Linking microbial community structure and microbial processes: an empirical and conceptual overview

RL Bier, ES Bernhardt, CM Boot… - FEMS microbiology …, 2015 - academic.oup.com
A major goal of microbial ecology is to identify links between microbial community structure
and microbial processes. Although this objective seems straightforward, there are …

Branching out: towards a trait-based understanding of fungal ecology

CA Aguilar-Trigueros, S Hempel, JR Powell… - Fungal Biology …, 2015 - Elsevier
Fungal ecology lags behind in the use of traits (ie phenotypic characteristics) to understand
ecological phenomena. We argue that this is a missed opportunity and that the selection and …

Can DNA-based ecosystem assessments quantify species abundance? Testing primer bias and biomass—sequence relationships with an innovative metabarcoding …

V Elbrecht, F Leese - PloS one, 2015 - journals.plos.org
Metabarcoding is an emerging genetic tool to rapidly assess biodiversity in ecosystems. It
involves high-throughput sequencing of a standard gene from an environmental sample and …

Specialized microbiome of a halophyte and its role in helping non-host plants to withstand salinity

Z Yuan, IS Druzhinina, J Labbé, R Redman, Y Qin… - Scientific reports, 2016 - nature.com
Root microbiota is a crucial determinant of plant productivity and stress tolerance. Here, we
hypothesize that the superior halo-tolerance of seepweed Suaeda salsa is tightly linked to a …

Interactive effects of global change drivers as determinants of the link between soil biodiversity and ecosystem functioning

A Berlinches de Gea, Y Hautier… - Global Change …, 2023 - Wiley Online Library
Biodiversity, both aboveground and belowground, is negatively affected by global changes
such as drought or warming. This loss of biodiversity impacts Earth's ecosystems, as there is …

Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform

C Wen, L Wu, Y Qin, JD Van Nostrand, D Ning, B Sun… - PloS one, 2017 - journals.plos.org
Illumina's MiSeq has become the dominant platform for gene amplicon sequencing in
microbial ecology studies; however, various technical concerns, such as reproducibility, still …

Ecology in the age of DNA barcoding: the resource, the promise and the challenges ahead

S Joly, TJ Davies, A Archambault… - Molecular Ecology …, 2014 - Wiley Online Library
Ten years after DNA barcoding was initially suggested as a tool to identify species, millions
of barcode sequences from more than 1100 species are available in public databases …

Signal and noise in metabarcoding data

Z Gold, AO Shelton, HR Casendino, J Duprey… - Plos one, 2023 - journals.plos.org
Metabarcoding is a powerful molecular tool for simultaneously surveying hundreds to
thousands of species from a single sample, underpinning microbiome and environmental …

No favorable effect of reduced tillage on microbial community diversity in a silty loam soil (Belgium)

F Degrune, N Theodorakopoulos, M Dufrêne… - Agriculture, Ecosystems …, 2016 - Elsevier
Among the soil management practices used to promote sustainable agriculture, reduced
tillage and retention of residues from the previous crop are reported to enhance significantly …

Nitrate and ammonium fluxes to diatoms and dinoflagellates at a single cell level in mixed field communities in the sea

M Olofsson, EK Robertson, L Edler, L Arneborg… - Scientific Reports, 2019 - nature.com
Growth of large phytoplankton is considered to be diffusion limited at low nutrient
concentrations, yet their constraints and contributions to carbon (C) and nitrogen fluxes in …