Diversity and structure of the archaeal community in the leachate of a full-scale recirculating landfill as examined by direct 16S rRNA gene sequence retrieval

Huang, Li-Nan; Zhou, Hui; Chen, Yue‐Qin; Luo, Sisi; Lan, C. Y.; Qu, Liang‐Hu

doi:10.1111/j.1574-6968.2002.tb11353.x

Cited by 60 publications

(62 citation statements)

References 22 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The other members of this unique clade include vadinCA11 and vadinDC79, both obtained from a wine anaerobic digestor in France (13), and WCHD302, obtained from an aquifer contaminated with hydrocarbons and chlorinated solvents (8). In a recent study characterizing the diversity and structure of archaea in the effluent leachate from a recirculating landfill, two new partial 16S rRNA gene sequences (500 bp) were also found to cluster with this unique group (17). Interestingly, the genetic distance between this novel clade and its nearest sister group (28%) was greater than the genetic distance between the orders Methanobacteriales and Methanomicrobiales.…”

Section: Discussionmentioning

confidence: 99%

“…This suggests that a new order of methanogens should be created for this group once cultivars are isolated to validate the proposal. However, in the absence of cultivated isolates the biology and ecology of this novel group in the rumen remain unclear (17).…”

Section: Discussionmentioning

confidence: 99%

“…However, because of the fastidious growth requirements of rumen methanogens, it is reasonable to expect that non-culture-dependent molecular methods would reveal greater molecular diversity than is apparent with the techniques currently used to isolate, enumerate, or characterize methanogens in rumen digesta (4,22,31,36). The use of molecular techniques has already revealed the enormous methanogen diversity and putative novel species in anaerobic treatment systems (6,13,34,49), landfills, soils and rice fields (17,21,23,28,29,42), wetlands and peat bogs (12,14,26), termites (5,35), and the rumen (38,39,44,50).…”

mentioning

confidence: 99%

See 2 more Smart Citations

Molecular Diversity of Rumen Methanogens from Sheep in Western Australia

Wright

Williams

Winder

et al. 2004

Appl Environ Microbiol

197

161

View full text Add to dashboard Cite

The molecular diversity of rumen methanogens in sheep in Australia was investigated by using individual 16S rRNA gene libraries prepared from the rumen contents obtained from six merino sheep grazing pasture (326 clones), six sheep fed an oaten hay-based diet (275 clones), and five sheep fed a lucerne hay-based diet (132 clones). A total of 733 clones were examined, and the analysis revealed 65 phylotypes whose sequences (1,260 bp) were similar to those of cultivated methanogens belonging to the order Methanobacteriales. Pasturegrazed sheep had more methanogen diversity than sheep fed either the oaten hay or lucerne hay diet. Methanobrevibacter strains SM9, M6, and NT7 accounted for over 90% of the total number of clones identified. M6 was more prevalent in grazing sheep, and SM9, despite being found in 16 of the 17 sheep, was more prevalent in sheep fed the lucerne-based diet. Five new species were identified. Two of these species exhibited very little sequence similarity to any cultivated methanogens and were found eight times in two of the six sheep that were grazing pasture. These unique sequences appear to represent a novel group of rumen archaea that are atypical for the rumen environment.The rumen is a unique environment and is home to billions of microbes, including bacteria, methanogenic archaea, protozoa, and fungi. These different microbes form a complex community of organisms that interact with one another and play an important role in the digestion of feed and the supply of energy to the host in the form of volatile fatty acids and microbial protein. In the past decade, there has been an increasing amount of interest in the rumen methanogenic archaea. This has primarily resulted from the role of these organisms in global warming due to the production of methane by domesticated livestock.In Australia, ruminant livestock are the single largest source of agricultural greenhouse gas emissions and alone account for at least 12% of Australian's total anthropomorphic national emissions (3). In New Zealand, enteric emissions are responsible for approximately 60% of that country's total greenhouse gas emissions (27). Approximately 95.5% of the methane emitted by ruminants is produced in the rumen (3), and the associated loss of energy for the ruminant has been estimated to be between 2 and 15% of the gross energy intake (18,25,40).Methane production is influenced by feed intake and the digestibility of the dry matter in the feed that is consumed. The effects of diet on changes in the diversity and numbers of a wide range of bacterial species in the rumen are known (20,30,36,37,45), but there is little information available concerning the composition of the methanogen population and their numbers of methanogens with regard to diet. Therefore, it is necessary to understand the diversity of methanogens in the rumen.In the past, methanogens from the digestive tracts of domesticated ruminants were identified by classical microbiological techniques (46). However, because of the fastidious growth requirements of ru...

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

mentioning

confidence: 99%

See 1 more Smart Citation

Molecular Diversity of Rumen Methanogens from Sheep in Western Australia

Wright

Williams

Winder

et al. 2004

Appl Environ Microbiol

197

161

View full text Add to dashboard Cite

show abstract

“…The ARC-2 cluster is related to sequences (26,62) referred to in GenBank as unclassified/uncultured Archaea (environmental samples) or unclassified/uncultured Methanomicrobiales (43). The phylogenetic affiliation of these clones remains uncertain, but they may represent a deeply divergent branch of the Methanomicrobiales order.…”

Section: Resultsmentioning

confidence: 99%

Phylogenetic Characterization of Methanogenic Assemblages in Eutrophic and Oligotrophic Areas of the Florida Everglades

Castro¹,

Ogram

Reddy³

2004

Appl Environ Microbiol

View full text Add to dashboard Cite

“…One of these lineages is a diverse clade of sequences distantly related to the Thermoplasmatales. Originally discovered in the marine environment (9,17) and the deep subsurface (59), related clones were subsequently obtained from rice field soil (20), the water column and sediment of freshwater lakes (27,44), and soil and leachate of landfills (24,37). Other members of this clade were found in the guts of termites (16,42,54), wood-feeding cockroaches (22), and scarab beetle larvae (14).…”

mentioning

confidence: 99%

“Methanoplasmatales,” Thermoplasmatales-Related Archaea in Termite Guts and Other Environments, Are the Seventh Order of Methanogens

Paul

Nonoh

Mikulski

et al. 2012

Appl Environ Microbiol

300

257

View full text Add to dashboard Cite

The Euryarchaeota comprise both methanogenic and nonmethanogenic orders and many lineages of uncultivated archaea with unknown properties. One of these deep-branching lineages, distantly related to the Thermoplasmatales, has been discovered in various environments, including marine habitats, soil, and also the intestinal tracts of termites and mammals. By comparative phylogenetic analysis, we connected this lineage of 16S rRNA genes to a large clade of unknown mcrA gene sequences, a functional marker for methanogenesis, obtained from the same habitats. The identical topologies of 16S rRNA and mcrA gene trees and the perfect congruence of all branches, including several novel groups that we obtained from the guts of termites and cockroaches, strongly suggested that they stem from the same microorganisms. This was further corroborated by two highly enriched cultures of closely related methanogens from the guts of a higher termite (Cubitermes ugandensis) and a millipede (Anadenobolus sp.), which represented one of the arthropod-specific clusters in the respective trees. Numerous other pairs of habitat-specific sequence clusters were obtained from the guts of other termites and cockroaches but were also found in previously published data sets from the intestinal tracts of mammals (e.g., rumen cluster C) and other environments. Together with the recently described Methanomassiliicoccus luminyensis isolated from human feces, which falls into rice cluster III, the results of our study strongly support the idea that the entire clade of "uncultured Thermoplasmatales" in fact represents the seventh order of methanogenic archaea, for which the provisional name "Methanoplasmatales" is proposed. Methanogenesis is an important process in the carbon cycle, with a significant impact on global warming. Methane is produced exclusively by methanogenic archaea-strictly anaerobic microorganisms that occur in almost all anoxic habitats on earth, from the marine environment to freshwater sediments to soils, including hot springs and the deep subsurface, in sewage sludge, and in the digestive tracts of animals and humans (33).All methanogens belong to the phylum Euryarchaeota. They presently comprise members of six orders. The basal groups are Methanopyrales, Methanococcales, and Methanobacteriales (class I); Methanomicrobiales (class II) (3); and Methanosarcinales (class III) (2), with the recently recognized sister group Methanocellales (50). It has been hypothesized that the genes for hydrogenotrophic methanogenesis were already present in a common ancestor and were vertically inherited in a broader monophyletic unit encompassing all methanogens (3). Consequently, it has to be postulated that methanogenesis was lost in the Archaeoglobales (which fall among class I methanogens), the Thermoplasmatales, and the Halobacteriales (which fall between class I and class II) (3).In addition, there are many deep-branching lineages of archaea that are exclusively represented by their 16S rRNA genes (19,53,60) and whose properties cannot be safe...

show abstract

Diversity and structure of the archaeal community in the leachate of a full-scale recirculating landfill as examined by direct 16S rRNA gene sequence retrieval

Cited by 60 publications

References 22 publications

Molecular Diversity of Rumen Methanogens from Sheep in Western Australia

Molecular Diversity of Rumen Methanogens from Sheep in Western Australia

Phylogenetic Characterization of Methanogenic Assemblages in Eutrophic and Oligotrophic Areas of the Florida Everglades

“Methanoplasmatales,” Thermoplasmatales-Related Archaea in Termite Guts and Other Environments, Are the Seventh Order of Methanogens

Contact Info

Product

Resources

About