Skip to main content
SpringerLink
Log in

Alteromonas arenosi sp. nov., a novel bioflocculant-producing bacterium, isolated from intertidal sand

  • Original Paper
  • Published:
Antonie van Leeuwenhoek Aims and scope Submit manuscript

Abstract

A novel Gram-stain-negative, strictly aerobic and bioflocculant-producing bacterium, designated as ASW11-36T, was isolated from an intertidal sand collected from coastal areas of Qingdao, PR China. Growth occurred at 15–40 °C (optimum, 30 °C), pH 7.0–9.0 (optimum, pH 7.5) and with 1.5–7.0% (w/v) NaCl (optimum, 2.5–3.0%). In the whole-cell fatty acid pattern prevailed C16:0 and summed feature 3 (C16:1 ω7c and/or C16:1 ω6c). The major isoprenoid quinone was determined to be Q-8 and the major polar lipids were phosphatidylethanolamine (PE) and phosphatidylglycerol (PG), one unidentified aminolipid (AL), one unidentified glycolipid (GL), and two lipids (L1, L2). Based on the phylogenetic analyses of 16S rRNA gene sequences and 618 single-copy orthologous clusters, strain ASW11-36T could represent a novel member of the genus Alteromonas and was closely related to Alteromonas flava P0211T (98.4%) and Alteromonas facilis P0213T (98.3%). The pairwise average nucleotide identity and digital DNA–DNA hybridization values of the ASW11-36T genome assembly against the closely related species genomes were 71.8% and 21.7%, respectively, that clearly lower than the proposed thresholds for species. Based on phenotypic, phylogenetic, and chemotaxonomic analyses, strain ASW11-36T is considered to represent a novel species of the genus Alteromonas, for which the name Alteromonas arenosi sp. nov. is proposed. The type strain is ASW11-36T (= KCTC 82496T = MCCC 1K05585T). In addition, the strain yielded 65% of flocculating efficiency in kaolin suspension with CaCl2 addition. The draft genome of ASW11-36T shared abundant putative CAZy family related genes, especially involved in the biosynthesis of exopolysaccharides, implying its potential environmental and biological applications.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3

Similar content being viewed by others

Data availability

The datasets generated during and/or analysed during the current study are available from the corresponding author on reasonable request or on NCBI repository. The novel strain has been deposited to MCCC 1K05585 and KCTC 82496.

Abbreviations

MES:

2-(4-Morpholino) ethanesulfonic acid

MOPS:

3-(N-Morpholino) propanesulfonic acid

CHES:

2-(Cyclohexylamino) ethanesulfonic acid

MCCC:

Marine culture collection of China

KCTC:

Korean collection for type cultures

MEGA:

Molecular evolutionary genetics analysis

ANI:

Average nucleotide identity

dDDH:

Digital DNA–DNA hybridization

TLC:

Thin-layer chromatography

CAZY:

Carbohydrate-active enzymes

EPS:

Extracellular polymeric substances

References

  • Aljuboori AH, Idris A, Abdullah N, Mohamad R (2013) Production and characterization of a bioflocculant produced by Aspergillus flavus. Bioresour Technol 127:489–493

    Article  PubMed  CAS  Google Scholar 

  • Barbeyron T, Zonta E, Le Panse S, Duchaud E, Michel G (2019) Alteromonas fortis sp. nov., a non-flagellated bacterium specialized in the degradation of iota-carrageenan, and emended description of the genus Alteromonas. Int J Syst Evol Microbiol 69(8):2514–2521

  • Baumann L, Baumann P, Mandel M, Allen RD (1972) Taxonomy of aerobic marine eubacteria. J Bacteriol 110(1):402–429

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Baumann P, Baumann L, Bowditch RD, Beaman B (1984) Taxonomy of Alteromonas: A. nigrifaciens sp. nov., nom. rev.; A. macleodii; and A. haloplanktis. Int J Syst Bacteriol 34:145–149

    Article  Google Scholar 

  • Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al (2018) Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 68(1):461–466

    Article  PubMed  CAS  Google Scholar 

  • Collins MD, Jones D (1980) Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2, 4-diaminobutyric acid. J Appl Bacteriol 48:459–470

    Article  CAS  Google Scholar 

  • Edgar RC (2004) MUSCLE: Multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:179–1797

    Article  Google Scholar 

  • Eick-Helmerich K, Braun V (1989) Import of biopolymers into Escherichia coli: nucleotide sequences of the exbB and exbD genes are homologous to those of the tolQ and tolR genes, respectively. J Bacteriol 171(9):5117–5126

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376

    Article  PubMed  CAS  Google Scholar 

  • Flemming HC, Wingender J (2010) The biofilm matrix. Nat Rev Microbiol 8:623–633

    Article  PubMed  CAS  Google Scholar 

  • Guo H, Hong C, Zhang C, Zheng B, Jiang D et al (2018) Bioflocculants’ production from a cellulase-free xylanase-producing Pseudomonas boreopolis G22 by degrading biomass and its application in cost-effective harvest of microalgae. Bioresour Technol 255:171–179

    Article  PubMed  CAS  Google Scholar 

  • Jackman SD, Vandervalk BP, Mohamadi H, Chu J, Yeo S et al (2017) ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter. Genome Res 27:768–777

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Jin QW, Hu YH, Sun L (2018) Alteromonas oceani sp. nov., isolated from deep-sea sediment of a hydrothermal field. Int J Syst Evol Microbiol 68(2):657–662

  • Jones DM (1981) Manual of methods for general bacteriology. J Clin Pathol 34(9):1069

    Article  PubMed Central  Google Scholar 

  • Jones DT, Taylor WR, Thornton JM (1992) The rapid generation of mutation data matrices from protein sequences. Comput Appl Biosci 8:275–282

    PubMed  CAS  Google Scholar 

  • Koichiro T, Glen S, Sudhir K (2021) MEGA11: molecular evolutionary genetics analysis version 11. Mol Biol Evol 38:3022–3027

    Article  Google Scholar 

  • Komagata K, Suzuki KI (1987) Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 19:161–207

    Article  CAS  Google Scholar 

  • Konstantinidis KT, Tiedje JM (2005) Towards a genome-based taxonomy for prokaryotes. J Bacteriol 187:6258–6264

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Lechner M, Findeiss S, Steiner L, Marz M, Stadler PF et al (2011) Proteinortho: detection of (Co-)orthologs in large-scale analysis. BMC Bioinf 12:124

    Article  Google Scholar 

  • Martínez-Checa F, Béjar V, Llamas I, Del Moral A, Quesada E (2005) Alteromonas hispanica sp. nov., a polyunsaturated-fatty-acidproducing, halophilic bacterium isolated from Fuente de Piedra, southern Spain. Int J Syst Evol Microbiol 55:2385–2390

    Article  PubMed  Google Scholar 

  • Matsuyama H, Minami H, Sakaki T, Kasahara H, Baba S et al (2015) Alteromonas gracilis sp. nov., a marine polysaccharide-producing bacterium. Int J Syst Evol Microbiol 65:1498–1503

    Article  PubMed  CAS  Google Scholar 

  • Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinf 14:60

    Article  Google Scholar 

  • Mi Jin H, Hyun Kim K, Ok Jeon C (2015) Alteromonas naphthalenivorans sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from tidal-flat sediment. Int J Syst Evol Microbiol 65(11):4208–4214

  • Moriya Y, Itoh M, Okuda S, Yoshizawa AC, Kanehisa M (2007) KAAS: an automatic genome annotation and pathway reconstruction server. Nucleic Acids Res 35:W182–W185

    Article  PubMed  PubMed Central  Google Scholar 

  • Nguyen STC, Freund HL, Kasanjian J, Berlemont R (2018) Function, distribution, and annotation of characterized cellulases, xylanases, and chitinases from CAZy. Appl Microbiol Biotechnol 102:1629–1637

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Ortega-Morales BO, Chan-Bacab MJ, De la Rosa-García SC, Camacho-Chab JC (2010) Valuable processes and products from marine intertidal microbial communities. Curr Opin Biotechnol 21(3):346–352

    Article  PubMed  CAS  Google Scholar 

  • Pardi F, Guillemot S, Gascuel O (2010) Robustness of phylogenetic inference based on minimum evolution. Bull Math Biol 72:1820–1839

    Article  PubMed  Google Scholar 

  • Park S, Choi SJ, Park JM, Yoon JH (2017) Alteromonas aestuariivivens sp. nov., isolated from a tidal flat. Int J Syst Evol Microbiol 67(8):2791–2797

  • Qi Z, Zhu Y, Guo H et al (2019) Production of glycoprotein bioflocculant from untreated rice straw by a CAZyme-rich bacterium, Pseudomonas sp. HP2. J Biotechnol 306:185–192

    Article  PubMed  CAS  Google Scholar 

  • Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425

    PubMed  CAS  Google Scholar 

  • Salehizadeh H, Vossoughi M, Alemzadeh I (2000) Some investigations on bioflocculant producing bacteria. Biochem Eng J 5(1):39–44

    Article  CAS  Google Scholar 

  • Salehizadeh H, Yan N, Farnood R (2018) Recent advances in polysaccharide bio-based flocculants. Biotechnol Adv 36(1):92–119

    Article  PubMed  CAS  Google Scholar 

  • Shi XL, Wu YH, Jin XB, Wang CS, Xu XW (2017) Alteromonas lipolytica sp. nov., a poly-beta-hydroxybutyrate-producing bacterium isolated from surface seawater. Int J Syst Evol Microbiol 67(2):237–242

  • Sinha RK, Krishnan KP, Kurian PJ (2021) Complete genome sequence of Alteromonas pelagimontana 5.12T, a marine exopolysaccharide-producing bacterium isolated from hydrothermally influenced deep-sea sediment of eastern Southwest Indian Ridge. Mar Genomics 55:100804

  • Smibert RM, Krieg NR (1981) Manual of methods for general bacteriology. American Society for Microbiology, Washington, DC, pp 409–443

    Google Scholar 

  • Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP et al (2016) NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 44:6614–6624

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Thompson JD, Higgins DG, Gibson TJ (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

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • UniProt Consortium (2021) UniProt: the universal protein knowledgebase in 2021. Nucleic Acids Res 49(D1):D480–D489

    Article  Google Scholar 

  • Vincent L, Hemalatha GR, Elodie D, Coutinho PM, Bernard H (2014) The carbohydrate-active enzymes database (CAZy) in 2013. Nucleic Acids Res 42:490–495

    Article  Google Scholar 

  • Wang Z, Zhang F, Liang Y, Zheng K, Gu C et al (2021) Genome and ecology of a novel Alteromonas Podovirus, ZP6, representing a new viral genus. Mareflavirus Microbiol Spectr 9(2):e0046321

    Article  PubMed  Google Scholar 

  • Weisburg WG, Barns SM, Pelletier DA, Lane DJ (1991) 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173:697–703

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Wu JY, Ye HF (2007) Characterization and flocculating properties of an extracellular biopolymer produced from a Bacillus subtilis DYU1 isolate. Process Biochem 42(7):1114–1123

    Article  CAS  Google Scholar 

  • Yoon JH, Kim IG, Kang KH, Oh TK, Park YH (2003) Alteromonas marina sp. nov., isolated from sea water of the East Sea in Korea. Int J Syst Evol Microbiol 53:1625–1630

    Article  PubMed  CAS  Google Scholar 

  • Yoon JH, Yeo SH, Oh TK, Park YH (2004) Alteromonas litorea sp. nov., a slightly halophilic bacterium isolated from an intertidal sediment of the Yellow Sea in Korea. Int J Syst Evol Microbiol 54:1197–1201

    Article  PubMed  CAS  Google Scholar 

  • Yoon SH, Ha SM, Lim JM, Kwon SJ, Chun J (2017) A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek. Int J Syst Evol Microbiol 110:1281–1286

    CAS  Google Scholar 

  • Zhang J, Wang C, Han JR, Chen GJ, Du ZJ (2019) Alteromonas flava sp. nov. and Alteromonas facilis sp. nov., two novel copper tolerating bacteria isolated from a sea cucumber culture pond in China. Syst Appl Microbiol 42(2):217–222

  • Zykwinska A, Marchand L, Bonnetot S, Sinquin C, Colliec-Jouault S et al (2019) Deep-sea hydrothermal vent bacteria as a source of glycosaminoglycan-mimetic exopolysaccharides. Molecules 24(9):1703

    Article  PubMed  PubMed Central  CAS  Google Scholar 

Download references

Funding

This work was funded by the National Natural Science Foundation of China (32300115), by the Basic Research Program of Shanxi Province (20210302124004), by the Scientific and Technological Innovation Programs of Shanxi Agricultural University (2020BQ39), by the Basic Research Program of Shanxi Province (20210302123368), by the Scientific and Technological Innovation Programs of Higher Education Institutions in Shanxi Province (2021L134) and by the Excellent Talents Come to Shanxi to Reward Scientific Research Projects (SXYBKY2019025).

Author information

Author notes

  1. Bi Luo and Jing-Yun Su have contributed equally to this work.

Authors and Affiliations

  1. College of Life Sciences, Financial Assets Department, Shanxi Agricultural University, Taigu, 030801, China

    Bi Luo, Jing-Yun Su, Ya-Fei Zhang, Yong-Hui Xiao, Yun-Lin Peng & Yi Li

  2. College of Marine Life Sciences, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266000, China

    Mei-Ling Sun

Authors
  1. Bi Luo
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Jing-Yun Su
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Ya-Fei Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Yong-Hui Xiao
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Yun-Lin Peng
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Mei-Ling Sun
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Yi Li
    View author publications

    You can also search for this author in PubMed Google Scholar

Contributions

BL and JYS designed the experiments and wrote the manuscript. YFZ, YHX and YLP performed the genome analysis. YFZ and YL revised the manuscript. MLS and YL supervised the experiments.

Corresponding authors

Correspondence to Mei-Ling Sun or Yi Li.

Ethics declarations

Competing interests

The authors declare no competing interests.

Conflict of interest

The authors have declared that no conflict of interest exists.

Ethical approval

This article does not contain any studies with human participants or animals performed by any of the authors.

Additional information

Publisher's Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequence and the genome sequence of strain ASW11-36T are OR166349 and JAUCBP000000000, respectively.

Supplementary Information

Below is the link to the electronic supplementary material.

Supplementary file1 (DOCX 32306 KB)

Rights and permissions

Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Luo, B., Su, JY., Zhang, YF. et al. Alteromonas arenosi sp. nov., a novel bioflocculant-producing bacterium, isolated from intertidal sand. Antonie van Leeuwenhoek 117, 28 (2024). https://doi.org/10.1007/s10482-023-01926-w

Download citation

  • Received:

  • Accepted:

  • Published:

  • DOI: https://doi.org/10.1007/s10482-023-01926-w

Keywords

Search

Navigation