Bacterial community structure in the hyperarid core of the Atacama Desert, Chile.
Ontology highlight
ABSTRACT:
SUBMITTER: Drees KP
PROVIDER: S-EPMC1694221 | biostudies-literature | 2006 Dec
REPOSITORIES: biostudies-literature
Publications
Bacterial community structure in the hyperarid core of the Atacama Desert, Chile.
Drees Kevin P KP Neilson Julia W JW Betancourt Julio L JL Quade Jay J Henderson David A DA Pryor Barry M BM Maier Raina M RM
Applied and environmental microbiology 20061006 12
Soils from the hyperarid Atacama Desert of northern Chile were sampled along an east-west elevational transect (23.75 to 24.70 degrees S) through the driest sector to compare the relative structure of bacterial communities. Analysis of denaturing gradient gel electrophoresis (DGGE) profiles from each of the samples revealed that microbial communities from the extreme hyperarid core of the desert clustered separately from all of the remaining communities. Bands sequenced from DGGE profiles of two ...[more]
Similar Datasets
Project description:Dating of extensive alluvial fan surfaces and fluvial features in the hyperarid core of the Atacama Desert, Chile, using cosmogenic nuclides provides unrivalled insights about the onset and variability of aridity. The predominantly hyperarid conditions help to preserve the traces of episodic climatic and/or slow tectonic change. Utilizing single clast exposure dating with cosmogenic 10Be and 21Ne, we determine the termination of episodes of enhanced fluvial erosion and deposition occurring at ~19, ~14, ~9.5 Ma; large scale fluvial modification of the landscape had ceased by ~2-3 Ma. The presence of clasts that record pre-Miocene exposure ages (~28 Ma and ~34 Ma) require stagnant landscape development during the Oligocene. Our data implies an early onset of (hyper-) aridity in the core region of the Atacama Desert, interrupted by wetter but probably still arid periods. The apparent conflict with interpretation that favour a later onset of (hyper-) aridity can be reconciled when the climatic gradients within the Atacama Desert are considered.
| S-EPMC6141514 | biostudies-literature
Project description:A large fraction of the vital groundwater in the Atacama Desert of northern Chile is likely composed of "fossil" or "ancient" reserves that receive little or no recharge in today's hyperarid climate. Here, we present evidence for latest Pleistocene perennial streamflow in canyons from the hyperarid core of the Atacama Desert in northern Chile. Fluvial terraces in the Pampa del Tamarugal (PdT) basin (21 degrees S) contain widespread fossil wood, in situ roots, and well preserved leaf litter deposits indicative of perennial surface flow currently absent in these channels. Nineteen radiocarbon dates on these deposits from four separate drainages within this endorheic basin indicate ages from 16,380 to 13,740 cal yr BP, synchronous with paleolake Tauca on the Bolivian Altiplano and other regional evidence for wetter conditions during the latest Pleistocene. Groundwater-fed riparian ecosystems and associated fluvial deposits abound today in the absence of direct rainfall in northern Atacama canyons with perennial discharge. Our relict riparian ecosystems from the PdT basin are indicative of conditions similar to these northern canyons. Given that discharge was higher than present during this time, we propose that these deposits represent the most important groundwater recharge events of the last 18,000 years. A lesser recharge event occurred during the Holocene, when phreatophytic trees also grew in these drainages between 1,070 and 700 cal yr BP, during the Medieval Climatic Anomaly. Taken together, our evidence lends further support for gradient changes in the equatorial Pacific as a major driver of hydrologic change in the Atacama on both centennial and millennial time scales.
| S-EPMC2148365 | biostudies-literature
Project description:The hyperarid core of the Atacama Desert, the driest and oldest desert on Earth, has experienced a number of highly unusual rain events over the past three years, resulting in the formation of previously unrecorded hypersaline lagoons, which have lasted several months. We have systematically analyzed the evolution of the lagoons to provide quantitative field constraints of large-scale impacts of the rains on the local microbial communities. Here we show that the sudden and massive input of water in regions that have remained hyperarid for millions of years is harmful for most of the surface soil microbial species, which are exquisitely adapted to survive with meager amounts of liquid water, and quickly perish from osmotic shock when water becomes suddenly abundant. We found that only a handful of bacteria, remarkably a newly identified species of Halomonas, remain metabolically active and are still able to reproduce in the lagoons, while no archaea or eukaryotes were identified. Our results show that the already low microbial biodiversity of extreme arid regions greatly diminishes when water is supplied quickly and in great volumes. We conclude placing our findings in the context of the astrobiological exploration of Mars, a hyperarid planet that experienced catastrophic floodings in ancient times.
| S-EPMC6232106 | biostudies-literature
Project description:Traces of life are nearly ubiquitous on Earth. However, a central unresolved question is whether these traces always indicate an active microbial community or whether, in extreme environments, such as hyperarid deserts, they instead reflect just dormant or dead cells. Although microbial biomass and diversity decrease with increasing aridity in the Atacama Desert, we provide multiple lines of evidence for the presence of an at times metabolically active, microbial community in one of the driest places on Earth. We base this observation on four major lines of evidence: (i) a physico-chemical characterization of the soil habitability after an exceptional rain event, (ii) identified biomolecules indicative of potentially active cells [e.g., presence of ATP, phospholipid fatty acids (PLFAs), metabolites, and enzymatic activity], (iii) measurements of in situ replication rates of genomes of uncultivated bacteria reconstructed from selected samples, and (iv) microbial community patterns specific to soil parameters and depths. We infer that the microbial populations have undergone selection and adaptation in response to their specific soil microenvironment and in particular to the degree of aridity. Collectively, our results highlight that even the hyperarid Atacama Desert can provide a habitable environment for microorganisms that allows them to become metabolically active following an episodic increase in moisture and that once it decreases, so does the activity of the microbiota. These results have implications for the prospect of life on other planets such as Mars, which has transitioned from an earlier wetter environment to today's extreme hyperaridity.
| S-EPMC5856521 | biostudies-literature
Project description:Paleoclimate records from the Atacama Desert are rare and mostly discontinuous, mainly recording runoff from the Precordillera to the east, rather than local precipitation. Until now, paleoclimate records have not been reported from the hyperarid core of the Atacama Desert (<2 mm/yr). Here we report the results from multi-disciplinary investigation of a 6.2 m drill core retrieved from an endorheic basin within the Coastal Cordillera. The record spans the last 215 ka and indicates that the long-term hyperarid climate in the Central Atacama witnessed small but significant changes in precipitation since the penultimate interglacial. Somewhat 'wetter' climate with enhanced erosion and transport of material into the investigated basin, commenced during interglacial times (MIS 7, MIS 5), whereas during glacial times (MIS 6, MIS 4-1) sediment transport into the catchment was reduced or even absent. Pelagic diatom assemblages even suggest the existence of ephemeral lakes in the basin. The reconstructed wetter phases are asynchronous with wet phases in the Altiplano but synchronous with increased sea-surface temperatures off the coasts of Chile and Peru, i.e. resembling modern El Niño-like conditions.
| S-EPMC6437205 | biostudies-literature
Project description:Although once thought to be devoid of biology, recent studies have identified salt deposits as oases for life in the hyperarid Atacama Desert. To examine spatial patterns of microbial species and key nutrient sources, we genomically characterized 26 salt crusts from three sites along a fog gradient. The communities are dominated by a large variety of Halobacteriales and Bacteroidetes, plus a few algal and Cyanobacterial species. CRISPR locus analysis suggests the distribution of a single Cyanobacterial population among all sites. This is in stark contrast to the extremely high sample specificity of most other community members. Only present at the highest moisture site is a genomically characterized Thermoplasmatales archaeon (Marine Group II) and six Nanohaloarchaea, one of which is represented by a complete genome. Parcubacteria (OD1) and Saccharibacteria (TM7), not previously reported from hypersaline environments, were found at low abundances. We found no indication of a N2 fixation pathway in the communities, suggesting acquisition of bioavailable nitrogen from atmospherically derived nitrate. Samples cluster by site based on bacterial and archaeal abundance patterns and photosynthetic capacity decreases with increasing distance from the ocean. We conclude that moisture level, controlled by coastal fog intensity, is the strongest driver of community membership.
| S-EPMC5532433 | biostudies-literature
Project description:The Loa River is the only perennial artery that crosses the Atacama Desert in northern Chile. It plays an important role in the ecological and economic development of the most water-stressed region, revealing the impact of the mining industry, which exacerbate regional water shortages for many organisms and ecological processes. Despite this, the river system has remained understudied. To our knowledge, this study provides the first effort to attempt to compare the microbial communities at spatial scale along the Loa River, as well as investigate the physicochemical factors that could modulate this important biological component that still remains largely unexplored. The analysis of the spatial bacterial distribution and their interconnections in the water column and sediment samples from eight sites located in three sections along the river catchment (upper, middle and lower) was conducted using 16S rRNA gene-based Illumina MiSeq sequencing. Among a total of 543 ASVs identified at the family level, over 40.5% were cosmopolitan in the river and distributed within a preference pattern by the sediment substrate with 162 unique ASVs, while only 87 were specific to the column water. Bacterial diversity gradually decreased from the headwaters, where the upper section had the largest number of unique families. Distinct groupings of bacterial communities often associated with anthropogenic disturbance, including Burkholderiaceae and Flavobacteriaceae families were predominant in the less-impacted upstream section. Members of the Arcobacteraceae and Marinomonadaceae were prominent in the agriculturally and mining-impacted middle sector while Rhodobacteraceae and Coxiellaceae were most abundant families in downstream sites. Such shifts in the community structure were also related to the influence of salinity, chlorophyll, dissolved oxygen and redox potential. Network analyses corroborated the strong connectivity and modular structure of bacterial communities across this desert river, shedding light on taxonomic relatedness of co-occurring species and highlighting the need for planning the integral conservation of this basin.
| S-EPMC7533063 | biostudies-literature
Project description:BackgroundThe hyperarid core of the Atacama Desert is an extremely harsh environment thought to be colonized by only a few heterotrophic bacterial species. Current concepts for understanding this extreme ecosystem are mainly based on the diversity of these few species, yet a substantial area of the Atacama Desert hyperarid topsoil is covered by expansive boulder accumulations, whose underlying microbiomes have not been investigated so far. With the hypothesis that these sheltered soils harbor uniquely adapted microbiomes, we compared metagenomes and geochemistry between soils below and beside boulders across three distantly located boulder accumulations in the Atacama Desert hyperarid core.ResultsGenome-resolved metagenomics of eleven samples revealed substantially different microbial communities in soils below and beside boulders, despite the presence of shared species. Archaea were found in significantly higher relative abundance below the boulders across all samples within distances of up to 205 km. These key taxa belong to a novel genus of ammonia-oxidizing Thaumarchaeota, Candidatus Nitrosodeserticola. We resolved eight mid-to-high quality genomes of this genus and used comparative genomics to analyze its pangenome and site-specific adaptations. Ca. Nitrosodeserticola genomes contain genes for ammonia oxidation, the 3-hydroxypropionate/4-hydroxybutyrate carbon fixation pathway, and acetate utilization indicating a chemolithoautotrophic and mixotrophic lifestyle. They also possess the capacity for tolerating extreme environmental conditions as highlighted by the presence of genes against oxidative stress and DNA damage. Site-specific adaptations of the genomes included the presence of additional genes for heavy metal transporters, multiple types of ATP synthases, and divergent genes for aquaporins.ConclusionWe provide the first genomic characterization of hyperarid soil microbiomes below the boulders in the Atacama Desert, and report abundant and highly adapted Thaumarchaeaota with ammonia oxidation and carbon fixation potential. Ca. Nitrosodeserticola genomes provide the first metabolic and physiological insight into a thaumarchaeal lineage found in globally distributed terrestrial habitats characterized by various environmental stresses. We consequently expand not only the known genetic repertoire of Thaumarchaeota but also the diversity and microbiome functioning in hyperarid ecosystems. Video Abstract.
| S-EPMC8627038 | biostudies-literature
Project description:We report on a field demonstration of a rover-based drilling mission to search for biomolecular evidence of life in the arid core of the Atacama Desert, Chile. The KREX2 rover carried the Honeybee Robotics 1 m depth The Regolith and Ice Drill for Exploration of New Terrains (TRIDENT) drill and a robotic arm with scoop that delivered subsurface fines to three flight prototype instruments: (1) The Signs of Life Detector (SOLID), a protein and biomolecule analyzer based on fluorescence sandwich microarray immunoassay; (2) the Planetary In Situ Capillary Electrophoresis System (PISCES), an amino acid analyzer based on subcritical water extraction coupled to microchip electrophoresis analysis; and (3) a Wet Chemistry Laboratory cell to measure soluble ions using ion selective electrodes and chronopotentiometry. A California-based science team selected and directed drilling and sampling of three sites separated by hundreds of meters that included a light-toned basin area showing evidence of aqueous activity surrounded by a rocky desert pavement. Biosignatures were detected in basin samples collected at depths ranging from 20 to 80 cm but were not detected in the surrounding area. Subsurface stratigraphy of the units drilled was interpreted from drill sensor data as fine-scale layers of sand/clay sediments interspersed with layers of harder material in the basins and a uniform subsurface composed of course-to-fine sand in the surroundings. The mission timeline and number of commands sent to accomplish each activity were tracked. The deepest sample collected (80 cm) required 55 commands, including drilling and delivery to three instruments. Elapsed time required for drilling and sample handling was less than 3 hours to collect sample from 72 cm depth, including time devoted to recovery from a jammed drill. The experiment demonstrated drilling, sample transfer technologies, and instruments that accomplished successful detection of biomolecular evidence of life in one of the most biologically sparse environments on Earth.
| S-EPMC10750310 | biostudies-literature
Project description:Our understanding of long-term organic matter preservation comes mostly from studies in aquatic systems. In contrast, taphonomic processes in extremely dry environments are relatively understudied and are poorly understood. We investigated the accumulation and preservation of lipid biomarkers in hyperarid soils in the Yungay region of the Atacama Desert. Lipids from seven soil horizons in a 2.5 m vertical profile were extracted and analyzed using GC-MS and LC-MS. Diagnostic functionalized lipids and geolipids were detected and increased in abundance and diversity with depth. Deeper clay units contain fossil organic matter (radiocarbon dead) that has been protected from rainwater since the onset of hyperaridity. We show that these clay units contain lipids in an excellent state of structural preservation with functional groups and unsaturated bonds in carbon chains. This indicates that minimal degradation of lipids has occurred in these soils since the time of their deposition between >40,000 and 2 million years ago. The exceptional structural preservation of biomarkers is likely due to the long-term hyperaridity that has minimized microbial and enzymatic activity, a taphonomic process we term xeropreservation (i.e. preservation by drying). The degree of biomarker preservation allowed us to reconstruct major changes in ecology in the Yungay region that reflect a shift in hydrological regime from wet to dry since the early Quaternary. Our results suggest that hyperarid environments, which comprise 7.5% of the continental landmass, could represent a rich and relatively unexplored source of paleobiological information on Earth.
| S-EPMC5937136 | biostudies-literature