Abstract:
:The described diversity within the domain Archaea has recently expanded due to advances in sequencing technologies, but many habitats that likely harbor novel lineages of archaea remain understudied. Knowledge of archaea within natural and engineered hydrothermal systems, such as hot springs and engineered subsurface habitats, has been steadily increasing, but the majority of the work has focused on archaea living in acidic or circumneutral environments. The environmental pressures exerted by the combination of high temperatures and high pH likely select for divergent communities and distinct metabolic pathways from those observed in acidic or circumneutral systems. In this review, we examine what is currently known about the archaea found in thermoalkaline environments, focusing on the detection of novel lineages and knowledge of the ecology, metabolic pathways and functions of these populations and communities. We also discuss the potential of emerging multi-omics approaches, including proteomics and metabolomics, to enhance our understanding of archaea within extreme thermoalkaline systems.
journal_name
FEMS Microbiol Ecoljournal_title
FEMS microbiology ecologyauthors
Mueller RC,Peach JT,Skorupa DJ,Copié V,Bothner B,Peyton BMdoi
10.1093/femsec/fiaa246subject
Has Abstractpub_date
2021-01-26 00:00:00issue
2eissn
0168-6496issn
1574-6941pii
6021323journal_volume
97pub_type
杂志文章abstract::The effect of a brief (24 h) temperature shift to 4 degrees C (low-temperature stress) or 50 degrees C (high-temperature stress) was studied in methanogenic slurries of Italian rice field soil incubated at either constant 30 degrees C or 15 degrees C. Low-temperature (low-T) stress showed no effect in either the 30 de...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2002.tb00923.x
更新日期:2002-03-01 00:00:00
abstract::Marine sponges host bacterial communities with important ecological and economic roles in nature and society, yet these benefits depend largely on the stability of host-symbiont interactions and their susceptibility to changing environmental conditions. Here, we investigated the temporal stability of complex host-micr...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fiv115
更新日期:2015-10-01 00:00:00
abstract::Host traits and environmental factors drive the natural variation in gut microbiota, and disruption in homeostasis can cause infections and chronic diseases. African wildlife is increasingly facing human-induced agricultural habitats, which also amplifies the contact probability with livestock with unknown consequence...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fix123
更新日期:2017-11-01 00:00:00
abstract::Glacial ice and snow are known habitats for cold-adapted microorganisms. Research on cold-adapted yeast biodiversity from Perito Moreno and Mount Tronador glaciers (Patagonia, Argentina), and production of extracellular enzymatic activity at low temperatures (5 and 18 °C), was performed and described in this study. Ni...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2012.01470.x
更新日期:2012-11-01 00:00:00
abstract::Phytate-mineralizing rhizobacteria (PMR) perform an essential function for the mineralization of organic phosphorus but little is known about their ecology in soils and rhizosphere. In this study, PCR-based methods were developed for detection and quantification of the Bacillus β-propeller phytase (BPP) gene. Experime...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2012.01480.x
更新日期:2013-02-01 00:00:00
abstract::Bacterial diversity is believed to be controlled both by bottom-up and top-down mechanisms such as nutrient competition, predation and viral lysis. We hypothesise that lytic viruses create trophic niches within bacterial communities, and thus primarily control richness and evenness, while substrate composition primari...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2012.01463.x
更新日期:2013-01-01 00:00:00
abstract::Although experiments indicate that the abiotic environment plays an important role in bacterial interactions with their parasitic viruses (bacteriophages or phages), it is not yet clear how exposure to compounds present in nature alters the impact of phages on bacterial growth and evolution. To address this question, ...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fiw211
更新日期:2017-01-01 00:00:00
abstract::One alternative to mineral fertilization is to use organic fertilizers. Our aim was to compare the impacts of 7-year applications of composted pig manure and ammonium nitrate on the structure and activity of the denitrifying community. Mineralization and organization of N, denitrification rates and N2O/N2 ratio were a...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2006.00064.x
更新日期:2006-04-01 00:00:00
abstract::Integrating conjugative elements (ICEs) of the SXT/R391 family have been described in Vibrios, mainly Vibrio cholerae, and other bacteria as carriers of variable gene content conferring adaptive advantages upon their hosts, including antimicrobial resistance and motility regulation. However, our knowledge on their hos...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/1574-6941.12007
更新日期:2013-02-01 00:00:00
abstract::Elevated atmospheric carbon dioxide concentrations ([CO(2) ]) might change the abundance and the function of soil microorganisms in the depth profile of agricultural soils by plant-mediated reactions. The seasonal pattern of abundance and activity of nitrate-reducing bacteria was studied in a Mini-FACE experiment plan...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2011.01048.x
更新日期:2011-05-01 00:00:00
abstract::The Capuchin Catacombs of Palermo contain over 1800 preserved bodies dating from the 16th to 20th centuries AD and showing evidence of biodeterioration. An extensive microbiological and molecular investigation was recently performed. Samples were taken from skin, muscle, hair, bone, stuffing materials, clothes, and su...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/1574-6941.12165
更新日期:2013-11-01 00:00:00
abstract::Photosynthetic picoeukaryotes (PPEs) are major oceanic primary producers. However, the diversity of such communities remains poorly understood, especially in the northwestern (NW) Pacific. We investigated the abundance and diversity of PPEs, and recorded environmental variables, along a transect from the coast to the ...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fiv170
更新日期:2016-02-01 00:00:00
abstract::Predation and competition are two main factors that determine the size and composition of aquatic bacterial populations. Using a simplified bacterial community, composed of three strains characterized by different responses to predation, a short-term laboratory experiment was performed to evaluate adaptations and rela...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2006.00185.x
更新日期:2006-12-01 00:00:00
abstract::Organic soil fertilizers, such as livestock manure and biogas digestate, frequently contain bacteria carrying resistance genes (RGs) to antimicrobial substances and mobile genetic elements (MGEs). The effects of different fertilizers (inorganic, manure, digestate) on RG and MGE abundance and microbial community compos...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fiy027
更新日期:2018-04-01 00:00:00
abstract::We measured growth of a phenanthrene-degrading bacterium, Arthrobacter, strain RP17, in Forbes soil, amended with 500 µg g(-1) phenanthrene using a quantitative competitive polymerase chain reaction method. The inoculum, which was not indigenous to Forbes soil, grew from 5.55x10(5) colony forming units (cfu) g(-1) to ...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2000.tb00748.x
更新日期:2000-10-01 00:00:00
abstract::The GeoChip 4.2 gene array was employed to interrogate the microbial functional gene repertoire of sponges and seawater collected from the Red Sea and the Mediterranean. Complementary amplicon sequencing confirmed the microbial community composition characteristic of high microbial abundance (HMA) and low microbial ab...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/1574-6941.12441
更新日期:2014-12-01 00:00:00
abstract::Recent studies revealed a high diversity of fungal endophytes in traded tree seeds, including potential plant pathogens. The factors determining richness and composition of seed mycobiomes are poorly understood, but might be an important determinant for tree health. We assessed the relative impact of host identity, si...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fiaa166
更新日期:2020-09-01 00:00:00
abstract::Bacterioplankton play a pivotal role in marine ecosystems. However, their temporal dynamics and underlying control mechanisms are poorly understood in tropical regions such as the Red Sea. Here, we assessed the impact of bottom-up (resource availability) and top-down (viruses and heterotrophic nanoflagellates) control...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fiaa033
更新日期:2020-04-01 00:00:00
abstract::Methane is used as an alternative carbon source in the denitrification of wastewater lacking organic carbon sources because it is nontoxic and may be efficiently produced by anaerobic biological processes. Methane-dependent denitrification (MDD) in the presence of oxygen requires the co-occurrence of methanotrophy and...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2008.00473.x
更新日期:2008-06-01 00:00:00
abstract::Motile and non-motile strains of Pseudomonas fluorescens SBW25 were constructed using different combinations of the lacZY, xylE and aph marker genes which allowed their detection and differentiation in soil, root and seed samples. The survival of motile and non-motile strains was investigated in both non-competitive a...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2001.tb00822.x
更新日期:2001-06-01 00:00:00
abstract::Previous microscopy-based studies in the eastern English Channel have revealed it to be a productive meso-eutrophic coastal ecosystem, characterized by strong repeating patterns in microplankton succession. The present study examines the seasonal structure of the entire protistan community from March 2011 to July 2013...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fiv034
更新日期:2015-05-01 00:00:00
abstract::Aerobic anoxygenic phototrophs (AAPs) are a group of photoheterotrophic bacteria common in natural waters. Here, AAP abundance and contribution to total bacterial abundance and biomass were investigated to test whether the trophic status of a lake or content of coloured dissolved organic matter (CDOM) play a role in d...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fiz104
更新日期:2019-08-01 00:00:00
abstract::We investigated ammonia-oxidizing bacteria in activated sludge collected from 12 sewage treatment systems, whose ammonia removal and treatment processes differed, during three different seasons. We used real-time PCR quantification to reveal total bacterial numbers and total ammonia oxidizer numbers, and used specific...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1016/j.femsec.2005.03.017
更新日期:2005-10-01 00:00:00
abstract::Knowledge of microbial communities and their inherent heterogeneity has dramatically increased with the widespread use of high-throughput sequencing technologies, and we are learning more about the ecological processes that structure microbial communities across a wide range of environments, as well as the relative sc...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2012.01416.x
更新日期:2012-10-01 00:00:00
abstract::We re-evaluated PCR primers targeting nirS, nirK and nosZ genes for denaturing gradient gel electrophoresis as a tool to survey denitrifying community composition in environmental samples. New primers for both nirS and nosZ were combined with existing primers, while for nirK the previously published F1aCu:R3Cu set was...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1016/j.femsec.2004.04.011
更新日期:2004-09-01 00:00:00
abstract::Microbial community composition is essential for aquatic ecosystem functions and has been explored across diverse environments and various spatial scales. However, documented patterns are often based on samples from spatially/geographically separated locations or sites. Here, we define sampling volume as spatial scale...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1093/femsec/fix124
更新日期:2017-10-01 00:00:00
abstract::The primary aim of this study was to determine whether distinct gastrointestinal tract (GIT) microbial communities are established within ingesta and on mucosal surfaces of dairy calves and chickens to evaluate whether the principle of microbial segregation is of broad biological significance. Multivariate analysis of...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2011.01220.x
更新日期:2012-02-01 00:00:00
abstract::Denitrifying prokaryotes are phylogenetically and functionally diverse. Little is known about the relationship between soil denitrifier community composition and functional traits. We extracted bacterial cells from three cultivated peat soils with contrasting native pH by density gradient centrifugation and investigat...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2011.01233.x
更新日期:2012-02-01 00:00:00
abstract::An integrated modeling framework was developed to assess physical, biological and chemical processes in the sediment and at the sediment-water interface. Special focus is laid on the description of different functional groups of bacteria as defined according to their metabolic pathways, including fermentation, methano...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1016/S0168-6496(03)00196-X
更新日期:2003-12-01 00:00:00
abstract::Semi-annual averaged values of photosynthetic carbon fixation (PCF), community respiration (CR), bacterial productivity (BP) and zooplankton carbon biomass, measured biweekly or monthly, were used to obtain long-term estimates of bacterial respiration (BR) and bacterial growth efficiency (BGE) in Lake Kinneret from 20...
journal_title:FEMS microbiology ecology
pub_type: 杂志文章
doi:10.1111/j.1574-6941.2009.00822.x
更新日期:2010-03-01 00:00:00