1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 70, Issue 3

sp. nov., a psychrotolerant bacterium isolated from Arctic brown algae Free

Abstract

A Gram-stain-negative, facultatively anaerobic, flagellated and rod-shaped bacterium, designated strain SM1901, was isolated from a brown algal sample collected from Kings Bay, Svalbard, Arctic. Strain SM1901 grew at −4‒30 °C and with 0–7.0 % (w/v) NaCl. It reduced nitrate to nitrite and hydrolysed DNA and Tween 80. Results of phylogenetic analyses based on 16S rRNA gene sequences indicated that strain SM1901 was affiliated with the genus , showing the highest sequence similarity to the type strain of (97.5%), followed by those of , and (97.3 % for all three). The major cellular fatty acids were summed feature 3 (C 7 and/or C 6), C, C, iso-C and C 8 and the major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. The respiratory quinones were ubiquinones Q-7, Q-8, menaquinones MK-7(H) and MK-8. The genome of strain SM1901 was 4648537 nucleotides long and encoded a variety of cold adaptation related genes, providing clues for better understanding the ecological adaptation mechanisms of polar bacteria. The genomic DNA G+C content of strain SM1901 was 40.5 mol%. Based on the polyphasic evidence presented in this paper, strain SM1901 was considered to represent a novel species, constituting a novel psychrotolerant lineage out of the known SF clade encompassed by polar species, within the genus , for which the name sp. nov. is proposed. The type strain is SM1901 (=KCTC 72047=MCCC 1K03585).

  • Received:
  • Accepted:
  • Revised:
  • Published Online:
Keyword(s): Arctic , Shewanella and sp. nov.
Funding
This study was supported by the:
  • the scholarship under the State Scholarship Fund issued by China Scholarship Council (Award file No. 201906225012)
  • the Science and Technology Basic Resources Investigation Program of China (Award 2017FY100804)
    • Principle Award Recipient: Xi-Ying Zhang
  • Taishan Scholars Program of Shandong Province (Award tspd20181203)
    • Principle Award Recipient: Yu-Zhong Zhang
  • AoShan Talents Cultivation Program Supported by Qingdao National Laboratory for Marine Science and Technology (Award 2017ASTCP-OS14)
    • Principle Award Recipient: Yu-Zhong Zhang
  • National Key R&D Program of China (Award 2018YFC1406704)
    • Principle Award Recipient: Xi-Ying Zhang
  • National Key R&D Program of China (Award 2018YFC1406703)
  • National Key R&D Program of China (Award 2018YFC1406701)
    • Principle Award Recipient: Hai-Nan Su
  • National Key R&D Program of China (Award 2018YFC0310704)
    • Principle Award Recipient: Xiu-Lan Chen
  • National Key R&D Program of China (Award 2018YFC1406504)
    • Principle Award Recipient: Xiao-Yan Song
  • the National Science Foundation of China (Award 31870052)
    • Principle Award Recipient: Xiu-Lan Chen
  • the National Science Foundation of China (Award 31670063)
    • Principle Award Recipient: Xi-Ying Zhang
© 2020 The Authors
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.004022
2020-01-30
2023-10-01
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/70/3/2096.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.004022&mimeType=html&fmt=ahah

References

  1. Ivanova EP, Flavier S, Christen R. Phylogenetic relationships among marine Alteromonas-like proteobacteria: emended description of the family Alteromonadaceae and proposal of Pseudoalteromonadaceae fam. nov., Colwelliaceae fam. nov., Shewanellaceae fam. nov., Moritellaceae fam. nov., Ferrimonadaceae fam. nov., Idiomarinaceae fam. nov. and Psychromonadaceae fam. nov. Int J Syst Evol Microbiol 2004; 54:1773–1788 [View Article]
     [Google Scholar]
  2. MacDonell MT, Colwell RR. Phylogeny of the Vibrionaceae, and recommendation for two new genera, Listonella and Shewanella . Syst Appl Microbiol 1985; 6:171–182 [View Article]
     [Google Scholar]
  3. Nealson KH, Scott J. Ecophysiology of the Genus, Shewanella . Ecophysiology of the Genus Shewanella 2006; 6:1133–115
     [Google Scholar]
  4. Hau HH, Gralnick JA. Ecology and Biotechnology of the Genus Shewanella . Annu Rev Microbiol 2007; 61:237–258 [View Article]
     [Google Scholar]
  5. Parte AC. LPSN—list of prokaryotic names with standing in nomenclature. Nucleic Acids Res 2014; 42:D613–D616 [View Article]
     [Google Scholar]
  6. Sung H-R, Yoon J-H, Ghim S-Y. Shewanella dokdonensis sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2012; 62:1636–1643 [View Article]
     [Google Scholar]
  7. Bozal N, Tudela E, Montes MJ, Jiménez F, Guinea J. Shewanella frigidimarina and Shewanella livingstonensis sp. nov. isolated from Antarctic coastal areas. Int J Syst Evol Microbiol 2002; 52:195–205 [View Article]
     [Google Scholar]
  8. Yun B-R, Park S, Kim M-K, Park J, Kim SB. Shewanella saliphila sp. nov., Shewanella ulleungensis sp. nov. and Shewanella litoralis sp. nov., isolated from coastal seawater. Int J Syst Evol Microbiol 2018; 68:2960–2966 [View Article]
     [Google Scholar]
  9. Bozal N, Montes MJ, Miñana-Galbis D, Manresa A, Mercadé E. Shewanella vesiculosa sp. nov., a psychrotolerant bacterium isolated from an Antarctic coastal area. Int J Syst Evol Microbiol 2009; 59:336–340 [View Article]
     [Google Scholar]
  10. Toffin L, Bidault A, Pignet P, Tindall BJ, Slobodkin A et al. Shewanella profunda sp. nov., isolated from deep marine sediment of the Nankai Trough. Int J Syst Evol Microbiol 2004; 54:1943–1949 [View Article]
     [Google Scholar]
  11. Yoon J-H, Kang KH, Oh T-K, Park Y-H. Shewanella gaetbuli sp. nov., a slight halophile isolated from a tidal flat in Korea. Int J Syst Evol Microbiol 2004; 54:487–491 [View Article]
     [Google Scholar]
  12. Yoon J-H, Park S, Jung Y-T, Lee J-S. Shewanella seohaensis sp. nov., isolated from a tidal flat sediment. Antonie van Leeuwenhoek 2012; 102:149–156 [View Article]
     [Google Scholar]
  13. Kim J-Y, Yoo H-S, Lee D-H, Park S-H, Kim Y-J et al. Shewanella algicola sp. nov., a marine bacterium isolated from brown algae. Int J Syst Evol Microbiol 2016; 66:2218–2224 [View Article]
     [Google Scholar]
  14. Lee OO, Lau SCK, Tsoi MMY, Li X, Plakhotnikova I et al. Shewanella irciniae sp. nov., a novel member of the family Shewanellaceae, isolated from the marine sponge Ircinia dendroides in the Bay of Villefranche, Mediterranean sea. Int J Syst Evol Microbiol 2006; 56:2871–2877 [View Article]
     [Google Scholar]
  15. Satomi M, Vogel BF, Gram L, Venkateswaran K. Shewanella hafniensis sp. nov. and Shewanella morhuae sp. nov., isolated from marine fish of the Baltic Sea. Int J Syst Evol Microbiol 2006; 56:243–249 [View Article]
     [Google Scholar]
  16. Satomi M, Vogel BF, Venkateswaran K, Gram L. Description of Shewanella glacialipiscicola sp. nov. and Shewanella algidipiscicola sp. nov., isolated from marine fish of the Danish Baltic Sea, and proposal that Shewanella affinis is a later heterotypic synonym of Shewanella colwelliana . Int J Syst Evol Microbiol 2007; 57:347–352 [View Article]
     [Google Scholar]
  17. Kim S-J, Park S-J, Oh Y-S, Lee S-A, Shin K-S et al. Shewanella arctica sp. nov., an iron-reducing bacterium isolated from Arctic marine sediment. Int J Syst Evol Microbiol 2012; 62:1128–1133 [View Article]
     [Google Scholar]
  18. Hwang YJ, Jang GI, Cho BC, Lee JI, Hwang CY. Shewanella psychromarinicola sp. nov., a psychrophilic bacterium isolated from pelagic sediment of the Ross sea (Antarctica), and reclassification of Shewanella arctica Kim et al. 2012 as a later heterotypic synonym of Shewanella frigidimarina Bowman et al. 1997. Int J Syst Evol Microbiol 2019; 69:2415–2423 [View Article]
     [Google Scholar]
  19. Weisburg WG, Barns SM, Pelletier DA, Lane DJ. 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 1991; 173:697–703 [View Article]
     [Google Scholar]
  20. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article]
     [Google Scholar]
  21. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425
     [Google Scholar]
  22. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article]
     [Google Scholar]
  23. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article]
     [Google Scholar]
  24. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980; 16:111–120 [View Article]
     [Google Scholar]
  25. Chin C-S, Alexander DH, Marks P, Klammer AA, Drake J et al. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data. Nat Methods 2013; 10:563–569 [View Article]
     [Google Scholar]
  26. Lowe TM, Eddy SR. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res 1997; 25:955–964 [View Article]
     [Google Scholar]
  27. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Bio 2012; 19:455–477 [View Article]
     [Google Scholar]
  28. 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]
     [Google Scholar]
  29. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article]
     [Google Scholar]
  30. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T et al. The RAST server: rapid annotations using subsystems technology. BMC Genomics 2008; 9:75 [View Article]
     [Google Scholar]
  31. Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B et al. The COG database: an updated version includes eukaryotes. BMC Bioinformatics 2003; 4:41 [View Article]
     [Google Scholar]
  32. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article]
     [Google Scholar]
  33. Konstantinidis KT, Tiedje JM. Towards a genome-based taxonomy for prokaryotes. J Bacteriol 2005; 187:6258–6264 [View Article]
     [Google Scholar]
  34. Hiller NL, Janto B, Hogg JS, Boissy R, Yu S et al. Comparative genomic analyses of seventeen Streptococcus pneumoniae strains: insights into the pneumococcal supragenome. J Bacteriol 2007; 189:8186–8195 [View Article]
     [Google Scholar]
  35. Nichols CAM, Guezennec J, Bowman JP. Bacterial exopolysaccharides from extreme marine environments with special consideration of the southern Ocean, sea ice, and deep-sea hydrothermal vents: a review. Marine Biotechnology 2005; 7:253–271 [View Article]
     [Google Scholar]
  36. Qin Q-L, Xie B-B, Yu Y, Shu Y-L, Rong J-C et al. Comparative genomics of the marine bacterial genus Glaciecola laciecola reveals the high degree of genomic diversity and genomic characteristic for cold adaptation. Environ Microbiol 2014; 16:1642–1653 [View Article]
     [Google Scholar]
  37. Komagata K, Suzuki K. Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 1987; 19:161–207
     [Google Scholar]
  38. Collins MD, Jones D. Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2, 4-diaminobutyric acid. J Appl Bacteriol 1980; 48:459–470 [View Article]
     [Google Scholar]
  39. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids 101, MIDI Technical Note. Newark, DE: MIDI; 2001
     [Google Scholar]
  40. Murray RGE, Doetsch RN, Robinow CF. Determinative and cytological light microscopy. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp 21–41
     [Google Scholar]
  41. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp 607–654
     [Google Scholar]
  42. Bowman JP. 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 2000; 50:1861–1868 [View Article]
     [Google Scholar]
  43. Venkateswaran K, Moser DP, Dollhopf ME, Lies DP, Saffarini DA et al. Polyphasic taxonomy of the genus Shewanella and description of Shewanella oneidensis sp. nov. Int J Syst Bacteriol 1999; 49:705–724 [View Article]
     [Google Scholar]
  44. Vogel BF, Jørgensen K, Christensen H, Olsen JE, Gram L. Differentiation of Shewanella putrefaciens and Shewanella alga on the basis of whole-cell protein profiles, ribotyping, phenotypic characterization, and 16S rRNA gene sequence analysis. Appl Environ Microbiol 1997; 63:2189–2199 [View Article]
     [Google Scholar]
  45. Wang Y, Chen H, Liu Z, Ming H, Zhou C et al. Shewanella gelidii sp. nov., isolated from the red algae Gelidium amansii, and emended description of Shewanella waksmanii . Int J Syst Evol Microbiol 2016; 66:2899–2905 [View Article]
     [Google Scholar]
  46. Park HY, Jeon CO. Shewanella aestuarii sp. nov., a marine bacterium isolated from a tidal flat. Int J Syst Evol Microbiol 2013; 63:4683–4690 [View Article]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.004022
Loading
Shewanella polaris sp. nov., a psychrotolerant bacterium isolated from Arctic brown algae
Int J Syst Evol Microbiol 70, 2096 (2020); https://doi.org/10.1099/ijsem.0.004022
/content/journal/ijsem/10.1099/ijsem.0.004022
/content/journal/ijsem/10.1099/ijsem.0.004022
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited this month Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error