A putative new order of methanogenic Archaea inhabiting the human gut, as revealed by molecular analyses of the mcrA gene

Mihajlovski, Agnès; Alric, Monique; Brugère, Jean-François

doi:10.1016/j.resmic.2008.06.007

Cited by 95 publications

(99 citation statements)

References 21 publications

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“…The presence of these sequences confirms that MA lineages other than the two most commonly described are also present in the human colon. Specifically, mcrA and 16S rRNA gene sequences related to Methanosarcinales (Scanlan et al, 2008) and to a putative new order related to Thermoplasmatales (Mihajlovski et al, 2008) have been detected in stool.…”

Section: Discussionmentioning

confidence: 99%

Abundance and diversity of mucosa-associated hydrogenotrophic microbes in the healthy human colon

et al. 2011

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Hydrogenotrophic microbiota have a significant impact on colonic health; however, little is known about their diversity and ecology in situ. Here, molecular-based methods and multivariate analyses were used to examine the abundance and diversity of mucosa-associated hydrogenotrophic microbes in 90 biopsies collected from right colon, left colon and rectum of 25 healthy subjects. Functional genes of all three hydrogenotrophic groups were detected in at least one colonic region of all subjects. Methanogenic archaea (MA) constituted approximately one half of the hydrogenotrophic microbiota in each colonic region. Sulfate-reducing bacteria (SRB) were more abundant than acetogens in right colon, while acetogens were more abundant than SRB in left colon and rectum. MA genotypes exhibited low diversity, whereas SRB genotypes were diverse and generally similar across the three regions within subject but significantly variable among subjects. Multivariate cluster analysis defined subject-specific patterns for the diversity of SRB genotypes; however, neither subject-nor region-specific clusters were observed for the abundance of hydrogenotrophic functional genes. Sequence analyses of functional gene clones revealed that mucosa-associated SRB were phylogenetically related to Desulfovibrio piger, Desulfovibrio desulfuricans and Bilophila wadsworthia; whereas MA were related to Methanobrevibacter spp., Mb. smithii and the order Methanomicrobiales. Together these data demonstrate for the first time that the human colonic mucosa is persistently colonized by all three groups of hydrogenotrophic microbes, which exhibit segmental and interindividual variation in abundance and diversity.

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Section: Discussionmentioning

confidence: 99%

Abundance and diversity of mucosa-associated hydrogenotrophic microbes in the healthy human colon

et al. 2011

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“…In a current study the diversity of methanogenic Archaea from the gut of humans was analyzed by targeting mcrA, a molecular metabolic marker of methanogenesis (Mihajlovski et al, 2008). They reported the presence of Methanobacteriales, Methanobrevibacter smithii, Methanosphaera stadtmanae and a distant phylotype that did not cluster with any of the methanogenic orders.…”

Section: Methanogensmentioning

confidence: 94%

Archaeal Diversity and Their Biotechnological Potential

Özcan¹

2012

Genetic Diversity in Microorganisms

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“…The 16S rRNA gene primer set and appropriate PCR protocol were taken from Baker et al (2003), while the methyl co-enzyme M reductase a subunit (mcrA) gene-specific primer set and appropriate PCR protocol were taken from Mihajlovski et al (2008) (Table 1). The Mihajlovski et al mcrA gene primers are a slight modification of the original mcrA gene primer set proposed by Luton et al (2002).…”

Section: Pcr Primers and Conditionsmentioning

confidence: 99%

A ‘universal’ type II chaperonin PCR detection system for the investigation of Archaea in complex microbial communities

Chaban

Hill

2011

The ISME Journal

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Bacteria and Archaea are evolutionarily and biochemically distinct domains found together in many environments. Robust 'universal' PCR primer sets targeting both the bacterial 16S rRNA gene and the type I chaperonin gene have been established. However, 'universal' PCR primers for Archaea are currently limited to the 16S rRNA gene. We investigated the type II chaperonin (known as the thermosome, TF55, CCT or TCP-1) as a potential universal target (UT) for Archaea. Reproducible amplification of thermosome gene sequences from all major phyla tested was achieved through the application of a mixture or 'cocktail' of two forward and two reverse primers. Phylogenies based on the B750-bp thermosome UT were congruent with 16S rRNA gene phylogenies while exhibiting longer branch lengths, improving resolution of closely related taxa. 'Universal' thermosome primers were applied to profiling the archaeal community of dairy cow rumen and results compared with profiles based on the 16S rRNA gene and methyl co-enzyme M reductase (methanogen-specific) gene. Clone libraries generated from each target gene, as well as a pyrosequencing profile of one thermosome rumen library, revealed that all three targets consistently detected Methanobrevibacter smithii, Methanobrevibacter ruminantium and Methanosphaera stadtmanae as the dominant constituents; however, thermosome gene sequences were more diverse than either of the other targets providing a higher resolution description of the archaeal community. These findings demonstrate that a 'universal' thermosome PCR protocol is a powerful metagenomic tool for detecting and characterizing Archaea and archaeal communities.

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A putative new order of methanogenic Archaea inhabiting the human gut, as revealed by molecular analyses of the mcrA gene

Cited by 95 publications

References 21 publications

Abundance and diversity of mucosa-associated hydrogenotrophic microbes in the healthy human colon

Abundance and diversity of mucosa-associated hydrogenotrophic microbes in the healthy human colon

Archaeal Diversity and Their Biotechnological Potential

A ‘universal’ type II chaperonin PCR detection system for the investigation of Archaea in complex microbial communities

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