Methanogens and the diversity of archaebacteria.

Jones, William J.; Nagle, D P; Whitman, William B.

doi:10.1128/mmbr.51.1.135-177.1987

Cited by 291 publications

(106 citation statements)

References 381 publications

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“…However, the capability of lacustrine archaea other than ammonia oxidizers to incorporate CO 2 in the dark has not been assessed in aquatic environments with well-defined oxic/anoxic interfaces. To date, archaeal chemoautotrophy has been found in (hyper)thermophiles (Berg et al, 2010), methanogens (Jones et al, 1987;Simpson & Whitman, 1993), and ammonia-oxidizing crenarchaeota (Könneke et al, 2005;Hallam et al, 2006;Martens-Habbena et al, 2009;Walker et al, 2010), although the high diversity of archaea in the most diverse habitats (Schleper et al, 2005) provides the possibility of a wider occurrence of autotrophy over the entire archaeal domain.…”

Section: Discussionmentioning

confidence: 99%

“…DeLong, 1992DeLong, , 1998DeLong & Pace, 2001;Robertson et al, 2005;Schleper et al, 2005;Chaban et al, 2006;Auguet et al, 2010) and the particular high richness of archaeal taxa in anoxic waters of stratified lakes (Llirós et al, 2008(Llirós et al, , 2010. To date, archaeal carbon fixation has mainly been studied in pure cultures of extremophiles, most of which have been in relation to sulfur metabolism (Kletzin et al, 2004;Berg et al, 2010) and methanogens (Jones et al, 1987;Simpson & Whitman, 1993). Very recently, the incorporation of inorganic carbon by ammonia-oxidizing archaea (AOA) has been confirmed both in the laboratory (Könneke et al, 2005;Martens-Habbena et al, 2009) and in situ (Wuchter et al, 2003;Herndl et al, 2005;Ingalls et al, 2006;Varela et al, 2008).…”

Section: Introductionmentioning

confidence: 99%

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Active bacteria and archaea cells fixing bicarbonate in the dark along the water column of a stratified eutrophic lagoon

Llirós

Alonso‐Sáez

Gich

et al. 2011

FEMS Microbiology Ecology

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We studied the carbon dioxide fixation activity in a stratified hypereutrophic karstic lagoon using a combination of fingerprinting techniques targeting bacterial and archaeal 16S rRNA genes, functional gene cloning [the acetyl-CoA carboxylase (accC)], and isotopic labelling ((14)C-bicarbonate) coupled to single-cell analyses [microautoradiography combined with catalyzed reported deposition-FISH (MAR-CARD-FISH)]. The microbial planktonic community was dominated by bacteria with maximal abundances of archaea just below the oxic/anoxic transition zone (7% of total cells). In situ incubations with radiolabelled bicarbonate showed maximal photoassimilation activity in the oxic epilimnion, whereas dark CO(2) fixation was consistently observed throughout the water column, with a maximum at the oxic/anoxic interface (8.6 mg C m(-3) h(-1)). The contributions of light and dark carbon fixation activities in the whole water column were 69% and 31% of the total C incorporated, respectively. MAR-CARD-FISH incubations corroborated these results and revealed that the highest fraction of bacterial and archaeal cells actively uptaking bicarbonate in the light was found at the surface. The bacterial community was mainly composed of green sulfur bacteria (Chlorobi) and members of the Betaproteobacteria and the Bacteroidetes. The archaeal assemblage was composed of phylotypes of the Miscellaneous Crenarchaeotic Group and a few methanogens. Clone libraries of the accC gene showed an absolute dominance of bacterial carboxylases. Our results suggest that the dark carbon fixation activity measured was mainly related to CO(2) incorporation by heterotrophs rather than to the activity of true chemoautotrophs.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Active bacteria and archaea cells fixing bicarbonate in the dark along the water column of a stratified eutrophic lagoon

Llirós

Alonso‐Sáez

Gich

et al. 2011

FEMS Microbiology Ecology

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“…and Methanothrix sop. are known to be able to convert acetate into methane, [9,10]. For CSM, ROB, VGG and G sludge,, where almost no Methanosarc:na spp.…”

Section: Discussionmentioning

confidence: 99%

“…This system utilizes granular sludgo with high specific activity; in addition, the excellent settfing properties of the granules eliminate the need for support materials [6,8]. However, little is known about granulation and the role of the different organisms in this process, especially a group of archaebacteria known as methanogens [9,10]. This important group of sensitive organisms [1,11,12] are difficult to study in their natural environments [13].…”

Section: Introductionmentioning

confidence: 99%

Methanogens revealed immunologically in granules from five Upflow Anaerobic Sludge Blanket (UASB) bioreactors grown on different substrates

Koornneef

Macario

Grotenhuis

et al. 1990

FEMS Microbiology Letters

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Methanogens were identified and quantified using antibody probes and the antigenic fingerprinting method in five different kinds of granular sludge taken from five Uplow Anaerobic Sludge Blanket (UASB) bioreactors maintained on different substrates. The methanogenic flora present in each bioreactor was elucidated and expressed in cells per garm dry weight. Autofluorescence, phase‐contrast and bright field‐microscopy of unstained and Gram‐stained preparations were used in parallel with immunotechnology to characterize each methanogenic subpopulation. Ten different methanogens were prevalent in the five bioreactor systems. Methanogens antigenically related to Methanobacterium formicicum MF, Methanobrevibacter arboriphilus AZ and Methanothrix soehngenii Opfikon were found in all five granules, while other methanogens were present in only some. A trend was observed towards a wider diversity of methanogenic subpopulations parallelling an increase in the complexity of the bioreactor's substrate.

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“…If methanogens are present (e.g. within the gastrointestinal tract) and the hydrogen partial pressure becomes sufficiently high, then acetate will be converted to methane (Jones et al 1987). Hence, the specific microbial succession (and associated microcosm metabolism) that occurs at a given anatomical location will impact on the volatiles produced.…”

Section: Microbial Successionmentioning

confidence: 99%

Microbial volatile compounds in health and disease conditions

Thorn¹,

Greenman²

2012

J. Breath Res.

109

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Microbial cultures and/or microbial associated diseases often have a characteristic smell. Volatile organic compounds (VOCs) are produced by all microorganisms as part of their normal metabolism. The types and classes of VOC produced is wide, including fatty acids and their derivatives (e.g. hydrocarbons, aliphatic alcohols and ketones), aromatic compounds, nitrogen containing compounds, and volatile sulfur compounds. A diversity of ecological niches exist in the human body which can support a polymicrobial community, with the exact VOC profile of a given anatomical site being dependent on that produced by both the host component and the microbial species present. The detection of VOCs is of interest to various disciplines, hence numerous analytical approaches have been developed to accurately characterize and measure VOCs in the laboratory, often from patient derived samples. Using these technological advancements it is evident that VOCs are indicative of both health and disease states. Many of these techniques are still largely confined to the research laboratory, but it is envisaged that in future bedside 'VOC profiling' will enable rapid characterization of microbial associated disease, providing vital information to healthcare practitioners.

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Methanogens and the diversity of archaebacteria.

Cited by 291 publications

References 381 publications

Active bacteria and archaea cells fixing bicarbonate in the dark along the water column of a stratified eutrophic lagoon

Active bacteria and archaea cells fixing bicarbonate in the dark along the water column of a stratified eutrophic lagoon

Methanogens revealed immunologically in granules from five Upflow Anaerobic Sludge Blanket (UASB) bioreactors grown on different substrates

Microbial volatile compounds in health and disease conditions

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