Building essential biodiversity variables (EBV s) of species distribution and abundance at a global scale

WD Kissling, JA Ahumada, A Bowser… - Biological …, 2018 - Wiley Online Library
Much biodiversity data is collected worldwide, but it remains challenging to assemble the
scattered knowledge for assessing biodiversity status and trends. The concept of E ssential …

Towards global data products of Essential Biodiversity Variables on species traits

WD Kissling, R Walls, A Bowser, MO Jones… - Nature ecology & …, 2018 - nature.com
Abstract Essential Biodiversity Variables (EBVs) allow observation and reporting of global
biodiversity change, but a detailed framework for the empirical derivation of specific EBVs …

A communal catalogue reveals Earth's multiscale microbial diversity

LR Thompson, JG Sanders, D McDonald, A Amir… - Nature, 2017 - nature.com
Our growing awareness of the microbial world's importance and diversity contrasts starkly
with our limited understanding of its fundamental structure. Despite recent advances in DNA …

Unraveling the functional dark matter through global metagenomics

GA Pavlopoulos, FA Baltoumas, S Liu, O Selvitopi… - Nature, 2023 - nature.com
Metagenomes encode an enormous diversity of proteins, reflecting a multiplicity of functions
and activities,. Exploration of this vast sequence space has been limited to a comparative …

QIIME 2 enables comprehensive end‐to‐end analysis of diverse microbiome data and comparative studies with publicly available data

M Estaki, L Jiang, NA Bokulich… - Current protocols in …, 2020 - Wiley Online Library
QIIME 2 is a completely re‐engineered microbiome bioinformatics platform based on the
popular QIIME platform, which it has replaced. QIIME 2 facilitates comprehensive and fully …

<? mode longmeta?> SPIRE: a Searchable, Planetary-scale mIcrobiome REsource

TSB Schmidt, A Fullam, P Ferretti, A Orakov… - Nucleic Acids …, 2024 - academic.oup.com
Meta'omic data on microbial diversity and function accrue exponentially in public
repositories, but derived information is often siloed according to data type, study or sampled …

FoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration

DM Dooley, EJ Griffiths, GS Gosal, PL Buttigieg… - npj Science of …, 2018 - nature.com
The construction of high capacity data sharing networks to support increasing government
and commercial data exchange has highlighted a key roadblock: the content of existing …

proGenomes3: approaching one million accurately and consistently annotated high-quality prokaryotic genomes

A Fullam, I Letunic, TSB Schmidt… - Nucleic acids …, 2023 - academic.oup.com
The interpretation of genomic, transcriptomic and other microbial 'omics data is highly
dependent on the availability of well-annotated genomes. As the number of publicly …

Future vision for autonomous ocean observations

C Whitt, J Pearlman, B Polagye, F Caimi… - Frontiers in Marine …, 2020 - frontiersin.org
Autonomous platforms already make observations over a wide range of temporal and spatial
scales, measuring salinity, temperature, nitrate, pressure, oxygen, biomass, and many other …

Guidelines for public database submission of uncultivated virus genome sequences for taxonomic classification

EM Adriaenssens, S Roux, JR Brister… - Nature …, 2023 - nature.com
RNA sequencing approaches, including metagenomics, has led to the discovery of a
multitude of uncultivated virus genome sequences 1–12. These sequences improve our …