Skip to main content

The Class Holophagaceae

  • Reference work entry
  • First Online:
The Prokaryotes

Abstract

The class Holophagae is a member of the phylum Acidobacteria, comprises gram-negative bacteria, and contains two orders, Holophagales and Acanthopleuribacterales (Int J Syst Evol Microbiol 58:2597–2601, 2008). The order Holophagales consists of a single family, Holophagaceae, which contains two genera, Holophaga (Arch Microbiol 162:85–90, 1994) and Geothrix (Int J Syst Bacteriol 49:1615–1622, 1999), that are strict anaerobes. The order Acanthopleuribacterales also consists of a single family, Acanthopleuribacteraceae, which contains a single genus, Acanthopleuribacter (Int J Syst Evol Microbiol 58:2597–2601, 2008) that is an obligate aerobe. Each of these three described genera in Holophagae contains a single species.

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

Access this chapter

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 699.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Hardcover Book
USD 849.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Abbreviations

ASW:

Artificial seawater

NTA:

Nitrilotriacetic acid

References

  • Anderson I, Held B, Lapidus A, Nolan M, Lucas S, Tice H, Del Rio TG, Cheng JF, Han C, Tapia R, Goodwin LA, Pitluck S, Liolios K, Mavromatis K, Pagani I, Ivanova N, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Brambilla EM, Rohde M, Spring S, Goker M, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides NC (2012) Genome sequence of the homoacetogenic bacterium Holophaga foetida type strain (TMBS4T). Stand Genomic Sci 6:174–184

    Article  PubMed Central  PubMed  Google Scholar 

  • Baas D, Rétey J (1999) Cloning, sequencing and heterologous expression of pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. Eur J Biochem 265:896–901

    Article  CAS  PubMed  Google Scholar 

  • Bak F, Finster K, Rothfuß F (1992) Formation of dimethylsulfide and methanethiol from methoxylated aromatic compounds and inorganic sulfide by newly isolated anaerobic bacteria. Arch Microbiol 157:529–534

    CAS  Google Scholar 

  • Bond DR, Lovley DR (2005) Evidence for involvement of an electron shuttle in electricity generation by Geothrix fermentans. Appl Environ Microbiol 71:2186–2189

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Coates JD, Ellis DJ, Gaw CV, Lovley DR (1999) Geothrix fermentans gen. nov., sp. nov., a novel Fe(III)-reducing bacterium from a hydrocarbon-contaminated aquifer. Int J Syst Bacteriol 49:1615–1622

    Article  CAS  PubMed  Google Scholar 

  • Cruz-Martinez K, Suttle KB, Brodie EL, Power ME, Andersen GL, Banfield JF (2009) Despite strong seasonal responses, soil microbial consortia are more resilient to long-term changes in rainfall than overlying grassland. ISME J 3:738–744

    Article  CAS  PubMed  Google Scholar 

  • Fukunaga Y, Kurahashi M, Yanagi K, Yokota A, Harayama S (2008) Acanthopleuribacter pedis gen. nov., sp. nov., a marine bacterium isolated from a chiton, and description of Acanthopleuribacteraceae fam. nov., Acanthopleuribacterales ord. nov., Holophagaceae fam. nov., Holophagales ord. nov. and Holophagae classis nov. in the phylum ‘Acidobacteria’. Int J Syst Evol Microbiol 58:2597–2601

    Article  CAS  PubMed  Google Scholar 

  • Holmes DE, Bond DR, O’Neil RA, Reimers CE, Tender LR, Lovley DR (2004) Microbial communities associated with electrodes harvesting electricity from a variety of aquatic sediments. Microb Ecol 48:178–190

    Article  CAS  PubMed  Google Scholar 

  • Hugenholtz P, Goebel BM, Pace NR (1998) Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180:4765–4774

    CAS  PubMed Central  PubMed  Google Scholar 

  • Liesack W, Bak F, Kreft JU, Stackebrandt E (1994) Holophaga foetida gen. nov., sp. nov., a new, homoacetogenic bacterium degrading methoxylated aromatic compounds. Arch Microbiol 162:85–90

    CAS  PubMed  Google Scholar 

  • Meisinger DB, Zimmermann J, Ludwig W, Schleifer KH, Wanner G, Schmid M, Bennett PC, Engel AS, Lee NM (2007) In situ detection of novel Acidobacteria in microbial mats from a chemolithoautotrophically based cave ecosystem (Lower Kane Cave, WY, USA). Environ Microbiol 9:1523–1534

    Article  CAS  PubMed  Google Scholar 

  • Mohamed NM, Enticknap JJ, Lohr JE, McIntosh SM, Hill RT (2008) Changes in bacterial communities of the marine sponge Mycale laxissima on transfer into aquaculture. Appl Environ Microbiol 74:1209–1222

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Montalvo NF, Hill RT (2011) Sponge-associated bacteria are strictly maintained in two closely related but geographically distant sponge hosts. Appl Environ Microbiol 77:7207–7216

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Nercessian O, Noyes E, Kalyuzhnaya MG, Lidstrom ME, Chistoserdova L (2005) Bacterial populations active in metabolism of C1 compounds in the sediment of Lake Washington, a freshwater lake. Appl Environ Microbiol 71:6885–6899

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Nevin KP, Lovley DR (2002) Mechanisms for accessing insoluble Fe(III) oxide during dissimilatory Fe(III) reduction by Geothrix fermentans. Appl Environ Microbiol 68:2294–2299

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Schauer R, Bienhold C, Ramette A, Harder J (2010) Bacterial diversity and biogeography in deep-sea surface sediments of the South Atlantic Ocean. ISME J 4:159–170

    Article  CAS  PubMed  Google Scholar 

  • Stamatakis A (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688–2690

    Article  CAS  PubMed  Google Scholar 

  • von Wintzingerode F, Selent B, Hegemann W, Gobel UB (1999) Phylogenetic analysis of an anaerobic, trichlorobenzene-transforming microbial consortium. Appl Environ Microbiol 65:283–286

    Google Scholar 

  • Widdel F, Bak F (1992) Gram-negative mesophilic sulfate-reducing bacteria. In: Trüper HG, Balows A, Dworkin M, Harder W, Schleifer KH (eds) The prokaryotes. Springer, New York/Berlin/Heidelberg, pp 3352–3378

    Chapter  Google Scholar 

  • Yarza P, Ludwig W, Euzéby J, Amann R, Schleifer K.-H, Glöckner FO, Rosselló-Móra R (2010) Update of the All-Species Living Tree Project based on 16S and 23S rRNA sequence analyses. Syst Appl Microbiol 33: 291–299

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

We would like to thank Tomohiro Sekigawa for support of database searching.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Yukiyo Fukunaga .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2014 Springer-Verlag Berlin Heidelberg

About this entry

Cite this entry

Fukunaga, Y., Ichikawa, N. (2014). The Class Holophagaceae . In: Rosenberg, E., DeLong, E.F., Lory, S., Stackebrandt, E., Thompson, F. (eds) The Prokaryotes. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-38954-2_161

Download citation

Publish with us

Policies and ethics