Echinicola sediminis sp. Nov., a marine bacterium isolated from coastal sediment

Dong Wan Lee, Aslan Hwanhwi Lee, Hanbyul Lee, Jae-Jin Kim, Jong Seong Khim, Un Hyuk Yim, Beom Seok Kim

Research output: Contribution to journalArticle

4 Citations (Scopus)

Abstract

A novel Gram-stain-negative, rod-shaped, gliding bacterium, designated strain 001-Na2T, was isolated from coastal sediment of the Yellow Sea in Sindu-ri, Republic of Korea. Cells were aerobic, oxidase-positive and catalase-positive. Colonies were dark salmon-coloured, circular, and pulvinate with entire margins. 16S rRNA gene sequence analysis revealed that strain 001-Na2T belonged to the genus Echinicola and these species formed a distinct lineage within the family Cyclobacteriaceae. The closest phylogenetic neighbours were ‘Echinicola shivajiensis’ AK12T (98.1% 16S rRNA gene sequence similarity), Echinicola vietnamensis LMG 23754T (96.4 %), Echinicola jeungdonensis HMD 3054T (96.0 %), Echinicola pacifica KMM 6172T (96.0 %) and Echinicola rosea JL 3085T (95.8 %). The predominant respiratory quinone was menaquinone MK-7. The major fatty acids were iso-C15: 0, summed feature 3 (comprising C16: 1ω7c and/or C16: 1ω6c), C17: 1ω6c and summed feature 9 (comprising iso-C17: 1ω9c and/or 10-methyl C16: 0). The polar lipids were phosphatidylethanolamine, one unidentified aminophospholipid, one unidentified phospholipid and three unidentified lipids. The DNA G+C content was 44.6 mol%. DNA– DNA relatedness between strain 001-Na2T and ‘E. shivajiensis’ JCM 17847T was 20.8–21.1 %. On the basis of the phenotypic features, and phylogenetic and DNA–DNA hybridization analyses presented, strain 001-Na2T (=KCTC 52495T=JCM 31786T =DSM 103729T) is the type strain of a novel species of the genus Echinicola, for which the name Echinicola sediminis sp. nov. is proposed.

Original languageEnglish
Article number002118
Pages (from-to)3351-3357
Number of pages7
JournalInternational Journal of Systematic and Evolutionary Microbiology
Volume67
Issue number9
DOIs
Publication statusPublished - 2017 Sep 1

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coastal sediment
Bacteria
rRNA Genes
DNA
sediments
bacterium
bacteria
lipid
phylogenetics
Lipids
Republic of Korea
gliding
gene
Salmon
Base Composition
phospholipid
relatedness
Oceans and Seas
Catalase
Names

Keywords

  • Bacteroidetes
  • Coastal sediment
  • Echinicola
  • Marine bacterium

ASJC Scopus subject areas

  • Microbiology
  • Ecology, Evolution, Behavior and Systematics

Cite this

Echinicola sediminis sp. Nov., a marine bacterium isolated from coastal sediment. / Lee, Dong Wan; Lee, Aslan Hwanhwi; Lee, Hanbyul; Kim, Jae-Jin; Khim, Jong Seong; Yim, Un Hyuk; Kim, Beom Seok.

In: International Journal of Systematic and Evolutionary Microbiology, Vol. 67, No. 9, 002118, 01.09.2017, p. 3351-3357.

Research output: Contribution to journalArticle

Lee, Dong Wan ; Lee, Aslan Hwanhwi ; Lee, Hanbyul ; Kim, Jae-Jin ; Khim, Jong Seong ; Yim, Un Hyuk ; Kim, Beom Seok. / Echinicola sediminis sp. Nov., a marine bacterium isolated from coastal sediment. In: International Journal of Systematic and Evolutionary Microbiology. 2017 ; Vol. 67, No. 9. pp. 3351-3357.
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abstract = "A novel Gram-stain-negative, rod-shaped, gliding bacterium, designated strain 001-Na2T, was isolated from coastal sediment of the Yellow Sea in Sindu-ri, Republic of Korea. Cells were aerobic, oxidase-positive and catalase-positive. Colonies were dark salmon-coloured, circular, and pulvinate with entire margins. 16S rRNA gene sequence analysis revealed that strain 001-Na2T belonged to the genus Echinicola and these species formed a distinct lineage within the family Cyclobacteriaceae. The closest phylogenetic neighbours were ‘Echinicola shivajiensis’ AK12T (98.1{\%} 16S rRNA gene sequence similarity), Echinicola vietnamensis LMG 23754T (96.4 {\%}), Echinicola jeungdonensis HMD 3054T (96.0 {\%}), Echinicola pacifica KMM 6172T (96.0 {\%}) and Echinicola rosea JL 3085T (95.8 {\%}). The predominant respiratory quinone was menaquinone MK-7. The major fatty acids were iso-C15: 0, summed feature 3 (comprising C16: 1ω7c and/or C16: 1ω6c), C17: 1ω6c and summed feature 9 (comprising iso-C17: 1ω9c and/or 10-methyl C16: 0). The polar lipids were phosphatidylethanolamine, one unidentified aminophospholipid, one unidentified phospholipid and three unidentified lipids. The DNA G+C content was 44.6 mol{\%}. DNA– DNA relatedness between strain 001-Na2T and ‘E. shivajiensis’ JCM 17847T was 20.8–21.1 {\%}. On the basis of the phenotypic features, and phylogenetic and DNA–DNA hybridization analyses presented, strain 001-Na2T (=KCTC 52495T=JCM 31786T =DSM 103729T) is the type strain of a novel species of the genus Echinicola, for which the name Echinicola sediminis sp. nov. is proposed.",
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N2 - A novel Gram-stain-negative, rod-shaped, gliding bacterium, designated strain 001-Na2T, was isolated from coastal sediment of the Yellow Sea in Sindu-ri, Republic of Korea. Cells were aerobic, oxidase-positive and catalase-positive. Colonies were dark salmon-coloured, circular, and pulvinate with entire margins. 16S rRNA gene sequence analysis revealed that strain 001-Na2T belonged to the genus Echinicola and these species formed a distinct lineage within the family Cyclobacteriaceae. The closest phylogenetic neighbours were ‘Echinicola shivajiensis’ AK12T (98.1% 16S rRNA gene sequence similarity), Echinicola vietnamensis LMG 23754T (96.4 %), Echinicola jeungdonensis HMD 3054T (96.0 %), Echinicola pacifica KMM 6172T (96.0 %) and Echinicola rosea JL 3085T (95.8 %). The predominant respiratory quinone was menaquinone MK-7. The major fatty acids were iso-C15: 0, summed feature 3 (comprising C16: 1ω7c and/or C16: 1ω6c), C17: 1ω6c and summed feature 9 (comprising iso-C17: 1ω9c and/or 10-methyl C16: 0). The polar lipids were phosphatidylethanolamine, one unidentified aminophospholipid, one unidentified phospholipid and three unidentified lipids. The DNA G+C content was 44.6 mol%. DNA– DNA relatedness between strain 001-Na2T and ‘E. shivajiensis’ JCM 17847T was 20.8–21.1 %. On the basis of the phenotypic features, and phylogenetic and DNA–DNA hybridization analyses presented, strain 001-Na2T (=KCTC 52495T=JCM 31786T =DSM 103729T) is the type strain of a novel species of the genus Echinicola, for which the name Echinicola sediminis sp. nov. is proposed.

AB - A novel Gram-stain-negative, rod-shaped, gliding bacterium, designated strain 001-Na2T, was isolated from coastal sediment of the Yellow Sea in Sindu-ri, Republic of Korea. Cells were aerobic, oxidase-positive and catalase-positive. Colonies were dark salmon-coloured, circular, and pulvinate with entire margins. 16S rRNA gene sequence analysis revealed that strain 001-Na2T belonged to the genus Echinicola and these species formed a distinct lineage within the family Cyclobacteriaceae. The closest phylogenetic neighbours were ‘Echinicola shivajiensis’ AK12T (98.1% 16S rRNA gene sequence similarity), Echinicola vietnamensis LMG 23754T (96.4 %), Echinicola jeungdonensis HMD 3054T (96.0 %), Echinicola pacifica KMM 6172T (96.0 %) and Echinicola rosea JL 3085T (95.8 %). The predominant respiratory quinone was menaquinone MK-7. The major fatty acids were iso-C15: 0, summed feature 3 (comprising C16: 1ω7c and/or C16: 1ω6c), C17: 1ω6c and summed feature 9 (comprising iso-C17: 1ω9c and/or 10-methyl C16: 0). The polar lipids were phosphatidylethanolamine, one unidentified aminophospholipid, one unidentified phospholipid and three unidentified lipids. The DNA G+C content was 44.6 mol%. DNA– DNA relatedness between strain 001-Na2T and ‘E. shivajiensis’ JCM 17847T was 20.8–21.1 %. On the basis of the phenotypic features, and phylogenetic and DNA–DNA hybridization analyses presented, strain 001-Na2T (=KCTC 52495T=JCM 31786T =DSM 103729T) is the type strain of a novel species of the genus Echinicola, for which the name Echinicola sediminis sp. nov. is proposed.

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