Abstract
A Gram stain-negative, aerobic, rod-shaped, motile by gliding and yellow-orange-pigmented bacterium, designated strain 10Alg 115T, was isolated from the red alga Ahnfeltia tobuchiensis. The phylogenetic analysis based on 16S rRNA gene sequences placed the novel strain within the family Flavobacteriaceae, phylum Bacteroidetes. The nearest neighbor of the new isolate was Aureibaculum marinum KCTC 62204T with sequence similarity of 98.1%. The average nucleotide similarity and digital DNA–DNA hybridization values between the novel strain and Aureibaculum marinum KCTC 62204T were 80% and 22.3%, respectively. The prevalent fatty acids of strain 10Alg 115T were iso-C15:0, iso-C15:1 G, iso-C17:0 3-OH, iso-C16:0 3-OH and C15:0. The polar lipid profile consisted of phosphatidylethanolamine, two unidentified aminolipids and two unidentified lipids. The DNA G + C content of the type strain calculated from the whole-genome sequence was 32.2 mol%. A combination of the genotypic and phenotypic data showed that the algal isolate represents a novel species of the of genus Aureibaculum, for which the name Aureibaculum algae sp. nov. is proposed. The type strain is 10Alg 115T (= KCTC 62086T = KMM 6764T).
This is a preview of subscription content, log in via an institution to check access.
Similar content being viewed by others
References
Asnicar F, Thomas AM, Beghini F, Mengoni C, Manara S, Manghi P, Zhu Q, Bolzan M, Cumbo F, May U, Sanders JG, Zolfo M, Kopylova E, Pasolli E, Knight R, Mirarab S, Huttenhower C, Sanders JG (2020) Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0. Nat Commun 11:1–10. https://doi.org/10.1038/s41467-020-16366-7
Bowman JP (2000) Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov. Int J Syst Evol Microbiol 50:1861–1868. https://doi.org/10.1099/00207713-50-5-1861
Fautz E, Reichenbach H (1980) A simple test for flexirubin-type pigments. FEMS Microbiol Lett 8:87–91. https://doi.org/10.1111/j.1574-6968.1980.tb05056.x
Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791. https://doi.org/10.2307/2408678
Felsenstein J (1993) PHYLIP (phylogenetic inference package), version 3.5c. Department of Genetic, University of Washington, Seattle
Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120. https://doi.org/10.1007/BF01731581
Kluge AG, Farris FS (1969) Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32. https://doi.org/10.2307/2412407
Komagata K, Suzuki KI (1987) Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 19:161–207. https://doi.org/10.1016/S0580-9517(08)70410-0
Kumar S, Stecher G, Tamura K (2016) MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33:1870–1874. https://doi.org/10.1093/molbev/msw054
Lane DJ (1991) 16S/23S rRNA sequencing. In: Stackebrandt E, Goodfellow M (eds) Nucleic Acid Techniques in Bacterial Systematics. Wiley, New York, pp 115–147
Lemos ML, Toranzo AE, Barja JL (1985) Modified medium for oxidation-fermentation test in the identification of marine bacteria. Appl Environ Microbiol 40:1541–1543. https://doi.org/10.1128/aem.49.6.1541-1543.1985
Luo C, Rodriguez-R LM, Konstantinidis KT (2014) MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences. Nucleic Acids Res 42(8):e73. https://doi.org/10.1093/nar/gku169
Meier-Kolthoff JP, Göker M (2019) TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 1:1–10. https://doi.org/10.1038/s41467-019-10210-3
Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinform 14:60. https://doi.org/10.1186/1471-2105-14-60
Nedashkovskaya OI, Kim SB, Zhukova NV, Kwak J, Mikhailov VV, Bae KS (2006) Mesonia mobilis sp. nov., isolated from seawater, and emended description of the genus Mesonia. Int J Syst Evol Microbiol 56:2433–2436. https://doi.org/10.1099/ijs.0.64376-0
Nedashkovskaya OI, Balabanova LA, Zhukova NV, Kim SJ, Bakunina IY, Rhee SK (2014) Flavobacterium ahnfeltiae sp. nov., a new marine polysaccharide-degrading bacterium isolated from a Pacific red alga. Arch Microbiol 196:745–752. https://doi.org/10.1007/s00203-014-1010-2
Oren A, Garrity GM (2021) Validation list no. 198. List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol 71:4688. https://doi.org/10.1099/ijsem.0.004688
Richter M, Rosselló-Móra R (2009) Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 06:19126–19131. https://doi.org/10.1073/pnas.0906412106
Rodriguez-R LM, Konstantinidis KT (2014) Bypassing cultivation to identify bacterial species. Microbe 9:111–118. https://doi.org/10.1128/microbe.9.111.1
Rodriguez-R LM, Konstantinidis KT (2016) The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes. PeerJ. https://doi.org/10.7287/peerj.preprints.1900v1
Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425. https://doi.org/10.1093/oxfordjournals.molbev.a040454
Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt P, Murray RGE, Wood WA, Krieg NR (eds) Methods for general and molecular bacteriology. American Society for Microbiology, Washington, pp 607–654
Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP, Zaslavsky L, Lomsadze A, Pruitt KD, Borodovsky M, Ostell J (2016) NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 14:6614–6624. https://doi.org/10.1093/nar/gkw569
Thompson JD, Higgins DG, Gibson T (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680. https://doi.org/10.1093/nar/22.22.4673
Yoon SH, Ha SM, Kwon S, Lim J, Kim Y, Seo H, Chun J (2017) Introducing EzBioCloud: A taxonomically united database of 16S rRNA and whole genome assemblies. Int J Syst Evol Microbiol 67:1613–1617. https://doi.org/10.1099/ijsem.0.001755
Zhao H, Wu Y, Zhang C, Feng J, Xu Z, Ding Y, Gao Y, Geng Y, Song J, Li B, Ji X (2019) Aureibaculum marinum gen. nov., sp. nov., a novel bacterium of the family Flavobacteriaceae isolated from the Bohai Gulf. Curr Microbiol 76:975–981. https://doi.org/10.1007/s00284-019-01691-y
Author information
Authors and Affiliations
Corresponding author
Ethics declarations
Conflict of interest
The authors declare that there is no conflict of interest.
Ethical approval
This article does not contain any studies with animals performed by any of the authors. Informed consent was obtained from all individual participants included in the study.
Additional information
Communicated by Erko Stackebrandt.
Publisher's Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Supplementary Information
Below is the link to the electronic supplementary material.
203_2021_2693_MOESM2_ESM.jpg
Supplementary file2 Supplementary Fig. S1, available in the online Supplementary Material. Two-dimensional thin-layer chromatogram of polar lipids extracted from strain 10Alg 115T (a) and Aureibaculum marinum KCTC 62204T (b). PE, phosphatidylethanolamine; AL1 and AL2, unidentified amino lipids; L1 and L2, unidentified lipids. (JPG 781 KB)
Rights and permissions
About this article
Cite this article
Nedashkovskaya, O.I., Kukhlevskiy, A.D., Kim, SG. et al. Aureibaculum algae sp. nov. isolated from the Pacific red alga Ahnfeltia tobuchiensis. Arch Microbiol 204, 153 (2022). https://doi.org/10.1007/s00203-021-02693-w
Received:
Revised:
Accepted:
Published:
DOI: https://doi.org/10.1007/s00203-021-02693-w