{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,26]],"date-time":"2026-10-26T18:43:52Z","timestamp":1793040232501,"version":"4.5.0"},"reference-count":96,"publisher":"Microbiology Society","issue":"10","license":[{"start":{"date-parts":[[2023,10,5]],"date-time":"2023-10-05T00:00:00Z","timestamp":1696464000000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100008787","name":"National Institute of Fisheries Science","doi-asserted-by":"crossref","award":["R2023050"],"award-info":[{"award-number":["R2023050"]}],"id":[{"id":"10.13039\/501100008787","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,10,5]]},"abstract":"Members of the genus \n \n Chryseobacterium<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> have attracted great interest as beneficial bacteria that can promote plant growth and biocontrol. Given the recent risks of climate change, it is important to develop tolerance strategies for efficient applications of plant-beneficial bacteria in saline environments. However, the genetic determinants of plant-growth-promoting and halotolerance effects in \n \n Chryseobacterium<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> have not yet been investigated at the genomic level. Here, a comparative genomic analysis was conducted with seven \n \n Chryseobacterium<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> species. Phylogenetic and phylogenomic analyses revealed niche-specific evolutionary distances between soil and freshwater \n \n Chryseobacterium<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> species, consistent with differences in genomic statistics, indicating that the freshwater bacteria have smaller genome sizes and fewer genes than the soil bacteria. Phosphorus- and zinc-cycling genes (required for nutrient acquisition in plants) were universally present in all species, whereas nitrification and sulphite reduction genes (required for nitrogen- and sulphur-cycling, respectively) were distributed only in soil bacteria. A pan-genome containing 6842 gene clusters was constructed, which reflected the general features of the core, accessory and unique genomes. Halotolerant species with an accessory genome shared a Kdp potassium transporter and biosynthetic pathways for branched-chain amino acids and the carotenoid lycopene, which are associated with countermeasures against salt stress. Protein\u2013protein interaction network analysis was used to define the genetic determinants of \n \n Chryseobacterium salivictor<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> NBC122 that reduce salt damage in bacteria and plants. Sixteen hub genes comprised the aromatic compound degradation and Por secretion systems, which are required to cope with complex stresses associated with saline environments. Horizontal gene transfer and CRISPR\u2013Cas analyses indicated that \n \n C. salivictor<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> NBC122 underwent more evolutionary events when interacting with different environments. These findings provide deep insights into genomic adaptation to dynamic interactions between plant-growth-promoting \n \n Chryseobacterium<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> and salt stress.<\/jats:p>","DOI":"10.1099\/mgen.0.001108","type":"journal-article","created":{"date-parts":[[2023,10,5]],"date-time":"2023-10-05T14:16:38Z","timestamp":1696515398000},"source":"Crossref","is-referenced-by-count":32,"title":["Comparative genomic analysis of Chryseobacterium species: deep insights into plant-growth-promoting and halotolerant capacities"],"prefix":"10.1099","volume":"9","author":[{"given":"Hyejung","family":"Jung","sequence":"first","affiliation":[{"name":"Biotechnology Research Division, National Institute of Fisheries Science, Busan 46083, South Korea"},{"name":"Department of Integrated Biological Science, Pusan National University, Busan 46241, South Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Duyoung","family":"Lee","sequence":"additional","affiliation":[{"name":"Department of Integrated Biological Science, Pusan National University, Busan 46241, South Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Seungchul","family":"Lee","sequence":"additional","affiliation":[{"name":"Department of Integrated Biological Science, Pusan National University, Busan 46241, South Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hee Jeong","family":"Kong","sequence":"additional","affiliation":[{"name":"Biotechnology Research Division, National Institute of Fisheries Science, Busan 46083, South Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jungwook","family":"Park","sequence":"additional","affiliation":[{"name":"Biotechnology Research Division, National Institute of Fisheries Science, Busan 46083, South Korea"},{"name":"Department of Integrated Biological Science, Pusan National University, Busan 46241, South Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9191-1405","authenticated-orcid":false,"given":"Young-Su","family":"Seo","sequence":"additional","affiliation":[{"name":"Department of Integrated Biological Science, Pusan National University, Busan 46241, South Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"345","reference":[{"key":"R1","doi-asserted-by":"publisher","DOI":"10.1128\/MRA.01028-19"},{"key":"R2","first-page":"351","article-title":"Complete genome sequence of Chryseobacterium sp. 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