Literature DB >> 36048329

Description of Deefgea piscis sp. nov., and Deefgea tanakiae sp. nov., isolated from the gut of Korean indigenous fish.

Do-Hun Gim1, So-Yeon Lee1, Jeong Eun Han1, Jae-Yun Lee2, Seo Min Kang1, Jin-Woo Bae3,4.   

Abstract

Three novel strains, (D17T, D13, and D25T) isolated from the gut of the Korean dark sleeper (Odontobutis platycephala), Kumgang fat minnow (Rhynchocypris kumgangensis), and the Korean oily bitterling (Tanakia koreensis) were identified as two novel species. Strains D17T and D13 showed the highest similarities in 16S rRNA gene and complete genome sequences to Deefgea rivuli WB 3.4-79T (98.0% and 97.9%, respectively, of 16S rRNA gene sequence similarity, 77.8% and 77.7%, respectively, of orthologous average nucleotide identity, OrthoANI, and 21.9% and 21.9%, respectively, of digital DNA-DNA hybridization, dDDH). Strain D17T showed the highest similarities in 16S rRNA gene and complete genome sequences to D13 (99.9% of 16S rRNA gene sequence similarity, 91.8% of OrthoANI, and 45.1% of dDDH); therefore, strains D17T and D13 were assigned as the same species. Strain D25T showed the highest similarities in 16S rRNA gene and complete genome sequences to D. chitinilytica Nsw-4T (98.2% of 16S rRNA gene sequence similarity, 82.4% of OrthoANI, and 25.1% of dDDH). Strains D17T and D13 were Gram-stain-negative, facultative anaerobes, rod-shaped, non-motile, and non-flagellated. Strain D25T was Gram-stain-negative, facultative anaerobe, rod-shaped, and motile by a single polar flagellum. These strains had C16:0 and summed feature 3 (C16:1ω7c and/or C16:1ω6c) as the major cellular fatty acids and possessed Q-8 as a major respiratory ubiquinone. All three strains contained phosphatidylethanolamine and phosphatidylglycerol as the major polar lipids. Based on polyphasic taxonomic data, strains D17T, D13, and D25T represent two novel species of the genus Deefgea. We propose the name Deefgea piscis sp. nov. for strains D17T (= KCTC 82958T = JCM 34941T) and D13 (= KCTC 92368), and Deefgea tanakiae sp. nov. for strain D25T (= KCTC 82959T = JCM 34942T).
© 2022. Author(s).

Entities:  

Keywords:  Deefgea; Deefgea piscis; Deefgea tanakiae; Korean dark sleeper; Korean oily bitterling; Kumgang fat minnow; Odontobutis platycephala; Rhynchocypris kumgangensis; Tanakia koreensis

Year:  2022        PMID: 36048329      PMCID: PMC9433522          DOI: 10.1007/s12275-022-2250-5

Source DB:  PubMed          Journal:  J Microbiol        ISSN: 1225-8873            Impact factor:   2.902


Appendix
  29 in total

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Authors:  Imchang Lee; Yeong Ouk Kim; Sang-Cheol Park; Jongsik Chun
Journal:  Int J Syst Evol Microbiol       Date:  2015-11-09       Impact factor: 2.747

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Journal:  Mol Biol Evol       Date:  1987-07       Impact factor: 16.240

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Journal:  J Microbiol       Date:  2020-03-28       Impact factor: 3.422

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6.  Jeotgalibaca ciconiae sp. nov., isolated from the faeces of an Oriental stork.

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7.  Genome sequence-based species delimitation with confidence intervals and improved distance functions.

Authors:  Jan P Meier-Kolthoff; Alexander F Auch; Hans-Peter Klenk; Markus Göker
Journal:  BMC Bioinformatics       Date:  2013-02-21       Impact factor: 3.169

8.  Infection Status of Isthmiophora hortensis Metacercariae in Dark Sleepers, Odontobutis Species, from Some Water Systems of the Republic of Korea.

Authors:  Woon-Mok Sohn; Byoung-Kuk Na; Shin-Hyeong Cho; Jung-Won Ju
Journal:  Korean J Parasitol       Date:  2018-12-31       Impact factor: 1.341

9.  Application of the Whole Genome-Based Bacterial Identification System, TrueBac ID, Using Clinical Isolates That Were Not Identified With Three Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry (MALDI-TOF MS) Systems.

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10.  The RAST Server: rapid annotations using subsystems technology.

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Journal:  BMC Genomics       Date:  2008-02-08       Impact factor: 3.969

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