The Info List - Acidobacteria

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ACIDOBACTERIA are a newly devised phylum of Bacteria
, whose members are physiologically diverse and ubiquitous, especially in soils, but are under-represented in culture.

Members of this phylum are physiologically diverse, some being acidophilic , and were first recognized as a novel division in 1997. The first species, Acidobacterium capsulatum , of this phylum was discovered in 1991. Other notable species are Holophaga foetida , Geothrix fermentans , Acanthopleuribacter pedis and Bryobacter aggregatus . Since they have only recently been discovered and the large majority have not been cultured, the ecology and metabolism of these bacteria is not well understood. However, these bacteria may be an important contributor to ecosystems , since they are particularly abundant within soils .

As well as their natural soil habitat, unclassified subdivision 2 Acidobacteria
have also been identified as a contaminant of DNA extraction kit reagents, which may lead to their erroneous appearance in microbiota or metagenomic datasets.


* 1 Phylogeny * 2 Taxonomy * 3 References * 4 External links


The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN) and the phylogeny is based on 16S rRNA-based LTP release 123 by The All-Species Living Tree Project .



Acanthopleuribacter pedis Fukunaga et al. 2008


Geothrix fermentans Coates et al. 1999

Holophaga foetida Liesack et al. 1995

"Solibacteres "

Bryobacter aggregatus Kulichevskaya et al. 2010

Paludibaculum fermentans Kulichevskaya et al. 2014


Acidobacterium capsulatum Kishimoto et al. 1991

Telmatobacter bradus Pankratov and Dedysh 2012


A. borealis Kulichevskaya et al. 2012 (type sp.)

A. ligni Kulichevskaya et al. 2012

Bryocella elongata Dedysh et al. 2012


E. aggregans Koch et al. 2008 emend. Dedysh et al. 2012

E. modestus Koch et al. 2008 (type sp.)

"Granulicella" mallensis Männistö et al. 2012


T. aquaticus Baik et al. 2013

T. roseus Eichorst et al. 2007 (type sp.)

T. saanensis Männistö et al. 2011

T. tenax Whang et al. 2014


G. cerasi Yamada et al. 2014

G. paludicola Pankratov and Dedysh 2010 (type sp.)

G. pectinivorans Pankratov and Dedysh 2010

G. sapmiensis Männistö et al. 2012

G. aggregans Pankratov and Dedysh 2010

G. tundricola Männistö et al. 2012

G. arctica Männistö et al. 2012

G. rosea Pankratov and Dedysh 2010

Notes: ♠ Strains found at the National Center for Biotechnology Information (NCBI) but not listed in the List of Prokaryotic names with Standing in Nomenclature (LSPN)


* Genus ?Thermoanaerobaculum Losey et al. 2013

* Species Thermoanaerobaculum aquaticum Losey et al. 2013

* Genus ?"Thermotomaculum " ♠ Izumi et al. 2012

* Species "Thermotomaculum hydrothermale " ♠ Izumi et al. 2012

* Class Blastocatellia ♠ Pascual et al. 2015

* Genus Chloracidobacterium Tank & Bryant 2015

* Species Chloracidobacterium thermophilum Tank -webkit-column-width: 30em; column-width: 30em; list-style-type: decimal;">

* ^ Thrash, J. C. & Coates, J. D. (2011). Phylum
XVII. Acidobacteria
phyl. nov. In Bergey’s Manual of Systematic Bacteriology, 2nd edn, vol. 4, p. 725. Edited by N. R. Krieg, J. T. Staley, D. R. Brown, B. P. Hedlund, B. J. Paster, N. L. Ward, W. Ludwig & W. B. Whitman. New York: Springer. * ^ "Validation List no. 143". Int. J. Syst. Evol. Microbiol. 62: 1–4. 2012. * ^ Barns SM; Cain EC; Sommerville L; Kuske CR (2007). " Acidobacteria
phylum sequences in uranium-contaminated subsurface sediments greatly expand the known diversity within the phylum" . Appl. Environ. Microbiol. 73 (9): 3113–6. doi :10.1128/AEM.02012-06 . PMC 1892891  . PMID 17337544 . * ^ A B Quaiser A; Ochsenreiter T; Lanz C; et al. (2003). " Acidobacteria
form a coherent but highly diverse group within the bacterial domain: evidence from environmental genomics". Mol. Microbiol. 50 (2): 563–75. doi :10.1046/j.1365-2958.2003.03707.x . PMID 14617179 . * ^ Rappe, M. S.; Giovannoni, S. J. (2003). "The Uncultured Microbial Majority". Annual Review of Microbiology. 57: 369–394. doi :10.1146/annurev.micro.57.030502.090759 . PMID 14527284 . * ^ Kuske CR; Barns SM; Busch JD (1 September 1997). "Diverse uncultivated bacterial groups from soils of the arid southwestern United States that are present in many geographic regions" . Appl. Environ. Microbiol. 63 (9): 3614–21. PMC 168668  . PMID 9293013 . * ^ Kishimoto, Noriaki; Kosako, Yoshimasa; Tano, Tatsuo (31 December 1990). " Acidobacterium capsulatum gen. nov., sp. nov.: An acidophilic chemoorganotrophic bacterium containing menaquinone from acidic mineral environment". Current Microbiology. 22 (1): 1–7. doi :10.1007/BF02106205 . * ^ Liesack, Werner; Bak, Friedhelm; Kreft, Jan-Ulrich; Stackebrandt, E. (30 June 1994). " Holophaga foetida gen. nov., sp. nov., a new, homoacetogenic bacterium degrading methoxylated aromatic compounds". Archives of Microbiology. 162 (1–2): 85–90. doi :10.1007/BF00264378 . PMID 8085918 . * ^ Coates, J. D.; Ellis, D. J.; Gaw, C. V.; Lovley, D. R. (1 October 1999). " Geothrix fermentans gen. nov., sp. nov., a novel Fe(III)-reducing bacterium from a hydrocarbon-contaminated aquifer". International Journal of Systematic Bacteriology. 49 (4): 1615–1622. doi :10.1099/00207713-49-4-1615 . PMID 10555343 . * ^ Fukunaga, Y; Kurahashi, M; Yanagi, K; Yokota, A; Harayama, S (November 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'". International Journal of Systematic and Evolutionary Microbiology. 58 (Pt 11): 2597–2601. doi :10.1099/ijs.0.65589-0 . PMID 18984699 . * ^ Kulichevskaya, IS; Suzina, NE; Liesack, W; Dedysh, SN (February 2010). "Bryobacter aggregatus gen. nov., sp. nov., a peat-inhabiting, aerobic chemo-organotroph from subdivision 3 of the Acidobacteria". International Journal of Systematic and Evolutionary Microbiology. 60 (Pt 2): 301–6. doi :10.1099/ijs.0.013250-0 . PMID 19651730 . * ^ Eichorst SA; Breznak JA; Schmidt TM (2007). "Isolation and characterization of soil bacteria that define Terriglobus gen. nov., in the phylum Acidobacteria" . Appl. Environ. Microbiol. 73 (8): 2708–17. doi :10.1128/AEM.02140-06 . PMC 1855589  . PMID 17293520 . * ^ Salter, Susannah J.; Cox, Michael J.; Turek, Elena M.; Calus, Szymon T.; Cookson, William O.; Moffatt, Miriam F.; Turner, Paul; Parkhill, Julian; Loman, Nicholas J. (2014-01-01). "Reagent and laboratory contamination can critically impact sequence-based microbiome analyses". BMC Biology. 12: 87. doi :10.1186/s12915-014-0087-z . ISSN 1741-7007 . PMC 4228153  . PMID 25387460 . * ^ See the List of Prokaryotic names with Standing in Nomenclature . Data extracted from J.P. Euzéby. "Acidobacteria". Archived from the original on 2013-01-27. Retrieved 2016-09-09. * ^ See the NCBI webpage on Chlorobi Data extracted from Sayers; et al. "NCBI Taxonomy Browser". National Center for Biotechnology Information . Retrieved 2016-09-09. * ^ See the All-Species Living Tree Project . Data extracted from the "16S rRNA-based LTP release 123 (full tree)" (PDF). Silva Comprehensive Ribosomal RNA Database . Retrieved 2016-09-09.

* Pankratov, TA; Dedysh, SN (December 2010). "Granulicella paludicola gen. nov., sp. nov., Granulicella pectinivorans sp. nov., Granulicella aggregans sp. nov. and Granulicella rosea sp. nov., acidophilic, polymer-degrading acidobacteria from Sphagnum peat bogs". International Journal of Systematic and Evolutionary Microbiology. 60 (Pt 12): 2951–9. doi :10.1099/ijs.0.021824-0 . PMID 20118293 . * Pankratov, T. A.; Kirsanova, L. A.; Kaparullina, E. N.; Kevbrin, V. V.; Dedysh, S. N. (1 April 2011). " Telmatobacter bradus gen. nov., sp. nov., a cellulolytic facultative anaerobe from subdivision 1 of the Acidobacteria, and emended description of Acidobacterium capsulatum Kishimoto et al. 1993". International Journal of Systematic and Evolutionary Microbiology. 62 (2): 430–437. doi :10.1099/ijs.0.029629-0 . PMID 21460138 .


* Acidobacteria
bacterium Ellin345