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Volume 74, Issue 5

sp. nov., isolated from a marine green alga Open Access

Abstract

A Gram-stain-negative, facultative aerobic, catalase- and oxidase-positive, non-motile, non-flagellated, and coccus-shaped bacterium, strain J2-16, isolated from a marine green alga, was characterized taxonomically. Strain J2-16 grew at 20–40 °C (optimum, 30 °C), pH 6.0–10.0 (optimum, pH 7.0), and 1.0–4.0 % (w/v) NaCl (optimum, 3.0 %). Menaquinone-7 was identified as the sole respiratory quinone, and major fatty acids (>5 %) were C 9, iso-C, C, anteiso-C, C, C, and C 8. The polar lipids of strain J2-16 consisted of phosphatidylglycerol, phosphatidylethanolamine, two unidentified phospholipids, and three unidentified lipids. The genome size of strain J2-16 was 5384 kb with a G+C content of 52.0 mol%. Phylogenetic analyses based on 16S rRNA gene and 120 protein marker sequences revealed that strain J2-16 formed a distinct phyletic lineage within the genus , closely related to WN38 and DSM 45221 with 16S rRNA gene sequence similarities of 95.7 and 94.4 %, respectively. Average nucleotide identity and digital DNA–DNA hybridization values between strain J2-16 and species were lower than 71.2 and 20.0 %, respectively. The phenotypic, chemotaxonomic, and molecular features support that strain J2-16 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is J2-16 (=KACC 22590=JCM 35407).

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Keyword(s): Coraliomargarita algicola , marine green alga , new taxa and Verrucomicrobiota
Funding
This study was supported by the:
  • National Institute of Biological Resources (Award NIBR No. 2023-02-001)
    • Principle Award Recipient: CheOk Jeon
© 2024 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution.
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2024-05-19
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References

  1. Yoon J, Yasumoto-Hirose M, Katsuta A, Sekiguchi H, Matsuda S et al. Coraliomargarita akajimensis gen. nov., sp. nov., a novel member of the phylum ‘Verrucomicrobia’ isolated from seawater in Japan. Int J Syst Evol Microbiol 2007; 57:959–963 [View Article]
     [Google Scholar]
  2. Min L, Wang W, Oren A, Lai Q, Huang Z. Coraliomargarita parva sp. nov., isolated from mangrove sediment and genome-based analysis of the class Opitutae revealed five novel families: Coraliomargaritaceae fam. nov., Pelagicoccaceae fam. nov., Cerasicoccaeae fam. nov., Oceanipulchritudinaceae fam. nov., and Alterococcaeae fam. nov. Front Microbiol 2023; 14:1202141 [View Article]
     [Google Scholar]
  3. Zhou LY, Wang NN, Mu DS, Liu Y, Du ZJ. Coraliomargarita sinensis sp. nov., isolated from a marine solar saltern. Int J Syst Evol Microbiol 2019; 69:701–707 [View Article] [PubMed]
     [Google Scholar]
  4. Mavromatis K, Abt B, Brambilla E, Lapidus A, Copeland A et al. Complete genome sequence of Coraliomargarita akajimensis type strain (04OKA010-24T). Stand Genomic Sci 2010; 2:290–299 [View Article]
     [Google Scholar]
  5. Lee MW, Kim JM, Kim KH, Choi DG, Lee JK et al. Roseibium algicola sp. nov. and Roseibium porphyridii sp. nov., isolated from marine red algae. Int J Syst Evol Microbiol 2024; 74:006283 [View Article]
     [Google Scholar]
  6. Kim JM, Baek W, Choi BJ, Bayburt H, Baek JH et al. Devosia rhodophyticola sp. nov. and Devosia algicola sp. nov., isolated from a marine red alga. Int J Syst Evol Microbiol 2024; 74:006223 [View Article]
     [Google Scholar]
  7. Baek JH, Kristyanto S, Kim JM, Han DM, Quan ZX et al. Hoeflea algicola sp. nov. and Hoeflea ulvae sp. nov isolated from phycosphere of marine algae. Int J Syst Evol Microbiol 2023; 73:006058
     [Google Scholar]
  8. Kim KH, Han DM, Lee JK, Jeon CO. Alkalicoccobacillus porphyridii sp. nov., isolated from a marine red alga, reclassification of Shouchella plakortidis and Shouchella gibsonii as Alkalicoccobacillus plakortidis comb nov. and Alkalicoccobacillus gibsonii comb. nov., and emended description of the genus Alkalicoccobacillus Joshi et al. 2022. Int J Syst Evol Microbiol 2023; 73:006019
     [Google Scholar]
  9. Jin MS, Kim KH, Baek JH, Kim JM, Jeon CO. Octadecabacter algicola sp. nov. and Octadecabacter dasysiphoniae sp. nov., isolated from a marine red alga and emended description of the genus Octadecabacter. Int J Syst Evol Microbiol 2023; 73:005664 [View Article]
     [Google Scholar]
  10. Kim KH, Kristyanto S, Kim HM, Kim KR, Jeon CO. Nitratireductor rhodophyticola sp. nov., isolated from marine red algae. Int J Syst Evol Microbiol 2022; 72:005302 [View Article] [PubMed]
     [Google Scholar]
  11. Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article] [PubMed]
     [Google Scholar]
  12. Nawrocki EP, Eddy SR. Infernal 1.1: 100-fold faster RNA homology searches. Bioinformatics 2013; 29:2933–2935 [View Article] [PubMed]
     [Google Scholar]
  13. Tamura K, Stecher G, Kumar S. MEGA11: Molecular Evolutionary Genetics Analysis version 11. Mol Biol Evol 2021; 38:3022–3027 [View Article] [PubMed]
     [Google Scholar]
  14. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461–466 [View Article] [PubMed]
     [Google Scholar]
  15. Wick RR, Judd LM, Gorrie CL, Holt KE. Unicycler: resolving bacterial genome assemblies from short and long sequencing reads. PLoS Comput Biol 2017; 13:e1005595 [View Article] [PubMed]
     [Google Scholar]
  16. Chklovski A, Parks DH, Woodcroft BJ, Tyson GW. CheckM2: a rapid, scalable and accurate tool for assessing microbial genome quality using machine learning. Nat Methods 2023; 20:1203–1212 [View Article] [PubMed]
     [Google Scholar]
  17. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 2016; 44:6614–6624 [View Article] [PubMed]
     [Google Scholar]
  18. Chaumeil PA, Mussig AJ, Hugenholtz P, Parks DH. GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database. Bioinformatics 2020; 36:1925–1927 [View Article]
     [Google Scholar]
  19. Lee I, Ouk Kim Y, Park S-C, Chun J. OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016; 66:1100–1103 [View Article] [PubMed]
     [Google Scholar]
  20. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article] [PubMed]
     [Google Scholar]
  21. van Tol HM, Amin SA, Armbrust EV. Ubiquitous marine bacterium inhibits diatom cell division. ISME J 2017; 11:31–42 [View Article] [PubMed]
     [Google Scholar]
  22. Zheng J, Ge Q, Yan Y, Zhang X, Huang L et al. dbCAN3: automated carbohydrate-active enzyme and substrate annotation. Nucleic Acids Res 2023; 51:W115–W121 [View Article] [PubMed]
     [Google Scholar]
  23. Gomori G. Preparation of buffers for use in enzyme studies. Methods Enzymol 1955; 1:138–146
     [Google Scholar]
  24. Lányí B. Classical and rapid identification methods for medically important bacteria. Methods Microbiol 1987; 19:1–67
     [Google Scholar]
  25. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P. ed Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp 607–654
     [Google Scholar]
  26. Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
     [Google Scholar]
  27. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. In MIDI Technical Note vol 101 Newark, DE: MIDI Inc; 1990
     [Google Scholar]
  28. Minnikin DE, Patel PV, Alshamaony L, Goodfellow M. Polar lipid composition in the classification of Nocardia and related Bacteria. Int J Syst Bacteriol 1977; 27:104–117 [View Article]
     [Google Scholar]
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Coraliomargarita algicola sp. nov., isolated from a marine green alga
Int J Syst Evol Microbiol 74, 006367 (2024); https://doi.org/10.1099/ijsem.0.006367
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