A review of methods and databases for metagenomic classification and assembly

FP Breitwieser, J Lu, SL Salzberg - Briefings in bioinformatics, 2019 - academic.oup.com
Microbiome research has grown rapidly over the past decade, with a proliferation of new
methods that seek to make sense of large, complex data sets. Here, we survey two of the …

Scaling biodiversity responses to hydrological regimes

RJ Rolls, J Heino, DS Ryder, BC Chessman… - Biological …, 2018 - Wiley Online Library
Of all ecosystems, freshwaters support the most dynamic and highly concentrated
biodiversity on Earth. These attributes of freshwater biodiversity along with increasing …

[HTML][HTML] A conceptual guide to measuring species diversity

M Roswell, J Dushoff, R Winfree - Oikos, 2021 - Wiley Online Library
Three metrics of species diversity–species richness, the Shannon index and the Simpson
index–are still widely used in ecology, despite decades of valid critiques leveled against …

Biodiversity response to forest structure and management: Comparing species richness, conservation relevant species and functional diversity as metrics in forest …

C Lelli, HH Bruun, A Chiarucci, D Donati… - Forest Ecology and …, 2019 - Elsevier
Aim We investigated the consistency between richness and trait-based diversity metrics in
capturing the effects of management-related habitat factors on biodiversity. The choice of …

Sputum microbiome is associated with 1-year mortality after chronic obstructive pulmonary disease hospitalizations

FS Leitao Filho, NM Alotaibi, D Ngan… - American journal of …, 2019 - atsjournals.org
Rationale: Lung dysbiosis promotes airway inflammation and decreased local immunity,
potentially playing a role in the pathogenesis of acute exacerbations of chronic obstructive …

The species pool concept as a framework for studying patterns of plant diversity

M Zobel - Journal of Vegetation Science, 2016 - Wiley Online Library
Co‐existence theories fail to adequately explain observed community patterns (diversity and
composition) because they mainly address local extinctions. For a more complete …

An empirically derived method for measuring human gut microbiome alpha diversity: Demonstrated utility in predicting health-related outcomes among a human …

SL Hagerty, KE Hutchison, CA Lowry, AD Bryan - Plos one, 2020 - journals.plos.org
The human gut microbiome has emerged as a potential key factor involved in the
manifestation of physical and mental health. Despite an explosion of cross-disciplinary …

Hotspots within hotspots: Endemic plant richness, environmental drivers, and implications for conservation

EM Cañadas, G Fenu, J Peñas, J Lorite, E Mattana… - Biological …, 2014 - Elsevier
Detecting smaller hotspots within larger hotspots could be an essential tool to focus
conservation efforts. In this study, we identified hotspots at two scales of analysis within the …

The potential of cleptoparasitic bees as indicator taxa for assessing bee communities

CS Sheffield, A Pindar, L Packer, PG Kevan - Apidologie, 2013 - Springer
Many factors affect bee diversity and abundance, and knowledge of these is crucial for
maintaining healthy bee communities. However, there are few means to fully evaluate the …

Meta-studies in land use science: Current coverage and prospects

J Van Vliet, NR Magliocca, B Büchner, E Cook… - Ambio, 2016 - Springer
Land use science has traditionally used case-study approaches for in-depth investigation of
land use change processes and impacts. Meta-studies synthesize findings across case …