Embracing the unknown: disentangling the complexities of the soil microbiome

Nature Reviews Microbiology, Год журнала: 2017, Номер 15(10), С. 579 - 590

Опубликована: Авг. 21, 2017

Язык: Английский

---

A global atlas of the dominant bacteria found in soil

Science, Год журнала: 2018, Номер 359(6373), С. 320 - 325

Опубликована: Янв. 18, 2018

The immense diversity of soil bacterial communities has stymied efforts to characterize individual taxa and document their global distributions. We analyzed soils from 237 locations across six continents found that only 2% phylotypes (~500 phylotypes) consistently accounted for almost half the worldwide. Despite overwhelming communities, relatively few are abundant in globally. clustered these dominant into ecological groups build first atlas taxa. Our study narrows down number a "most wanted" list will be fruitful targets genomic cultivation-based aimed at improving our understanding microbes contributions ecosystem functioning.

Язык: Английский

---

Consistent responses of soil microbial communities to elevated nutrient inputs in grasslands across the globe

Proceedings of the National Academy of Sciences, Год журнала: 2015, Номер 112(35), С. 10967 - 10972

Опубликована: Авг. 17, 2015

Significance Human activities have resulted in large increases the availability of nutrients terrestrial ecosystems worldwide. Although plant community responses to elevated been well studied, soil microbial remain poorly understood, despite their critical importance ecosystem functioning. Using DNA-sequencing approaches, we assessed response communities experimentally added nitrogen and phosphorus at 25 grassland sites across globe. Our results demonstrate that composition these shifts consistent ways with nutrient inputs there are corresponding ecological attributes members. This study represents an important step forward for understanding connection between inputs, communities, altered

Язык: Английский

---

Increasing aridity reduces soil microbial diversity and abundance in global drylands

Proceedings of the National Academy of Sciences, Год журнала: 2015, Номер 112(51), С. 15684 - 15689

Опубликована: Дек. 8, 2015

Soil bacteria and fungi play key roles in the functioning of terrestrial ecosystems, yet our understanding their responses to climate change lags significantly behind that other organisms. This gap is particularly true for drylands, which occupy ∼41% Earth´s surface, because no global, systematic assessments joint diversity soil have been conducted these environments date. Here we present results from a study across 80 dryland sites all continents, except Antarctica, assess how changes aridity affect composition, abundance, fungi. The abundance was reduced as increased. These were largely driven by negative impacts on organic carbon content, positively affected both Aridity promoted shifts composition bacteria, with increases relative Chloroflexi α-Proteobacteria decreases Acidobacteria Verrucomicrobia. Contrary what has reported previous continental global-scale studies, pH not major driver bacterial diversity, fungal communities dominated Ascomycota. Our fill critical microbial ecosystems. They suggest aridity, such those predicted climate-change models, may reduce response will likely impact provision ecosystem services global drylands.

Язык: Английский

---

The global soil community and its influence on biogeochemistry

Science, Год журнала: 2019, Номер 365(6455)

Опубликована: Авг. 23, 2019

Soil organisms represent the most biologically diverse community on land and govern turnover of largest organic matter pool in terrestrial biosphere. The highly complex nature these communities at local scales has traditionally obscured efforts to identify unifying patterns global soil biodiversity biogeochemistry. As a result, environmental covariates have generally been used as proxy variation activity biogeochemical models. Yet over past decade, broad-scale studies begun see this heterogeneity biomass, diversity, composition certain groups across globe. These provide new insights into fundamental distribution dynamics land.

Язык: Английский

---

Multiple elements of soil biodiversity drive ecosystem functions across biomes

Nature Ecology & Evolution, Год журнала: 2020, Номер 4(2), С. 210 - 220

Опубликована: Фев. 3, 2020

Язык: Английский

---

Relic DNA is abundant in soil and obscures estimates of soil microbial diversity

Nature Microbiology, Год журнала: 2016, Номер 2(3)

Опубликована: Дек. 19, 2016

Язык: Английский

---

Environmental DNA

Oxford University Press eBooks, Год журнала: 2018, Номер unknown

Опубликована: Фев. 15, 2018

Abstract Environmental DNA (eDNA), i.e. released in the environment by any living form, represents a formidable opportunity to gather high-throughput and standard information on distribution or feeding habits of species. It has therefore great potential for applications ecology biodiversity management. However, this research field is fast-moving, involves different areas expertise currently lacks approaches, which calls an up-to-date comprehensive synthesis. monitoring covers current methods based eDNA, with particular focus “eDNA metabarcoding”. Intended scientists managers, it provides background allow design sound experiments. revisits all steps necessary produce high-quality metabarcoding data such as sampling, metabarcode design, optimization PCR sequencing protocols, well analysis large datasets. All these are presented discussing challenges eDNA-based approaches infer parameters ecological processes. The last chapters book review how been used so far unravel novel patterns diversity space time, detect species, answer new questions various ecosystems organisms. constitutes essential reading graduate students, researchers practitioners who do not have strong molecular genetics willing use eDNA biomonitoring.

Язык: Английский

---

Compact graphical representation of phylogenetic data and metadata with GraPhlAn

PeerJ, Год журнала: 2015, Номер 3, С. e1029 - e1029

Опубликована: Июнь 18, 2015

The increased availability of genomic and metagenomic data poses challenges at multiple analysis levels, including visualization very large-scale microbial community paired with rich metadata. We developed GraPhlAn (Graphical Phylogenetic Analysis), a computational tool that produces high-quality, compact visualizations genomes metagenomes. This includes phylogenies spanning up to thousands taxa, annotated metadata ranging from abundances physiology or host environmental phenotypes. has been as an open-source command-driven in order be easily integrated into complex, publication-quality bioinformatics pipelines. It can executed either locally through online Galaxy web application. present several examples taxonomic phylogenetic communities, metabolic functions, biomarker discovery illustrate GraPhlAn’s potential for modern genomics.

Язык: Английский

---

Soil biodiversity and human health

Nature, Год журнала: 2015, Номер 528(7580), С. 69 - 76

Опубликована: Ноя. 23, 2015

Язык: Английский

---