{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,18]],"date-time":"2026-03-18T01:19:52Z","timestamp":1773796792764,"version":"3.50.1"},"reference-count":89,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2021,9,22]],"date-time":"2021-09-22T00:00:00Z","timestamp":1632268800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Zhejiang Provincial Natural Science Foundation of China","award":["LR19C060001"],"award-info":[{"award-number":["LR19C060001"]}]},{"DOI":"10.13039\/501100002367","name":"Chinese Academy of Sciences","doi-asserted-by":"publisher","award":["WIBEZD2017009-05"],"award-info":[{"award-number":["WIBEZD2017009-05"]}],"id":[{"id":"10.13039\/501100002367","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,1,7]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>From industry to food to health, bacteria play an important role in all facets of life. Some of the most important bacteria have been purposely engineered to produce commercial quantities of antibiotics and therapeutics, and non-classical secretion systems are at the forefront of these technologies. Unlike the classical Sec or Tat pathways, non-classically secreted proteins share few common characteristics and use much more diverse secretion pathways for protein transport. Systematically categorizing and investigating the non-classically secreted proteins will enable a deeper understanding of their associated secretion mechanisms and provide a landscape of the Gram-positive secretion pathway distribution. We therefore developed PncsHub (https:\/\/pncshub.erc.monash.edu\/), the first universal platform for comprehensively annotating and analyzing Gram-positive bacterial non-classically secreted proteins. PncsHub catalogs 4,914 non-classically secreted proteins, which are delicately categorized into 8 subtypes (including the \u2018unknown\u2019 subtype) and annotated with data compiled from up to 26 resources and visualisation tools. It incorporates state-of-the-art predictors to identify new and homologous non-classically secreted proteins and includes three analytical modules to visualise the relationships between known and putative non-classically secreted proteins. As such, PncsHub aims to provide integrated services for investigating, predicting\u00a0and identifying non-classically secreted proteins to promote hypothesis-driven laboratory-based experiments.<\/jats:p>","DOI":"10.1093\/nar\/gkab814","type":"journal-article","created":{"date-parts":[[2021,9,8]],"date-time":"2021-09-08T11:37:07Z","timestamp":1631101027000},"page":"D848-D857","source":"Crossref","is-referenced-by-count":11,"title":["PncsHub: a platform for annotating and analyzing non-classically secreted proteins in Gram-positive bacteria"],"prefix":"10.1093","volume":"50","author":[{"given":"Wei","family":"Dai","sequence":"first","affiliation":[{"name":"School of Computer Science and Information Security, Guilin University of Electronic Technology, Guilin 541004, China"},{"name":"Infection and Immunity Program, Biomedicine Discovery Institute and Department of Microbiology, Monash University,\u00a0VIC 3800, Australia"},{"name":"Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou 325011, China"}]},{"given":"Jiahui","family":"Li","sequence":"additional","affiliation":[{"name":"School of Computer Science and Information Security, Guilin University of Electronic Technology, Guilin 541004, China"}]},{"given":"Qi","family":"Li","sequence":"additional","affiliation":[{"name":"School of Computer Science and Information Security, Guilin University of Electronic Technology, Guilin 541004, China"}]},{"given":"Jiasheng","family":"Cai","sequence":"additional","affiliation":[{"name":"School of Computer Science and Information Security, Guilin University of Electronic Technology, Guilin 541004, China"}]},{"given":"Jianzhong","family":"Su","sequence":"additional","affiliation":[{"name":"Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou 325011, China"},{"name":"School of Ophthalmology & Optometry and Eye Hospital, Wenzhou Medical University, Wenzhou 325027, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4388-3184","authenticated-orcid":false,"given":"Christopher","family":"Stubenrauch","sequence":"additional","affiliation":[{"name":"Infection and Immunity Program, Biomedicine Discovery Institute and Department of Microbiology, Monash University,\u00a0VIC 3800, Australia"},{"name":"Centre to Impact AMR, Monash University,\u00a0VIC 3800, Australia"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5940-8113","authenticated-orcid":false,"given":"Jiawei","family":"Wang","sequence":"additional","affiliation":[{"name":"Infection and Immunity Program, Biomedicine Discovery Institute and Department of Microbiology, Monash University,\u00a0VIC 3800, Australia"},{"name":"Centre to Impact AMR, Monash University,\u00a0VIC 3800, Australia"}]}],"member":"286","published-online":{"date-parts":[[2021,9,22]]},"reference":[{"key":"2022010507323239500_B1","doi-asserted-by":"crossref","first-page":"846","DOI":"10.1128\/jb.156.2.846-858.1983","article-title":"Cellular responses of Bacillus subtilis and Escherichia coli to the Gram stain","volume":"156","author":"Beveridge","year":"1983","journal-title":"J. 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Microbiol."},{"key":"2022010507323239500_B62","first-page":"31812","article-title":"Control of Listeria superoxide dismutase by phosphorylation","volume":"281","author":"Archambaud","year":"2006","journal-title":"J. Biol. Chem."},{"key":"2022010507323239500_B63","doi-asserted-by":"crossref","first-page":"4349","DOI":"10.1128\/IAI.00827-15","article-title":"A duplicated ESAT-6 region of ESX-5 is involved in protein export and virulence of Mycobacteria","volume":"83","author":"Shah","year":"2015","journal-title":"Infect. 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