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A total of 209 partial\n                    <jats:italic>pol<\/jats:italic>\n                    gene sequences of HIV-1 CRF55_01B were sampled during 2007\u20132015 from 7 provinces of China. Phylogenetic analyses and trait diffusion process of these sequences were performed using Bayesian methods. Distance-based molecular network analyses were performed to infer putative relationships. Characteristics of genetically linked individuals were analyzed. Our study identified that HIV-1 CRF55_01B likely originated among men who have sex with men (MSM) in Guangdong province in January 2003 (April 2000\u2013April 2005), and that Guangdong province and MSM are major hubs for the spread of the HIV-1 CRF55_01B epidemic in China. A Bayesian Skygrid plot revealed that the effective population size of HIV-1 CRF55_01B experienced increased phase followed by a plateau. All sequences from persons of unknown risk clustered within groups who reported MSM risk. This could be because Chinese MSM may not report such risk due to HIV\/AIDS-related stigmatization and discrimination. This study inferred the transmission dynamics of the HIV-1 CRF55_01B epidemic in China at high resolution. The methods developed in this study may be critical for designing effective HIV prevention strategies in China and beyond.\n                  <\/jats:p>","DOI":"10.1038\/s41598-020-61870-x","type":"journal-article","created":{"date-parts":[[2020,3,20]],"date-time":"2020-03-20T07:03:20Z","timestamp":1584687800000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":27,"title":["Tracing the transmission dynamics of HIV-1 CRF55_01B"],"prefix":"10.1038","volume":"10","author":[{"given":"Junjie","family":"Zai","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Haizhou","family":"Liu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhenzhen","family":"Lu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Antoine","family":"Chaillon","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Davey","family":"Smith","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yi","family":"Li","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xingguang","family":"Li","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2020,3,20]]},"reference":[{"key":"61870_CR1","doi-asserted-by":"publisher","first-page":"298","DOI":"10.1093\/cid\/cit210","volume":"57","author":"Z Wu","year":"2013","unstructured":"Wu, Z. et al. 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Molecular epidemiology of HIV-1 in Jilin province, northeastern China: emergence of a new CRF07_BC transmission cluster and intersubtype recombinants. PLoS One 9, e110738, https:\/\/doi.org\/10.1371\/journal.pone.0110738 (2014).","journal-title":"PLoS One"},{"key":"61870_CR4","doi-asserted-by":"publisher","first-page":"701","DOI":"10.1089\/AID.2014.0008","volume":"30","author":"X Li","year":"2014","unstructured":"Li, X. et al. Near full-length genome sequence of a novel HIV-1 recombinant form (CRF01_AE\/B) detected among men who have sex with men in Jilin Province, China. AIDS Res. Hum. Retroviruses 30, 701\u2013705, https:\/\/doi.org\/10.1089\/AID.2014.0008 (2014).","journal-title":"AIDS Res. Hum. Retroviruses"},{"key":"61870_CR5","doi-asserted-by":"publisher","first-page":"1604","DOI":"10.1089\/AID.2013.0116","volume":"29","author":"X Li","year":"2013","unstructured":"Li, X. et al. 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