title: Chryseobacterium cucumeris sp. nov., an endophyte isolated from cucumber (Cucumis sativus L.) root, and emended description of Chryseobacterium arthrosphaerae.
abstract: The Gram-stain-negative, yellow-pigmented, rod-shaped bacterial strain GSE06T, isolated from the surface-sterilized root of a cucumber plant grown in a field in Gunsan, Korea, was characterized by not only cultural and morphological features but also physiological, biochemical and molecular analyses. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain GSE06Twas most closely related to species of the genus Chryseobacterium. Furthermore, strain GSE06Texhibited the highest sequence similarities with the type strains Chryseobacterium indologenes ATCC 29897T(98.9 %), Chryseobacterium gleum ATCC 35910T(98.8 %), Chryseobacterium arthrosphaerae CC-VM-7T(98.7 %), Chryseobacterium contaminans C26T(98.5 %), Chryseobacterium artocarpi UTM-3T(98.3 %), and Chryseobacterium gallinarum 100T(97.9 %). Average nucleotide identity values between genome sequences of strain GSE06Tand the above-mentioned reference strains ranged from 81.2 to 86.9 %, which were lower than the threshold of 95 % (corresponding to a DNA-DNA reassociation value of 70 %). The DNA G+C content of strain GSE06Twas 36.1 mol%; the predominant respiratory quinone of the strain was MK-6. The major fatty acids were iso-C15 : 0, summed feature 9 (iso-C17 : 1ω9c), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and iso-C17 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, three aminolipids, one aminophospholipid, four glycolipids and one unidentified lipid. These results of phenotypic and genotypic characteristics could differentiate strain GSE06Tfrom closely related type strains belonging to the genus Chryseobacterium. Thus, strain GSE06Tis proposed as a representative of a novel species in the genus Chryseobacterium, Chryseobacterium cucumeris sp. nov. The type strain is GSE06T(=KACC 18798T=JCM 31422T).
authors.affiliation: Laboratory of Plant Disease and Biocontrol, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Republic of Korea.
authors.forename: Jin-Ju
authors.initials: JJ
authors.lastname: Jeong
authors.affiliation: Department of Biosystems and Biotechnology, Korea University, Seoul 02841, Republic of Korea.
authors.forename: Dong Wan
authors.initials: DW
authors.lastname: Lee
authors.affiliation: Department of Biotechnology, Korea University, Seoul 02841, Republic of Korea.
authors.forename: Byeonghyeok
authors.initials: B
authors.lastname: Park
authors.affiliation: Present address: Division of Agricultural Microbiology, National Academy of Agricultural Science, Rural Development Administration, Jeonju 55365, Republic of Korea.|Laboratory of Plant Disease and Biocontrol, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Republic of Korea.
authors.forename: Mee Kyung
authors.initials: MK
authors.lastname: Sang
authors.affiliation: Department of Biotechnology, Korea University, Seoul 02841, Republic of Korea.
authors.forename: In-Geol
authors.initials: IG
authors.lastname: Choi
authors.affiliation: Laboratory of Plant Disease and Biocontrol, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Republic of Korea.
authors.forename: Ki Deok
authors.initials: KD
authors.lastname: Kim
mesh_terms: D015373:Bacterial Typing Techniques; D001482:Base Composition; D045247:Chryseobacterium / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification; D018553:Cucumis sativus / Q000382:microbiology*; D004269:DNA, Bacterial / Q000235:genetics; D060026:Endophytes / Q000145:classification / Q000235:genetics / Q000302:isolation & purification; D005227:Fatty Acids / Q000737:chemistry; D009693:Nucleic Acid Hybridization; D010743:Phospholipids / Q000737:chemistry; D010802:Phylogeny; D010858:Pigmentation; D018517:Plant Roots / Q000382:microbiology*; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D056910:Republic of Korea; D017422:Sequence Analysis, DNA; D024482:Vitamin K 2 / Q000031:analogs & derivatives / Q000737:chemistry
chemical_list: D004269:DNA, Bacterial; D005227:Fatty Acids; D010743:Phospholipids; D012336:RNA, Ribosomal, 16S; D024482:Vitamin K 2; C042455:menaquinone 6
keywords: Chryseobacterium cucumeris; Chryseobacterium strain GSE06; average nucleotide identity; biocontrol agent; endophytic bacterium