Lutibacter holmesii sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from the sea urchin Strongylocentrotus intermedius, and emended description of the genus Lutibacter

Int J Syst Evol Microbiol. 2015 Nov;65(11):3991-3996. doi: 10.1099/ijsem.0.000525. Epub 2015 Aug 14.


Seven Gram-staining-negative, strictly aerobic, pale-yellow-pigmented, rod-shaped and non-motile strains were isolated from the sea urchin Strongylocentrotus intermedius collected from Troitsa Bay, Sea of Japan. Phylogenetic analyses based on 16S rRNA gene sequences showed that these isolates were affiliated with the family Flavobacteriaceae. The novel isolates showed 99.9-100 % 16S rRNA gene sequence similarity to each other and were closely related to the type strains of the recognized members of the genus Lutibacter with sequence similarities of 95.8-98.4 %. The G+C content of the genomic DNA was 35-36 mol%. DNA-DNA relatedness among the sea urchin isolates was 95-99 % and between strain KMM 6277T and its most closely related type strains, Lutibacter agarilyticus KCTC 23842T and Lutibacter litoralis JCM 13034T, was 38 and 27 %, respectively. The prevalent fatty acids were iso-C15 : 0, anteiso-C15 : 0, summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1 ω7c fatty acids), iso-C15 : 1 and C15 : 0. The polar lipid profile was composed of the phosphatidylethanolamine, one unknown aminolipid and one unknown lipid. The main respiratory isoprenoid quinone was MK-6.The results of phylogenetic, phenotypic and genotypic analyses indicated that the novel strains represent a novel species within the genus Lutibacter, for which the name Lutibacter holmesii sp. nov. is proposed. The type strain is KMM 6277T ( = CCUG 62221T = LMG 26737T).

MeSH terms

  • Animals
  • Bacterial Typing Techniques
  • Base Composition
  • DNA, Bacterial / genetics
  • Fatty Acids / chemistry
  • Flavobacteriaceae / classification*
  • Flavobacteriaceae / genetics
  • Flavobacteriaceae / isolation & purification
  • Japan
  • Phosphatidylethanolamines / chemistry
  • Phylogeny*
  • Pigmentation
  • RNA, Ribosomal, 16S / genetics
  • Sequence Analysis, DNA
  • Strongylocentrotus / microbiology*
  • Vitamin K 2 / analogs & derivatives
  • Vitamin K 2 / chemistry


  • DNA, Bacterial
  • Fatty Acids
  • Phosphatidylethanolamines
  • RNA, Ribosomal, 16S
  • Vitamin K 2
  • phosphatidylethanolamine
  • menaquinone 6