WITHDRAWN: Defective HIV DNA genomes provide ancestralrelevance critical for phylogenetic inference of reservoir dynamics

WITHDRAWN: Defective HIV DNA genomes provide ancestralrelevance critical for phylogenetic inference of reservoir dynamics | bioRxiv /* */ /* */ <!-- <!-- /*! * yepnope1.5.4 * (c) WTFPL, GPLv2 */ (function(a,b,c){function d(a){return"[object Function]"==o.call(a)}function e(a){return"string"==typeof a}function f(){}function g(a){return!a||"loaded"==a||"complete"==a||"uninitialized"==a}function h(){var a=p.shift();q=1,a?a.t?m(function(){("c"==a.t?B.injectCss:B.injectJs)(a.s,0,a.a,a.x,a.e,1)},0):(a(),h()):q=0}function i(a,c,d,e,f,i,j){function k(b){if(!o&&g(l.readyState)&&(u.r=o=1,!q&&h(),l.onload=l.onreadystatechange=null,b)){"img"!=a&&m(function(){t.removeChild(l)},50);for(var d in y[c])y[c].hasOwnProperty(d)&&y[c][d].onload()}}var j=j||B.errorTimeout,l=b.createElement(a),o=0,r=0,u={t:d,s:c,e:f,a:i,x:j};1===y[c]&&(r=1,y[c]=[]),"object"==a?l.data=c:(l.src=c,l.type=a),l.width=l.height="0",l.onerror=l.onload=l.onreadystatechange=function(){k.call(this,r)},p.splice(e,0,u),"img"!=a&&(r||2===y[c]?(t.insertBefore(l,s?null:n),m(k,j)):y[c].push(l))}function j(a,b,c,d,f){return q=0,b=b||"j",e(a)?i("c"==b?v:u,a,b,this.i++,c,d,f):(p.splice(this.i++,0,a),1==p.length&&h()),this}function k(){var a=B;return a.loader={load:j,i:0},a}var l=b.documentElement,m=a.setTimeout,n=b.getElementsByTagName("script")[0],o={}.toString,p=[],q=0,r="MozAppearance"in l.style,s=r&&!!b.createRange().compareNode,t=s?l:n.parentNode,l=a.opera&&"[object Opera]"==o.call(a.opera),l=!!b.attachEvent&&!l,u=r?"object":l?"script":"img",v=l?"script":u,w=Array.isArray||function(a){return"[object Array]"==o.call(a)},x=[],y={},z={timeout:function(a,b){return b.length&&(a.timeout=b[0]),a}},A,B;B=function(a){function b(a){var a=a.split("!"),b=x.length,c=a.pop(),d=a.length,c={url:c,origUrl:c,prefixes:a},e,f,g;for(f=0;f<d;f++)g=a[f].split("="),(e=z[g.shift()])&&(c=e(c,g));for(f=0;f<b;f++)c=x[f](c);return c}function g(a,e,f,g,h){var i=b(a),j=i.autoCallback;i.url.split(".").pop().split("?").shift(),i.bypass||(e&&(e=d(e)?e:e[a]||e[g]||e[a.split("/").pop().split("?")[0]]),i.instead?i.instead(a,e,f,g,h):(y[i.url]?i.noexec=!0:y[i.url]=1,f.load(i.url,i.forceCSS||!i.forceJS&&"css"==i.url.split(".").pop().split("?").shift()?"c":c,i.noexec,i.attrs,i.timeout),(d(e)||d(j))&&f.load(function(){k(),e&&e(i.origUrl,h,g),j&&j(i.origUrl,h,g),y[i.url]=2})))}function h(a,b){function c(a,c){if(a){if(e(a))c||(j=function(){var a=[].slice.call(arguments);k.apply(this,a),l()}),g(a,j,b,0,h);else if(Object(a)===a)for(n in m=function(){var b=0,c;for(c in a)a.hasOwnProperty(c)&&b++;return b}(),a)a.hasOwnProperty(n)&&(!c&&!--m&&(d(j)?j=function(){var a=[].slice.call(arguments);k.apply(this,a),l()}:j[n]=function(a){return function(){var b=[].slice.call(arguments);a&&a.apply(this,b),l()}}(k[n])),g(a[n],j,b,n,h))}else!c&&l()}var h=!!a.test,i=a.load||a.both,j=a.callback||f,k=j,l=a.complete||f,m,n;c(h?a.yep:a.nope,!!i),i&&c(i)}var i,j,l=this.yepnope.loader;if(e(a))g(a,0,l,0);else if(w(a))for(i=0;i (function(w,d,s,l,i){w[l]=w[l]||[];w[l].push({'gtm.start':new Date().getTime(),event:'gtm.js'});var f=d.getElementsByTagName(s)[0];var j=d.createElement(s);var dl=l!='dataLayer'?'&l='+l:'';j.src='//www.googletagmanager.com/gtm.js?id='+i+dl;j.type='text/javascript';j.async=true;f.parentNode.insertBefore(j,f);})(window,document,'script','dataLayer','GTM-M677548'); Skip to main content Home About Submit ALERTS / RSS Search for this keyword Advanced Search Withdrawn WITHDRAWN: Defective HIV DNA genomes provide ancestralrelevance critical for phylogenetic inference of reservoir dynamics Lauren E Droske , Andrea S Ramirez-Mata , View ORCID Profile Melanie N Cash , Jose Estrada , Stephen D Shank , Adam Browning , Faezeh Rafiei , Sergei L Kosakovsky Pond , Marco Salemi , View ORCID Profile Brittany Rife Magalis doi: https://doi.org/10.1101/2025.10.03.680205 Lauren E Droske a University of Florida, Department of Pathology, Immunology, and Laboratory Medicine , Gainesville, 32610, USA b University of Florida, Emerging Pathogens Institute , Gainesville, 32610, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site Andrea S Ramirez-Mata a University of Florida, Department of Pathology, Immunology, and Laboratory Medicine , Gainesville, 32610, USA b University of Florida, Emerging Pathogens Institute , Gainesville, 32610, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site Melanie N Cash a University of Florida, Department of Pathology, Immunology, and Laboratory Medicine , Gainesville, 32610, USA b University of Florida, Emerging Pathogens Institute , Gainesville, 32610, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site ORCID record for Melanie N Cash Jose Estrada a University of Florida, Department of Pathology, Immunology, and Laboratory Medicine , Gainesville, 32610, USA b University of Florida, Emerging Pathogens Institute , Gainesville, 32610, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site Stephen D Shank c Temple University, Department of Biology , Philadelphia, 19122, USA d Temple University, Institute for Genomics and Evolutionary Medicine , Philadelphia, 19122, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site Adam Browning e University of Louisville, Department of Biochemistry and Molecular Genetics , Louisville, KY, 40202, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site Faezeh Rafiei e University of Louisville, Department of Biochemistry and Molecular Genetics , Louisville, KY, 40202, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site Sergei L Kosakovsky Pond c Temple University, Department of Biology , Philadelphia, 19122, USA d Temple University, Institute for Genomics and Evolutionary Medicine , Philadelphia, 19122, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site Marco Salemi a University of Florida, Department of Pathology, Immunology, and Laboratory Medicine , Gainesville, 32610, USA b University of Florida, Emerging Pathogens Institute , Gainesville, 32610, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site For correspondence: brittany.magalis{at}louisville.edu salemi{at}pathology.ufl.edu Brittany Rife Magalis e University of Louisville, Department of Biochemistry and Molecular Genetics , Louisville, KY, 40202, USA Find this author on Google Scholar Find this author on PubMed Search for this author on this site ORCID record for Brittany Rife Magalis For correspondence: brittany.magalis{at}louisville.edu salemi{at}pathology.ufl.edu Abstract Info/History Metrics Preview PDF Withdrawal Statement The authors have withdrawn this manuscript due to a duplicate posting of manuscript number BIORXIV/2022/490630. Therefore, the authors do not wish this work to be cited as reference for the project. If you have any questions, please contact the corresponding author. The correct preprint can be found at doi: 10.1101/2022.05.04.490630. Competing Interest Statement The authors have declared no competing interest. Copyright The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license . View the discussion thread. Back to top Previous Next Posted November 14, 2025. Download PDF Email Thank you for your interest in spreading the word about bioRxiv. NOTE: Your email address is requested solely to identify you as the sender of this article. Your Email * Your Name * Send To * Enter multiple addresses on separate lines or separate them with commas. 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Share WITHDRAWN: Defective HIV DNA genomes provide ancestralrelevance critical for phylogenetic inference of reservoir dynamics Lauren E Droske , Andrea S Ramirez-Mata , Melanie N Cash , Jose Estrada , Stephen D Shank , Adam Browning , Faezeh Rafiei , Sergei L Kosakovsky Pond , Marco Salemi , Brittany Rife Magalis bioRxiv 2025.10.03.680205; doi: https://doi.org/10.1101/2025.10.03.680205 Share This Article: Copy Citation Tools WITHDRAWN: Defective HIV DNA genomes provide ancestralrelevance critical for phylogenetic inference of reservoir dynamics Lauren E Droske , Andrea S Ramirez-Mata , Melanie N Cash , Jose Estrada , Stephen D Shank , Adam Browning , Faezeh Rafiei , Sergei L Kosakovsky Pond , Marco Salemi , Brittany Rife Magalis bioRxiv 2025.10.03.680205; doi: https://doi.org/10.1101/2025.10.03.680205 Citation Manager Formats BibTeX Bookends EasyBib EndNote (tagged) EndNote 8 (xml) Medlars Mendeley Papers RefWorks Tagged Ref Manager RIS Zotero Tweet Widget Facebook Like Google Plus One Subject Area Microbiology Subject Areas All Articles Animal Behavior and Cognition (7635) Biochemistry (17691) Bioengineering (13892) Bioinformatics (41936) Biophysics (21452) Cancer Biology (18588) Cell Biology (25504) Clinical Trials (138) Developmental Biology (13378) Ecology (19899) Epidemiology (2067) Evolutionary Biology (24320) Genetics (15609) Genomics (22506) Immunology (17736) Microbiology (40394) Molecular Biology (17181) Neuroscience (88605) Paleontology (666) Pathology (2832) Pharmacology and Toxicology (4824) Physiology (7641) Plant Biology (15153) Scientific Communication and Education (2045) Synthetic Biology (4294) Systems Biology (9825) Zoology (2271)