{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T13:26:34Z","timestamp":1790774794373,"version":"4.1.0"},"reference-count":53,"publisher":"American Society for Microbiology","issue":"1","license":[{"start":{"date-parts":[[2019,2,12]],"date-time":"2019-02-12T00:00:00Z","timestamp":1549929600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2019,2,26]],"date-time":"2019-02-26T00:00:00Z","timestamp":1551139200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["DBI-1652164"],"award-info":[{"award-number":["DBI-1652164"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"HHS | NIH | National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["1R15GM114706"],"award-info":[{"award-number":["1R15GM114706"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000199","name":"U.S. Department of Agriculture","doi-asserted-by":"publisher","award":["58-8042-7-072"],"award-info":[{"award-number":["58-8042-7-072"]}],"id":[{"id":"10.13039\/100000199","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["mSystems"],"published-print":{"date-parts":[[2019,2,26]]},"abstract":"<jats:p>Recent pangenome analyses of numerous bacterial species have suggested that each genome of a single species may have a significant fraction of its gene content unique or shared by a very few genomes (i.e., ORFans). We selected nine bacterial genera, each containing at least five pathogenic and five nonpathogenic genomes, to compare their ORFans in relation to pathogenicity-related genes. Pathogens in these genera are known to cause a number of common and devastating human diseases such as pneumonia, diphtheria, melioidosis, and tuberculosis. Thus, they are worthy of in-depth systems microbiology investigations, including the comparative study of ORFans between pathogens and nonpathogens. We provide direct evidence to suggest that ORFans shared by more pathogens are more associated with pathogenicity-related genes and thus are more important targets for development of new diagnostic markers or therapeutic drugs for bacterial infectious diseases.<\/jats:p>","DOI":"10.1128\/msystems.00290-18","type":"journal-article","created":{"date-parts":[[2019,2,11]],"date-time":"2019-02-11T11:53:54Z","timestamp":1549886034000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":25,"title":["Orphan Genes Shared by Pathogenic Genomes Are More Associated with Bacterial Pathogenicity"],"prefix":"10.1128","volume":"4","author":[{"given":"Sarah","family":"Entwistle","sequence":"first","affiliation":[{"name":"Department of Biological Sciences, Northern Illinois University, DeKalb, Illinois, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xueqiong","family":"Li","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Northern Illinois University, DeKalb, Illinois, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7667-881X","authenticated-orcid":false,"given":"Yanbin","family":"Yin","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Northern Illinois University, DeKalb, Illinois, USA"},{"name":"Department of Food Science and Technology, University of Nebraska\u2014Lincoln, Lincoln, Nebraska, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_2_2_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/15.9.759"},{"key":"e_1_3_2_3_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btw122"},{"key":"e_1_3_2_4_2","doi-asserted-by":"publisher","DOI":"10.3389\/fgene.2015.00234"},{"key":"e_1_3_2_5_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2148-6-63"},{"key":"e_1_3_2_6_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.tig.2009.07.006"},{"key":"e_1_3_2_7_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-9-24"},{"key":"e_1_3_2_8_2","doi-asserted-by":"publisher","DOI":"10.1101\/gr.2231904"},{"key":"e_1_3_2_9_2","doi-asserted-by":"publisher","DOI":"10.1002\/prot.10423"},{"key":"e_1_3_2_10_2","doi-asserted-by":"publisher","DOI":"10.1038\/nrg3053"},{"key":"e_1_3_2_11_2","doi-asserted-by":"publisher","DOI":"10.1093\/gbe\/evs081"},{"key":"e_1_3_2_12_2","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M010297200"},{"key":"e_1_3_2_13_2","doi-asserted-by":"publisher","DOI":"10.1101\/gr.10.7.959"},{"key":"e_1_3_2_14_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bth075"},{"key":"e_1_3_2_15_2","doi-asserted-by":"publisher","DOI":"10.1128\/JB.01448-13"},{"key":"e_1_3_2_16_2","doi-asserted-by":"publisher","DOI":"10.1111\/1574-6968.12288"},{"key":"e_1_3_2_17_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pgen.1003269"},{"key":"e_1_3_2_18_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0050649"},{"key":"e_1_3_2_19_2","doi-asserted-by":"publisher","DOI":"10.1534\/genetics.111.135640"},{"key":"e_1_3_2_20_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0025293"},{"key":"e_1_3_2_21_2","doi-asserted-by":"publisher","DOI":"10.2174\/092986608785133609"},{"key":"e_1_3_2_22_2","doi-asserted-by":"publisher","DOI":"10.1107\/S1744309106052730"},{"key":"e_1_3_2_23_2","doi-asserted-by":"publisher","DOI":"10.1002\/prot.21375"},{"key":"e_1_3_2_24_2","doi-asserted-by":"publisher","DOI":"10.1002\/prot.21015"},{"key":"e_1_3_2_25_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.1003175"},{"key":"e_1_3_2_26_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pgen.0010062"},{"key":"e_1_3_2_27_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0008094"},{"key":"e_1_3_2_28_2","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2009-10-6-r65"},{"key":"e_1_3_2_29_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0000324"},{"key":"e_1_3_2_30_2","doi-asserted-by":"publisher","DOI":"10.1099\/mic.0.28146-0"},{"key":"e_1_3_2_31_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0378-1097(03)00512-3"},{"key":"e_1_3_2_32_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.gde.2005.09.006"},{"key":"e_1_3_2_33_2","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro1901"},{"key":"e_1_3_2_34_2","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro2123"},{"key":"e_1_3_2_35_2","doi-asserted-by":"publisher","DOI":"10.1007\/s00248-010-9717-3"},{"key":"e_1_3_2_36_2","doi-asserted-by":"publisher","DOI":"10.1128\/JB.00619-08"},{"key":"e_1_3_2_37_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.drudis.2007.04.008"},{"key":"e_1_3_2_38_2","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2007-8-5-r71"},{"key":"e_1_3_2_39_2","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2007-8-6-r103"},{"key":"e_1_3_2_40_2","doi-asserted-by":"publisher","DOI":"10.1128\/JB.00690-07"},{"key":"e_1_3_2_41_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0506758102"},{"key":"e_1_3_2_42_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0911295107"},{"key":"e_1_3_2_43_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature06248"},{"key":"e_1_3_2_44_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2006.02.002"},{"key":"e_1_3_2_45_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1462-2920.2012.02886.x"},{"key":"e_1_3_2_46_2","doi-asserted-by":"publisher","DOI":"10.1093\/bfgp\/elt015"},{"key":"e_1_3_2_47_2","doi-asserted-by":"publisher","DOI":"10.1038\/nrg3226"},{"key":"e_1_3_2_48_2","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro3565"},{"key":"e_1_3_2_49_2","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro.2015.13"},{"key":"e_1_3_2_50_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.3176"},{"key":"e_1_3_2_51_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw387"},{"key":"e_1_3_2_52_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkx343"},{"key":"e_1_3_2_53_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkv1239"},{"key":"e_1_3_2_54_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.1818"}],"container-title":["mSystems"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/msystems.00290-18","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/msystems.00290-18","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,8,11]],"date-time":"2024-08-11T18:59:19Z","timestamp":1723402759000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.asm.org\/doi\/10.1128\/msystems.00290-18"}},"subtitle":[],"editor":[{"given":"Rup","family":"Lal","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2019,2,26]]},"references-count":53,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2019,2,26]]}},"alternative-id":["10.1128\/msystems.00290-18"],"URL":"https:\/\/doi.org\/10.1128\/msystems.00290-18","relation":{},"ISSN":["2379-5077"],"issn-type":[{"value":"2379-5077","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,2,26]]},"assertion":[{"value":"2018-11-15","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2019-01-08","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2019-02-12","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"10.1128\/msystems.00290-18"}}