page":"270","DOI":"10.1038\/522270a","article-title":"Mining the microbial dark matter","volume":"522","author":"Lok","year":"2015","journal-title":"Nature"},{"key":"10.1016\/j.cej.2025.168770_bb0110","doi-asserted-by":"crossref","first-page":"30578","DOI":"10.1038\/srep30578","article-title":"Microbial nanoculture as an artificial microniche","volume":"6","author":"Niepa","year":"2016","journal-title":"Sci. Rep."},{"key":"10.1016\/j.cej.2025.168770_bb0115","article-title":"Magnetically responsive nanocultures for direct microbial assessment in soil environments","author":"Usman","year":"2025","journal-title":"bioRxiv"},{"key":"10.1016\/j.cej.2025.168770_bb0120","doi-asserted-by":"crossref","first-page":"2999","DOI":"10.1021\/acsapm.1c01422","article-title":"Controlling microbial dynamics through selective solute transport across functional nanocultures","volume":"4","author":"Davidson","year":"2022","journal-title":"ACS Appl. Polym. Mater."},{"key":"10.1016\/j.cej.2025.168770_bb0125","article-title":"Design of a well-defined poly(dimethylsiloxane)-based microbial nanoculture system","volume":"27","author":"Usman","year":"2021","journal-title":"Mater Today Commun."},{"key":"10.1016\/j.cej.2025.168770_bb0130","doi-asserted-by":"crossref","first-page":"537","DOI":"10.1126\/science.1109164","article-title":"Monodisperse double emulsions generated from a microcapillary device","volume":"308","author":"Utada","year":"2005","journal-title":"Science"},{"key":"10.1016\/j.cej.2025.168770_bb0135","doi-asserted-by":"crossref","first-page":"50581","DOI":"10.1021\/acsami.0c11875","article-title":"Developing a functional poly(dimethylsiloxane)-based microbial nanoculture system using dimethylallylamine","volume":"12","author":"Manimaran","year":"2020","journal-title":"ACS Appl. Mater. Interfaces"},{"key":"10.1016\/j.cej.2025.168770_bb0140","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3390\/genes10010063","article-title":"Genomic and transcriptomic changes that mediate increased platinum resistance in Xanthobacter autotrophicus","volume":"10","author":"Ali","year":"2019","journal-title":"Genes (Basel)"},{"key":"10.1016\/j.cej.2025.168770_bb0145","series-title":"Plastics \u2013 Polymers\/Resins in the liquid state or as emulsions or dispersions \u2013 Determination of viscosity using a rotational viscometer with defined shear rate, ISO 3219","author":"International Organization for Standardization","year":"1994"},{"key":"10.1016\/j.cej.2025.168770_bb0150","series-title":"The Rheology Handbook: For Users of Rotational and Oscillatory Rheometers","author":"Mezger","year":"2011"},{"key":"10.1016\/j.cej.2025.168770_bb0155","doi-asserted-by":"crossref","first-page":"6544","DOI":"10.1021\/ac0346712","article-title":"Solvent compatibility of poly(dimethylsiloxane)-based microfluidic devices","volume":"75","author":"Lee","year":"2003","journal-title":"Anal. Chem."},{"key":"10.1016\/j.cej.2025.168770_bb0160","doi-asserted-by":"crossref","first-page":"2383","DOI":"10.1002\/aic.690461207","article-title":"Permeation of drug and swelling agent through polymeric membranes","volume":"46","author":"Wang","year":"2000","journal-title":"AICHE J."},{"key":"10.1016\/j.cej.2025.168770_bb0165","series-title":"Microcapsules and methods of using the same","author":"Niepa","year":"2020"},{"key":"10.1016\/j.cej.2025.168770_bb0170","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1002\/app.41050","article-title":"Crosslinking effect on polydimethylsiloxane elastic modulus measured by custom-built compression instrument","volume":"131","author":"Wang","year":"2014","journal-title":"J. Appl. Polym. Sci."},{"key":"10.1016\/j.cej.2025.168770_bb0175","doi-asserted-by":"crossref","first-page":"311","DOI":"10.3390\/molecules21030311","article-title":"bis-Nitrile and bis-dialkylcyanamide platinum(II) complexes as efficient catalysts for hydrosilylation cross-linking of siloxane polymers","volume":"21","author":"Islamova","year":"2016","journal-title":"Molecules"},{"key":"10.1016\/j.cej.2025.168770_bb0180","doi-asserted-by":"crossref","first-page":"857","DOI":"10.1021\/acsapm.0c01190","article-title":"Cyclometalated platinum(II) complexes simultaneously catalyze the cross-linking of polysiloxanes and function as luminophores","volume":"3","author":"Dobrynin","year":"2021","journal-title":"ACS Appl. Polym. Mater."},{"key":"10.1016\/j.cej.2025.168770_bb0185","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0195180","article-title":"Chemically defined, ultrasoft PDMS elastomers with selectable elasticity for mechanobiology","volume":"13","author":"Heinrichs","year":"2018","journal-title":"PLoS One"},{"key":"10.1016\/j.cej.2025.168770_bb0190","doi-asserted-by":"crossref","first-page":"470","DOI":"10.1016\/j.matdes.2016.02.049","article-title":"Effect of cyclic compression and curing agent concentration on the stabilization of mechanical properties of PDMS elastomer","volume":"96","author":"Lee","year":"2016","journal-title":"Mater. Des."},{"key":"10.1016\/j.cej.2025.168770_bb0195","doi-asserted-by":"crossref","first-page":"1113","DOI":"10.1021\/ma0350213","article-title":"Young\u2019s modulus of polyelectrolyte multilayers from microcapsule swelling","volume":"37","author":"Vinogradova","year":"2004","journal-title":"Macromolecules"},{"key":"10.1016\/j.cej.2025.168770_bb0200","series-title":"Basic Equations of Mass Transport Through a Membrane Layer, Second Edition","first-page":"505","article-title":"Pressure-retarded osmosis (PRO) process","author":"Nagy","year":"2019"},{"key":"10.1016\/j.cej.2025.168770_bb0205","doi-asserted-by":"crossref","first-page":"257","DOI":"10.2307\/1535881","article-title":"The osmotic pressure of sea water and of the blood of marine animals: including some observations on the permeability of animal membranes","volume":"8","author":"Garrey","year":"1905","journal-title":"Biol. Bull."},{"key":"10.1016\/j.cej.2025.168770_bb0210","doi-asserted-by":"crossref","first-page":"8358","DOI":"10.1039\/C4SM01205D","article-title":"Osmotic buckling of spherical capsules","volume":"10","author":"Knoche","year":"2014","journal-title":"Soft Matter"},{"key":"10.1016\/j.cej.2025.168770_bb0215","doi-asserted-by":"crossref","first-page":"7221","DOI":"10.1016\/j.polymer.2007.07.050","article-title":"Mechanical properties of micro- and nanocapsules: single-capsule measurements","volume":"48","author":"Fery","year":"2007","journal-title":"Polymer"},{"key":"10.1016\/j.cej.2025.168770_bb0220","doi-asserted-by":"crossref","first-page":"61","DOI":"10.2144\/000114133","article-title":"Library construction for next-generation sequencing: overviews and challenges","volume":"56","author":"Head","year":"2014","journal-title":"BioTechniques"},{"key":"10.1016\/j.cej.2025.168770_bb0225","doi-asserted-by":"crossref","first-page":"R18","DOI":"10.1186\/gb-2011-12-2-r18","article-title":"Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries","volume":"12","author":"Aird","year":"2011","journal-title":"Genome Biol."},{"key":"10.1016\/j.cej.2025.168770_bb0230","doi-asserted-by":"crossref","DOI":"10.1038\/srep24067","article-title":"Comparison of DNA quantification methods for next generation sequencing","volume":"6","author":"Robin","year":"2016","journal-title":"Sci. Rep."},{"key":"10.1016\/j.cej.2025.168770_bb0235","doi-asserted-by":"crossref","first-page":"3878","DOI":"10.1128\/AEM.68.8.3878-3885.2002","article-title":"High-throughput methods for culturing microorganisms in very-low-nutrient media yield diverse new marine isolates","volume":"68","author":"Connon","year":"2002","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0240","doi-asserted-by":"crossref","first-page":"893","DOI":"10.1007\/s12275-020-0452-2","article-title":"High-throughput cultivation based on dilution-to-extinction with catalase supplementation and a case study of cultivating acI bacteria from Lake Soyang","volume":"58","author":"Kim","year":"2020","journal-title":"J. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0245","article-title":"Controllable fabrication of inhomogeneous microcapsules for triggered release by osmotic pressure","volume":"15","author":"Zhang","year":"2019","journal-title":"Small"},{"key":"10.1016\/j.cej.2025.168770_bb0250","doi-asserted-by":"crossref","first-page":"813","DOI":"10.2166\/wst.2013.308","article-title":"Hydrolysis of polydimethylsiloxane fluids in controlled aqueous solutions","volume":"68","author":"Ducom","year":"2013","journal-title":"Water Sci. Technol."},{"key":"10.1016\/j.cej.2025.168770_bb0255","doi-asserted-by":"crossref","first-page":"129","DOI":"10.1023\/A:1026056129717","article-title":"A review of the fate and effects of silicones in the environment","volume":"11","author":"Graiver","year":"2003","journal-title":"J. Polym. Environ."},{"key":"10.1016\/j.cej.2025.168770_bb0260","series-title":"Comprehensive Biotechnology, Second Edition","first-page":"619","article-title":"Cell disruption","author":"Harrison","year":"2011"},{"key":"10.1016\/j.cej.2025.168770_bb0265","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3389\/fcimb.2021.678522","article-title":"Impact of bead-beating intensity on the genus- and species-level characterization of the gut microbiome using amplicon and complete 16S rRNA gene sequencing","volume":"11","author":"Zhang","year":"2021","journal-title":"Front. Cell. Infect. Microbiol."},{"key":"10.1016\/j.cej.2025.168770_bb0270","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/S0167-7012(03)00091-5","article-title":"Application of sonication to release DNA from Bacillus cereus for quantitative detection by real-time PCR","volume":"55","author":"Fykse","year":"2003","journal-title":"J. Microbiol. Methods"},{"key":"10.1016\/j.cej.2025.168770_bb0275","doi-asserted-by":"crossref","DOI":"10.5620\/eht.2014.29.e2014007","article-title":"Characterization of denaturation and renaturation of DNA for DNA hybridization","volume":"29","author":"Wang","year":"2014","journal-title":"Environ. Health Toxicol."}],"container-title":["Chemical Engineering Journal"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1385894725096123?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1385894725096123?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,6,2]],"date-time":"2026-06-02T04:05:37Z","timestamp":1780373137000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1385894725096123"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,11]]},"references-count":55,"alternative-id":["S1385894725096123"],"URL":"https:\/\/doi.org\/10.1016\/j.cej.2025.168770","relation":{},"ISSN":["1385-8947"],"issn-type":[{"value":"1385-8947","type":"print"}],"subject":[],"published":{"date-parts":[[2025,11]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Tunable lysis of functionalized nanocultures for efficient microbial and nucleic acid recovery","name":"articletitle","label":"Article Title"},{"value":"Chemical Engineering Journal","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.cej.2025.168770","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2025 The Authors. Published by Elsevier B.V.","name":"copyright","label":"Copyright"}],"article-number":"168770"}}