Skip to main content
SpringerLink
Log in

Hydrogenophaga luteola sp. nov. isolated from reed pond water

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

Abstract

A yellowish colored, Gram-staining negative, strictly aerobic, motile, rod-shaped bacterium, designated THG-SQE7T, was isolated from reed pond water in Shangqiu, PR China. Comparative 16S rRNA gene sequence analysis indicated that strain THG-SQE7T is most closely related to Hydrogenophaga pseudoflava ATCC 33668T (98.4 %), followed by Hydrogenophaga bisanensis K102T (97.6 %) and Hydrogenophaga flava CCUG 1658T (97.6 %). DNA–DNA hybridization showed 53.5, 36.0 and 22.5 % DNA re-association with H. pseudoflava KCTC 2348T, H. bisanensis KCTC 12980T and H. flava KCTC 1648T, respectively. Chemotaxonomic data revealed that strain THG-SQE7T possesses ubiquinone-8 as the only isoprenoid quinone, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), C16:0 and C18:1 ω7c as the major fatty acids. The major polar lipids were found to be phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The DNA G+C content was determined to be 63.7 mol%. These data corroborated the affiliation of strain THG-SQE7T to the genus Hydrogenophaga. Thus, the isolate represents a novel species, for which the name Hydrogenophaga luteola sp. nov. is proposed, with THG-SQE7T as the type strain (=KCTC 42501T = CCTCC AB 2014314T = JCM 30433T).

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

Similar content being viewed by others

References

  • Chung BS, Ryu SH, Park M, Jeon Y, Chung YR, Jeon CO (2007) Hydrogenophaga caeni sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 57(5):1126–1130

    Article  CAS  PubMed  Google Scholar 

  • Collins MD, Jones D (1981) Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implications. Microbiol Rev 45:316–354

    CAS  PubMed Central  PubMed  Google Scholar 

  • Contzen M, Moore ER, Blümel S, Stolz A, Kämpfer P (2000) Hydrogenophaga intermedia sp. nov., a 4-aminobenzene-sulfonate degrading organism. Syst Appl. Microbiol 23:487–493

    Article  CAS  PubMed  Google Scholar 

  • Ezaki T, Hashimoto Y, Yabuuchi E (1989) Fluorometric deoxyribonucleic acid–deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39:224–229

    Article  Google Scholar 

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

    Article  CAS  PubMed  Google Scholar 

  • Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791

    Article  Google Scholar 

  • Fitch WM (1971) Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416

    Article  Google Scholar 

  • Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98

    CAS  Google Scholar 

  • Hiraishi A, Ueda Y, Ishihara J, Mori T (1996) Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 42:457–469

    Article  CAS  Google Scholar 

  • Kämpfer P, Schulze R, Jäckel U, Malik KA, Amann R, Spring S (2005) Hydrogenophaga defluvii sp. nov. and Hydrogenophaga atypica sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 55(1):341–344

    Article  PubMed  Google Scholar 

  • Kim YJ, Kim MK, Weon HY, Kim HB, Yang DC (2010) Hydrogenophaga temperata sp. nov., a betaproteobacterium isolated from compost in Korea. J Gen Appl Microbiol 56:419–425

    Article  CAS  PubMed  Google Scholar 

  • Kim OS, Cho YJ, Lee K, Yoon SH, Kim M, Na H, Park SC, Jeon YS, Lee JH, Yi H, Won S, Chun J (2012) Introducing y-e: a prokaryotic 16S rRNA Gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721

    Article  CAS  PubMed  Google Scholar 

  • Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, Cambridge

    Book  Google Scholar 

  • Kimura Z, Okabe S (2013) Hydrogenophaga electricum sp. nov., isolated from anodic biofilms of an acetate-fed microbial fuel cell. J Gen Appl Microbiol 59:261–266

    Article  CAS  PubMed  Google Scholar 

  • Kumar S, Dudley J, Nei M, Tamura K (2008) MEGA: a biologist–centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform 9:299–306

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Malik KA, Schlegel HG (1981) Chemolithoautotrophic growth of bacteria able to grow under N2-fixing conditions. FEMS Microbiol Lett 11:63–67

    Article  CAS  Google Scholar 

  • Mesbah M, Premachandran U, Whitman WB (1989) Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167

    Article  CAS  Google Scholar 

  • Minnikin DE, ODonnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241

    Article  CAS  Google Scholar 

  • Moore DD, Dowhan D (1995) Preparation and analysis of DNA. In: Ausubel FW, Brent R, Kingston RE, Moore DD, Seidman JG, Smith JA, Struhl K (eds) Current protocols in molecular biology. Wiley, New York, pp 2–11

    Google Scholar 

  • Reinauer KM, Popovic J, Weber CD, Millerick KA, Kwon MJ, Wei N, Finneran KT (2014) Hydrogenophaga carboriunda sp. nov., a tertiary butyl alcohol-oxidizing, psychrotolerant aerobe derived from granular-activated carbon (GAC). Curr Microbiol 68(4):510–517

    Article  CAS  PubMed  Google Scholar 

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

    CAS  PubMed  Google Scholar 

  • Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. MIDI Inc, Newark

  • Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA–DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 44:846–849

    CAS  Google Scholar 

  • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Wayne LG, Brenner DJ, Colwell RR et al (1987) International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464

    Article  Google Scholar 

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

    CAS  PubMed Central  PubMed  Google Scholar 

  • Willems A, Busse J, Goor M, Pot B, Falsen E, Jantzen B et al (1989) Hydrogenophaga, a new genus of hydrogen-oxidizing bacteria that includes Hydrogenophaga flava comb. nov. (formerly Pseudomonas flava), Hydrogenophaga palleronii (formerly Pseudomonas palleronii), Hydrogenophaga pseudoflava (formerly Pseudomonas pseudoflava and “Pseudomonas carboxydoflava”), and Hydrogenophaga taeniospiralis (formerly Pseudomonas taeniospiralis). Int J Syst Evol Microbiol 39(3):319–333

    CAS  Google Scholar 

  • Yoon JH, Kang SJ, Ryu SH, Jeon CO, Oh TK (2008) Hydrogenophaga bisanensis sp. nov., isolated from wastewater of a textile dye works. Int J Syst Evol Microbiol 58(2):393–397

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

This work was conducted under the industrial infrastructure program (No. N0000888) for fundamental technologies which is funded by the Ministry of Trade, Industry & Energy (MOTIE, Korea).

Author information

Authors and Affiliations

  1. Department of Oriental Medicinal Biotechnology, College of Life Science, Kyung Hee University, Global Campus, 1732 Deokyoungdaero, Giheung-gu, Yongin-si, Gyeonggi-do, 446-701, Republic of Korea

    Juan Du, Jung-Eun Yang, Hina Singh, Shahina Akter, KyungHwa Won & Tae-Hoo Yi

  2. Department of Acupuncture Merdian Science Research Center, College of Korean Medicine, Kyung Hee University, Global Campus, Seoul, Republic of Korea

    Chang Shik Yin

  3. College of Bio and Food Technology, Dalian Polytechnic University, Qinggong-yuan No. 1, Ganjingzi-qu, Dalian, 116034, People’s Republic of China

    Feng-Xie Jin

Authors
  1. Juan Du
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Jung-Eun Yang
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Hina Singh
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Shahina Akter
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. KyungHwa Won
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Chang Shik Yin
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Feng-Xie Jin
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Tae-Hoo Yi
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Tae-Hoo Yi.

Additional information

The NCBI GenBank accession number for the 16S rRNA gene sequence of strains THG-SQE7T is KM598239.

Electronic supplementary material

Below is the link to the electronic supplementary material.

10482_2015_525_MOESM1_ESM.pdf

Supplementary material 1 (PDF 13 kb) Supplementary Fig. S1. Maximum likelihood tree based on 16S rRNA gene sequence analysis showing phylogenetic relationships between strain THG–SQE7T and related members of the genus Hydrogenophaga. Numbers at nodes represent percentages of bootstrap support based on a maximum–likelihood analysis of 1,000 resampled datasets. Symbol * indicated the non-valid species of genus Hydrogenophaga

10482_2015_525_MOESM2_ESM.pdf

Supplementary material 2 (PDF 188 kb) Supplementary Fig. S2. Transmission electron micrograph of cells of strain THG–SQE7T. The detection was performed after negative staining with uranyl acetate. Bar, 0.5µm

10482_2015_525_MOESM3_ESM.pdf

Supplementary material 3 (PDF 272 kb) Supplementary Fig. S3. Two-dimensional TLC of the polar lipids of THG–SQE7T (a) and H. pseudoflava KCTC 2348T (b). a1 and b1: total lipids revealed by spraying with 5% molybdatophosphoric acid for strain THG–SQE7T and H. pseudoflava KCTC 2348T, respectively; a2 and b2: aminolipid revealed by spraying with 0.2% ninhydrin of stain THG–SQE7T and H. pseudoflava KCTC 2348T, respectively; a3 and b3: phospholipid revealed by molybdenum blue of stain THG–SQE7T and H. pseudoflava KCTC 2348T, respectively. No glycolipid appeared. Abbreviations: phosphatidylethanolamine (PE), diphosphatidylglycerol (DPE), phosphatidylglycerol (PG), unidentified phospholipid (PL) and unidentified lipids (L0-L5)

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Du, J., Yang, JE., Singh, H. et al. Hydrogenophaga luteola sp. nov. isolated from reed pond water. Antonie van Leeuwenhoek 108, 695–701 (2015). https://doi.org/10.1007/s10482-015-0525-0

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10482-015-0525-0

Keywords

Search

Navigation