{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,7]],"date-time":"2026-05-07T13:21:09Z","timestamp":1778160069038,"version":"3.51.4"},"reference-count":76,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2026,5,6]],"date-time":"2026-05-06T00:00:00Z","timestamp":1778025600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"abstract":"<jats:sec>\n                    <jats:title>Background and aims<\/jats:title>\n                    <jats:p>\n                      Crown gall caused by\n                      <jats:italic>Agrobacterium fabrum<\/jats:italic>\n                      is a significant bacterial disease affecting blueberry production worldwide. However, the lack of whole-genome information for this pathogen impedes genetic and molecular analysis of its pathogenic mechanisms.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Method and results<\/jats:title>\n                    <jats:p>\n                      To address this knowledge gap,\n                      <jats:italic>A. fabrum<\/jats:italic>\n                      L-11 was isolated from blueberry-growing areas in Qujing City, Yunnan Province, and its genome was sequenced using the Oxford Nanopore platform. Additionally, a comparative genome analysis was conducted with strains of\n                      <jats:italic>A. radiobacter<\/jats:italic>\n                      K84,\n                      <jats:italic>A. fabrum<\/jats:italic>\n                      1D132, and\n                      <jats:italic>A. fabrum<\/jats:italic>\n                      C58 to understand its pathogenic mechanism, evolutionary path, and virulence factors. The complete genome of\n                      <jats:italic>A. fabrum<\/jats:italic>\n                      L-11 is 5.70\u202fMb with a GC content of 59.0%, consisting of a 2.93 Mb linear chromosome, a 2.02\u202fMb circular chromosome, and four large plasmids ranging from 0.12 to 0.232\u202fMb (total plasmid content 0.743\u202fMb), an exceptional feature among\n                      <jats:italic>Agrobacterium<\/jats:italic>\n                      strains. The genome includes 5,385 genes, comprising 5,245 protein-coding sequences (CDS) and 140 RNA genes (54 tRNAs, 12 rRNAs, and 74 other non-coding RNAs). Functional annotation revealed significant enrichment in multiple metabolic pathways such as ABC transporters, amino acid biosynthesis, and carbon metabolism. The genome encodes a broad range of carbohydrate-active enzymes (CAZymes), including glycoside hydrolases and glycosyl transferases, indicating advanced capabilities in carbohydrate metabolism. A comparative genome study showed that\n                      <jats:italic>A. fabrum<\/jats:italic>\n                      L-11 differs from other strains in terms of virulence factors, GC content, chromosomal number, and plasmid count. Virulence factor analysis identified 1,071 potential virulence-related genes, including those associated with secretion systems, ABC transporters, and lipopolysaccharide production. With notable differences in opine usage compared to other strains, the Ti plasmid analysis revealed essential genes involved in virulence and tumor formation.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusion<\/jats:title>\n                    <jats:p>\n                      <jats:italic>Agrobacterium fabrum<\/jats:italic>\n                      L-11\u2019s comprehensive genome analysis offers valuable new insights into its metabolic abilities, pathogenicity mechanisms, and evolutionary links with other Agrobacterium species. This genetic information will serve as a foundation for research on host-pathogen interactions and assist in developing biocontrol strategies for crown gall disease in blueberries, leading to more effective disease management.\n                    <\/jats:p>\n                  <\/jats:sec>","DOI":"10.3389\/fmicb.2026.1776711","type":"journal-article","created":{"date-parts":[[2026,5,7]],"date-time":"2026-05-07T13:02:49Z","timestamp":1778158969000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":0,"title":["Whole-genome sequencing and comparative genomic analysis of Agrobacterium fabrum L-11 causing crown gall disease in blueberry"],"prefix":"10.3389","volume":"17","author":[{"given":"Han","family":"Meng","sequence":"first","affiliation":[{"name":"State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan\/Key Laboratory of Agro-Biodiversity and Pest Management of Ministry of Education, Yunnan Agricultural University","place":["Kunming, Yunnan, China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yue","family":"Qiu","sequence":"additional","affiliation":[{"name":"State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan\/Key Laboratory of Agro-Biodiversity and Pest Management of Ministry of Education, Yunnan Agricultural University","place":["Kunming, Yunnan, China"]},{"name":"College of Agriculture, Anshun University","place":["Anshun, Guizhou, China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jinhao","family":"Zhang","sequence":"additional","affiliation":[{"name":"State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan\/Key Laboratory of Agro-Biodiversity and Pest Management of Ministry of Education, Yunnan Agricultural University","place":["Kunming, Yunnan, China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Haowen","family":"He","sequence":"additional","affiliation":[{"name":"State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan\/Key Laboratory of Agro-Biodiversity and Pest Management of Ministry of Education, Yunnan Agricultural University","place":["Kunming, Yunnan, China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Juxiang","family":"Wang","sequence":"additional","affiliation":[{"name":"State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan\/Key Laboratory of Agro-Biodiversity and Pest Management of Ministry of Education, Yunnan Agricultural University","place":["Kunming, Yunnan, China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dalal Hussien M.","family":"Alkhalifah","sequence":"additional","affiliation":[{"name":"Department of Biology, College of Science, Princess Nourah Bint Abdulrahman University","place":["Riyadh, Saudi Arabia"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lanfang","family":"Wei","sequence":"additional","affiliation":[{"name":"State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan\/Key Laboratory of Agro-Biodiversity and Pest Management of Ministry of Education, Yunnan Agricultural University","place":["Kunming, Yunnan, China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Waqar","family":"Ahmed","sequence":"additional","affiliation":[{"name":"School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University","place":["Sanya, China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Guanghai","family":"Ji","sequence":"additional","affiliation":[{"name":"State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan\/Key Laboratory of Agro-Biodiversity and Pest Management of Ministry of Education, Yunnan Agricultural University","place":["Kunming, Yunnan, China"]}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1965","published-online":{"date-parts":[[2026,5,6]]},"reference":[{"key":"ref1","doi-asserted-by":"publisher","first-page":"25","DOI":"10.1186\/s41938-022-00527-5","article-title":"Bacillus amyloliquefaciens WS-10 as a potential plant growth-promoter and biocontrol agent for bacterial wilt disease of flue-cured tobacco","volume":"32","author":"Ahmed","year":"2022","journal-title":"Egypt. 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