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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo International Journal of Systematic and Evolutionary Microbiology

Volume 73, Issue 2

sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from mangrove sediment No Access

Abstract

Polycyclic aromatic hydrocarbons (PAHs) have been recognized as a potential health risk and are widespread in nature due to their intrinsic chemical stability and high recalcitrance to degradation. A taxonomic study was carried out on strain P9, which was isolated from a PAH-degrading consortium, enriched from the mangrove sediment from Zhangzhou, PR China. The isolate was chemoheterotrophic, aerobic, Gram-stain-negative, short-rod shaped, and motile by one polar flagellum. Growth was observed at salinities from 0.5–6.0 % (optimum, 3 %), at pH 4–9 (optimum, pH 7) and at 10–41 °C (optimum, 25–30 °C). It did not synthesize bacteriochlorophyll a. Catalase and oxidase activities were positive. Acid was produced from starch, amygdalin, arbutin, cellobiose, -fructose, maltose, -mannitol, melezitose, melibiose, raffinose, -ribose, sucrose, trehalose, -xylose, aesculin ferric citrate, gentiobiose, glycogen, -arabinose, -rhamnose, methyl --glucopyranoside, methyl --xylopyranoside, -acetylglucosamine and salicin, and weakly positive for -arabitol, -galactose, lactose, turanose and glycerol. Phylogenetic analysis revealed that strain P9 fell within the clade comprising the type strains of species and formed an independent cluster with , which was distinct from other members of the family . The 16S rRNA gene sequence comparisons showed that strain P9 was most closely related to HTCC 260 (96.7 %), and other species of the genus (95.7–94.2 %). Strain P9 had the highest digital DNA–DNA hybridization value with CGMCC 1.12377 (25.0 %) and the highest average nucleotide identity (ANIb and ANIm) values with CGMCC 1.12377(80.3 and 85.8 %, respectively). The sole respiratory quinone was quinone 10. The dominant fatty acids were C 7 (61.4 %), C (17.5 %) and C 8 cyclo (7.6 %). The G+C content of the chromosomal DNA was 65.8 mol%. In the polar lipid profile, phospholipid, phosphatidylglycerol, aminolipid, glycolipid and phosphatidylethanolamine were the major compounds. Based on the phenotypic and phylogenetic data, strain P9 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is P9 (=CCTCC AB 209290=LMG 25701=MCCC 1F01055).

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  • Accepted:
  • Published Online:
Keyword(s): mangrove sediment , novel species , polycyclic aromatic hydrocarbon and Salipiger
Funding
This study was supported by the:
  • FJIRSM and IUE Joint Research Fund (Award RHZX-2019-005)
    • Principle Award Recipient: Chang-PingYu
  • National Natural Science Foundation of China (Award 31870475)
    • Principle Award Recipient: AnyiHu
  • Fujian Province priority project (Award 2020Y0086)
    • Principle Award Recipient: DanQin
  • STS Project of Fujian-CAS (Award 2021T3059)
    • Principle Award Recipient: DanQin
  • STS Project of Fujian-CAS (Award 2021T3014)
    • Principle Award Recipient: JiangweiLi
© 2023 The Authors
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2023-02-15
2025-01-21
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References

  1. Martínez-Cánovas MJ, Quesada E, Martínez-Checa F, Moral AD, Béjar V. Salipiger mucescens gen. nov., sp. nov., a moderately halophilic, exopolysaccharide-producing bacterium isolated from hypersaline soil, belonging to the alpha-Proteobacteria. Int J Syst Evol Microbiol 2004; 54:1735–1740 [View Article]
     [Google Scholar]
  2. Du J, Liu Y, Pei T, Deng MR, Zhu HH. Salipiger mangrovisoli sp. nov., isolated from mangrove soil and the proposal for the reclassification of Paraphaeobacter pallidus as Salipiger pallidus comb. nov. Int J Syst Evol Microbiol 2021; 71:004892 [View Article]
     [Google Scholar]
  3. Kiyohara H, Nagao K, Yana K. Rapid screen for bacteria degrading water-insoluble, solid hydrocarbons on agar plates. Appl Environ Microbiol 1982; 43:454–457 [View Article]
     [Google Scholar]
  4. Tian Y, Liu HJ, Zheng TL, Kwon KK, Kim SJ et al. PAHs contamination and bacterial communities in mangrove surface sediments of the Jiulong River Estuary, China. Mar Pollut Bull 2008; 57:707–715 [View Article] [PubMed]
     [Google Scholar]
  5. Liu C, Shao Z. Alcanivorax dieselolei sp. nov., a novel alkane-degrading bacterium isolated from sea water and deep-sea sediment. Int J Syst Evol Microbiol 2005; 55:1181–1186 [View Article] [PubMed]
     [Google Scholar]
  6. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: Molecular Evolutionary Genetics Analysis across computing platforms. Mol Biol Evol 2018; 35:1547–1549 [View Article]
     [Google Scholar]
  7. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994; 22:4673–4680 [View Article] [PubMed]
     [Google Scholar]
  8. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article] [PubMed]
     [Google Scholar]
  9. Na S-I, Kim YO, Yoon S-H, Ha S-M, Baek I et al. UBCG: Up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction. J Microbiol 2018; 56:280–285 [View Article] [PubMed]
     [Google Scholar]
  10. Eddy SR. Accelerated profile HMM searches. PLoS Comput Biol 2011; 7:e1002195 [View Article]
     [Google Scholar]
  11. Price MN, Dehal PS, Arkin AP. FastTree 2--approximately maximum-likelihood trees for large alignments. PLoS One 2010; 5:e9490 [View Article]
     [Google Scholar]
  12. Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 2016; 32:929–931 [View Article] [PubMed]
     [Google Scholar]
  13. 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]
     [Google Scholar]
  14. Meier-Kolthoff JP, Carbasse JS, Peinado-Olarte RL, Göker M. TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes. Nucleic Acids Res 2022; 50:D801–D807 [View Article] [PubMed]
     [Google Scholar]
  15. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci 2009; 106:19126–19131 [View Article]
     [Google Scholar]
  16. 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]
  17. Dong X, Cai M. Determinative Manual for Routine Bacteriology Beijing: Scientific Press (English translation); 2001
     [Google Scholar]
  18. Sambrook J, Fritsch E, Maniatis T. Molecular cloning: a laboratory manual, 2nd edn. Cold Spring Harbor, New York: Cold spring harbor laboratory press; 1989
     [Google Scholar]
  19. Shieh WY, Chen YW, Chaw SM, Chiu HH. Vibrio ruber sp. nov., a red, facultatively anaerobic, marine bacterium isolated from sea water. Int J Syst Evol Microbiol 2003; 53:479–484 [View Article] [PubMed]
     [Google Scholar]
  20. Charteris WP, Kelly PM, Morelli L, Collins JK. Antibiotic susceptibility of potentially probiotic Lactobacillus species. J Food Prot 1998; 61:1636–1643 [View Article]
     [Google Scholar]
  21. Sasser M. Technical Note 101: Identification of bacteria by gas chromatography of cellular fatty acids MIDI; 1990
     [Google Scholar]
  22. Qin D, Ma C, Lv M, Yu CP. Sphingobium estronivorans sp. nov. and Sphingobium bisphenolivorans sp. nov., isolated from a wastewater treatment plant. Int J Syst Evol Microbiol 2020; 70:1822–1829 [View Article] [PubMed]
     [Google Scholar]
  23. Komagata K, Suzuki KI. 4 lipid and cell-wall analysis in bacterial systematics. In Methods in Microbiol Elsevier; 1988 pp 161–207
     [Google Scholar]
  24. Minnikin D, O’donnell A, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Meth 1984; 2:233–241
     [Google Scholar]
  25. Wang H, Li J, Hu A, Qin D, Xu H et al. Melaminivora alkalimesophila gen. nov., sp. nov., a melamine-degrading betaproteobacterium isolated from a melamine-producing factory. Int J Syst Evol Microbiol 2014; 64:1938–1944 [View Article]
     [Google Scholar]
  26. Lai Q, Fu Y, Wang J, Chen S, Zhong H et al. Citreicella marina sp. nov., isolated from deep-sea sediment. Int J Syst Evol Microbiol 2011; 61:728–731 [View Article] [PubMed]
     [Google Scholar]
  27. Sorokin DY, Tourova TP, Muyzer G. Citreicella thiooxidans gen. nov., sp. nov., a novel lithoheterotrophic sulfur-oxidizing bacterium from the Black Sea. Syst Appl Microbiol 2005; 28:679–687 [View Article]
     [Google Scholar]
  28. Li SH, Tang K, Liu KS, Jiao NZ. Thiobacimonas profunda gen. nov., sp. nov., a member of the family Rhodobacteraceae isolated from deep-sea water. Int J Syst Evol Microbiol 2015; 65:359–364 [View Article] [PubMed]
     [Google Scholar]
  29. Cho JC, Giovannoni SJ. Pelagibaca bermudensis gen. nov., sp. nov., a novel marine bacterium within the Roseobacter clade in the order Rhodobacterales. Int J Syst Evol Microbiol 2006; 56:855–859 [View Article] [PubMed]
     [Google Scholar]
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Salipiger pentaromativorans sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from mangrove sediment
Int J Syst Evol Microbiol 73, 005716 (2023); https://doi.org/10.1099/ijsem.0.005716
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/content/journal/ijsem/10.1099/ijsem.0.005716
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