{"id":1341,"date":"2018-03-23T11:39:50","date_gmt":"2018-03-23T10:39:50","guid":{"rendered":"http:\/\/www2.unibas.it\/parente\/wordpress\/?p=1341"},"modified":"2018-03-23T12:20:46","modified_gmt":"2018-03-23T11:20:46","slug":"literature-cited-project-2017j2rmtn","status":"publish","type":"post","link":"https:\/\/web.unibas.it\/parente\/?p=1341","title":{"rendered":"Literature cited, project 2017J2RMTN"},"content":{"rendered":"<ol>\n<li>Berni Canani, , De Filippis, F., et al. 2017. Appl. Environ. Microbiol. 83: e01206-17. \u00a0<a href=\"https:\/\/dx.doi.org\/10.1128\/AEM.01206-17\">https:\/\/dx.doi.org\/10.1128\/AEM.01206-17<\/a>.<\/li>\n<li>Bokulich, N. A., Mills, D.A. 2013. Appl. Environmen. Microbiol. 79: 2519\u2013226. \u00a0<a href=\"https:\/\/dx.doi.org\/10.1128\/AEM.03870-12\">https:\/\/dx.doi.org\/10.1128\/AEM.03870-12<\/a>.<\/li>\n<li>Callahan, B. J., McMurdie, P. J., Holmes, S. P.. 2017. ISME J. 11: 2639\u20134263. <a href=\"https:\/\/dx.doi.org\/10.1038\/ismej.2017.119\">https:\/\/dx.doi.org\/10.1038\/ismej.2017.119<\/a>.<\/li>\n<li>Callahan, B. J., McMurdie, P. J., Rosen, M. J., Han, A. W., Johnson, A.J.A., Holmes, S. P. 2016. Nature Meth. 13: 581\u2013583.\u00a0<a href=\"https:\/\/dx.doi.org\/10.1038\/nmeth.3869\">https:\/\/dx.doi.org\/10.1038\/nmeth.3869<\/a>.<\/li>\n<li>De Filippis, F., Parente, E., Ercolini, D. 2017a. Microbial Biotechnol. 10: 91\u2013102.\u00a0<a href=\"https:\/\/dx.doi.org\/10.1111\/1751-7915.12421\">https:\/\/dx.doi.org\/10.1111\/1751-7915.12421<\/a>.<\/li>\n<li>De Filippis, F., Laiola, M., Blaiotta, G., Ercolini, D.. 2017b. Appl. Environ. Microbiol., 83: e00905\u201317.\u00a0<a href=\"https:\/\/dx.doi.org\/10.1128\/AEM.00905-17\">https:\/\/dx.doi.org\/10.1128\/AEM.00905-17<\/a>.<\/li>\n<li>De Filippis, F., Parente, E., Danilo Ercolini. Ann. Rev. Food Sci. Technol. 9.\u00a0<a href=\"https:\/\/dx.doi.org\/10.1146\/annurev-food-030117-012312\">https:\/\/dx.doi.org\/10.1146\/annurev-food-030117-012312<\/a>.<\/li>\n<li>De Filippis, F., Parente, E., Zotta, T., Ercolini, D. 2018b. J. Food Microbiol. 265: 9\u201317.\u00a0<a href=\"https:\/\/dx.doi.org\/10.1016\/j.ijfoodmicro.2017.10.028\">https:\/\/dx.doi.org\/10.1016\/j.ijfoodmicro.2017.10.028<\/a>.<\/li>\n<li>EFSA (2015). The food classification and description system FoodEx 2 (revision 2). Supporting publication 2015:EN-804. <a href=\"http:\/\/www.efsa.europa.eu\/en\/supporting\/pub\/215e.htm\">http:\/\/www.efsa.europa.eu\/en\/supporting\/pub\/215e.htm<\/a><\/li>\n<li>Emerson, J. B., Adams, R. I., Betancourt Rom\u00e1n C. M., Brooks, B., Coil, D. A., Dahlhausen, Holly H. Ganz, K., et al. 2017. Microbiome 5: 86.\u00a0<a href=\"https:\/\/dx.doi.org\/10.1186\/s40168-017-0285-3\">https:\/\/dx.doi.org\/10.1186\/s40168-017-0285-3<\/a>.<\/li>\n<li>Erkus, O., de Jager, V.C.L., Geene, R. T. C. M., van Alen-Boerrigter, I., Hazelwood, L., van Hijum, S. A .F. T., Kleerebezem, M., Smid, E. J. 2016. Int. J. Food Microbiol. 228: 1\u20139. <a href=\"https:\/\/dx.doi.org\/10.1016\/j.ijfoodmicro.2016.03.027\">https:\/\/dx.doi.org\/10.1016\/j.ijfoodmicro.2016.03.027<\/a>.<\/li>\n<li>Faust, K., Raes, J. 2016. F1000Research 5: 1519\u201314. <a href=\"https:\/\/dx.doi.org\/10.12688\/f1000research.9050.2\">https:\/\/dx.doi.org\/10.12688\/f1000research.9050.2<\/a>.<\/li>\n<li>Fouhy, F., Clooney, A. G., Stanton, C., Claesson, M.J., Cotter, P. D. 2016. BMC Microbiol. 16: 123. <a href=\"https:\/\/dx.doi.org\/10.1186\/s12866-016-0738-z\">https:\/\/dx.doi.org\/10.1186\/s12866-016-0738-z<\/a>.<\/li>\n<li>Garofalo, C., Osimani, A., Milanovic, V., Aquilanti, L., De Filippis, F., Stellato, G., Di Mauro, S., Turchetti, B., Buzzini, P., Ercolini, D., Clementi, F., 2015. Food Microbiol. 49: 123-133. <a href=\"https:\/\/dx.doi.org\/10.1016\/j.fm.2015.01.017\">https:\/\/dx.doi.org\/10.1016\/j.fm.2015.01.017<\/a><\/li>\n<li>Humblot, C., Guyot, J.-P. 2009. Appl. Environ. Microbiol. 75: 4354\u20134361. <a href=\"https:\/\/dx.doi.org\/10.1128\/AEM.00451-09\">https:\/\/dx.doi.org\/10.1128\/AEM.00451-09<\/a>.<\/li>\n<li>Kuuliala, L., Al Hage, Y., Ioannidis, A.-G., Sader, M., Kerckhof, F.-M., Vanderroost, M., Boon, N. et al. 2018. Food Microbiol. 70: 232\u201344. <a href=\"https:\/\/dx.doi.org\/10.1016\/j.fm.2017.10.011\">https:\/\/dx.doi.org\/10.1016\/j.fm.2017.10.011<\/a>.<\/li>\n<li>Layeghifard, M., Hwang, D. M., Guttman, D. S. 2017. Trends Microbiol. 25: 217\u201328.\u00a0<a href=\"https:\/\/dx.doi.org\/10.1016\/j.tim.2016.11.008\">https:\/\/dx.doi.org\/10.1016\/j.tim.2016.11.008<\/a>.<\/li>\n<li>Levy, S.E., Myers, R.M. 2016. Annu. Rev. Genom. Hum. Genet. 17:95-115. <a href=\"https:\/\/dx.doi.org\/10.1146\/annurev-genom-083115-022413\">https:\/\/dx.doi.org\/10.1146\/annurev-genom-083115-022413<\/a><\/li>\n<li>McDonald, D., Price, M.N., Goodrich, J., et al. 2012. ISME J. 6(3): 610-618. <a href=\"https:\/\/dx.doi.org\/1038\/ismej.2011.139\">https:\/\/dx.doi.org\/1038\/ismej.2011.139<\/a>.<\/li>\n<li>McMurdie, P. J., Susan Holmes. 2015. Bioinformatics 31: 282\u2013283. <a href=\"https:\/\/dx.doi.org\/10.1093\/bioinformatics\/btu616\">https:\/\/dx.doi.org\/10.1093\/bioinformatics\/btu616<\/a>.<\/li>\n<li>Mitchell, A. L., Scheremetjew, M., Denise, H., Potte, S., Tarkowska, A., Qureshi, M., Salazar, G. A., et al. 2018. Nucleic Acids Research 46: D726\u201335. <a href=\"https:\/\/dx.doi.org\/10.1093\/nar\/gkx967\">https:\/\/dx.doi.org\/10.1093\/nar\/gkx967<\/a>.<\/li>\n<li>Nature Editorial 2016. Nature Microbiology 1: 16112. <a href=\"https:\/\/dx.doi.org\/10.1038\/nmicrobiol.2016.112\">https:\/\/dx.doi.org\/10.1038\/nmicrobiol.2016.112<\/a><\/li>\n<li>Parente, E., Cocolin, L., De Filippis, F., Zotta, T., Ferrocino, I., O&#8217;Sullivan, O., Neviani, E., De Angelis, M., Cotter, P. D., Ercolini, D. 2016. Int. J. Food Microbiol. 219 28\u201337. <a href=\"https:\/\/dx.doi.org\/10.1016\/j.ijfoodmicro.2015.12.001\">https:\/\/dx.doi.org\/10.1016\/j.ijfoodmicro.2015.12.001<\/a>.<\/li>\n<li>Parente, E., Zotta, T., Faust, K., De Filippis, F., Ercolini, D. 2018. Food Microbiol. 73: 49-60. <a href=\"https:\/\/dx.doi.org\/10.1016\/j.fm.2017.12.010\">https:\/\/dx.doi.org\/10.1016\/j.fm.2017.12.010<\/a>.<\/li>\n<li>Quast, C., Pruesse, E., Yilmaz, P., Gerken, J., Schweer, T., Yarza, P. et al. 2013. Nucl. Ac. Res. 41 (Database issue): D590\u201396. \u00a0<a href=\"https:\/\/dx.doi.org\/10.1093\/nar\/gks1219\">https:\/\/dx.doi.org\/10.1093\/nar\/gks1219<\/a>.<\/li>\n<li>Qin J, et al. 2010. Nature. 464: 59-65. <a href=\"https:\/\/dx.doi.org\/10.1038\/nature08821\">https:\/\/dx.doi.org\/10.1038\/nature08821<\/a>.<\/li>\n<li>Quince, C., Walker, A.W., Simpson, J.T., Loman, N.J., Segata, N. 2017. Nat. Biotechnol. 35: 833-844. <a href=\"https:\/\/dx.doi.org\/10.1038\/nbt.3935\">https:\/\/dx.doi.org\/10.1038\/nbt.3935<\/a>.<\/li>\n<li>Sedlar, K., Kupkova, K., Provaznik, I. 2017. Comput. Struct. Biotecnol. J. 15: 48-55. \u00a0<a href=\"https:\/\/dx.doi.org\/1016\/j.csbj.2016.11.005\">https:\/\/dx.doi.org\/1016\/j.csbj.2016.11.005<\/a>.<\/li>\n<li>Singer, Esther, Bill Andreopoulos, Robert M Bowers, Janey Lee, Shweta Deshpande, Jennifer Chiniquy, Doina Ciobanu, et al. 2016. Scientific Data 3: 160081. <a href=\"https:\/\/dx.doi.org\/10.1038\/sdata.2016.81\">https:\/\/dx.doi.org\/10.1038\/sdata.2016.81<\/a>.<\/li>\n<li>Stellato, G., De Filippis, F., La Storia, A., Ercolini, D. 2015. and Envirn. Microbiol. 81:7893-7904.\u00a0<a href=\"https:\/\/dx.doi.org\/10.1128\/AEM.02294-15\">https:\/\/dx.doi.org\/10.1128\/AEM.02294-15<\/a>.<\/li>\n<li>Thompson, L. R, Sanders, J. G., McDonald, D., Amir, A., Ladau, J., Locey, K. J., Prill, R. J. et al. 2017. Nature 104: 457-465. <a href=\"https:\/\/dx.doi.org\/10.1038\/nature24621\">https:\/\/dx.doi.org\/10.1038\/nature24621<\/a>.<\/li>\n<li>Vandeputte, D., Tito, R.Y., Vanleeuwen, R., Falony, G., Raes, J. 2017. FEMS Microbiol. Rev. 41: S154\u201367. <a href=\"https:\/\/dx.doi.org\/10.1093\/femsre\/fux027\">https:\/\/dx.doi.org\/10.1093\/femsre\/fux027<\/a>.<\/li>\n<li>Zhou, J., He, Z., Yang, Y., Deng, Y., Tringe, S. G., Alvarez-Cohen. L. 2015. mBio 6 (1).\u00a0<a href=\"https:\/\/dx.doi.org\/10.1128\/mBio.02288-14\">https:\/\/dx.doi.org\/10.1128\/mBio.02288-14<\/a>.<\/li>\n<\/ol>\n","protected":false},"excerpt":{"rendered":"<p>Berni Canani, , De Filippis, F., et al. 2017. Appl. Environ. Microbiol. 83: e01206-17. \u00a0https:\/\/dx.doi.org\/10.1128\/AEM.01206-17. Bokulich, N. A., Mills, D.A. 2013. Appl. Environmen. Microbiol. 79: 2519\u2013226. \u00a0https:\/\/dx.doi.org\/10.1128\/AEM.03870-12. Callahan, B. J., McMurdie, P. J., Holmes, S. P.. 2017. ISME J. 11: &hellip; <a href=\"https:\/\/web.unibas.it\/parente\/?p=1341\">Continue reading <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[23,1],"tags":[],"class_list":["post-1341","post","type-post","status-publish","format-standard","hentry","category-foodmicrobionet","category-uncategorized"],"_links":{"self":[{"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=\/wp\/v2\/posts\/1341","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=1341"}],"version-history":[{"count":3,"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=\/wp\/v2\/posts\/1341\/revisions"}],"predecessor-version":[{"id":1345,"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=\/wp\/v2\/posts\/1341\/revisions\/1345"}],"wp:attachment":[{"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=1341"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=1341"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/web.unibas.it\/parente\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=1341"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}