Estimating biodiversity across the tree of life on Mount Everest’s southern flank with environmental DNA

Mt. Everest’s highest glacier is a sentinel for accelerating ice loss

(2022) Mariusz Potocki et al.   npj Climate and Atmospheric Science

To denoise or to cluster, that is not the question: optimizing pipelines for COI metabarcoding and metaphylogeography

(2021) Adrià Antich et al.   BMC BIOINFORMATICS

Multiple‐trophic patterns of primary succession following retreat of a high‐elevation glacier

(2021) Weiming Hu et al.   Ecosphere

Applications of environmental DNA (eDNA) in ecology and conservation: opportunities, challenges and prospects

(2020) Kingsly C. Beng et al.   BIODIVERSITY AND CONSERVATION

Aquatic insect community structure revealed by eDNA metabarcoding derives indices for environmental assessment

(2020) Noriko Uchida et al.   PeerJ

Microbial diversity and soil physiochemical characteristic of higher altitude

(2019) Saurabh Kumar et al.   PLoS One

A review on the applications and recent advances in environmental DNA (eDNA) metagenomics

(2019) Deviram Garlapati et al.   REVIEWS IN ENVIRONMENTAL SCIENCE AND BIO-TECHNOLOGY

The disappearing periglacial ecosystem atop Mt. Kilimanjaro supports both cosmopolitan and endemic microbial communities

(2019) Lara Vimercati et al.   Scientific Reports

Mayflies (Ephemeroptera) and Their Contributions to Ecosystem Services

(2019) Luke M. Jacobus et al.   Insects

COI metabarcoding primer choice affects richness and recovery of indicator taxa in freshwater systems

(2019) Mehrdad Hajibabaei et al.   PLoS One

Holistic pelagic biodiversity monitoring of the Black Sea via eDNA metabarcoding approach: From bacteria to marine mammals

(2019) Yan Zhang et al.   ENVIRONMENT INTERNATIONAL

Life at extreme elevations on Atacama volcanoes: the closest thing to Mars on Earth?

(2018) S. K. Schmidt et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Environmental DNA filtration techniques affect recovered biodiversity

(2018) Markus Majaneva et al.   Scientific Reports

eDNA metabarcoding as a new surveillance approach for coastal Arctic biodiversity

(2018) Anaïs Lacoursière-Roussel et al.   Ecology and Evolution

Taxonomy-free molecular diatom index for high-throughput eDNA biomonitoring

(2017) Laure Apothéloz-Perret-Gentil et al.   Molecular Ecology Resources

Ecosystem biomonitoring with eDNA: metabarcoding across the tree of life in a tropical marine environment

(2017) Michael Stat et al.   Scientific Reports

Long-term monitoring of tropical alpine habitat change, Andean anurans, and chytrid fungus in the Cordillera Vilcanota, Peru: Results from a decade of study

(2017) Tracie A. Seimon et al.   Ecology and Evolution

MultiQC: summarize analysis results for multiple tools and samples in a single report

(2016) Philip Ewels et al.   BIOINFORMATICS

Environmental DNA reveals that rivers are conveyer belts of biodiversity information

(2016) Kristy Deiner et al.   Nature Communications

Environmental DNA – An emerging tool in conservation for monitoring past and present biodiversity

(2015) Philip Francis Thomsen et al.   BIOLOGICAL CONSERVATION

Long-distance dispersal during the middle-late Pleistocene explains the bipolar disjunction ofCarex maritima(Cyperaceae)

(2015) Tamara Villaverde et al.   JOURNAL OF BIOGEOGRAPHY

Soup to Tree: The Phylogeny of Beetles Inferred by Mitochondrial Metagenomics of a Bornean Rainforest Sample

(2015) Alex Crampton-Platt et al.   MOLECULAR BIOLOGY AND EVOLUTION

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

(2015) Nuala A. O'Leary et al.   NUCLEIC ACIDS RESEARCH

Simultaneous assessment of the macrobiome and microbiome in a bulk sample of tropical arthropods through DNA metasystematics

(2014) J. Gibson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Towards next-generation biodiversity assessment using DNA metabarcoding

(2012) PIERRE TABERLET et al.   MOLECULAR ECOLOGY

Assessing biodiversity of a freshwater benthic macroinvertebrate community through non-destructive environmental barcoding of DNA from preservative ethanol

(2012) Mehrdad Hajibabaei et al.   BMC ECOLOGY

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

The NCBI Taxonomy database

(2011) S. Federhen   NUCLEIC ACIDS RESEARCH

How Many Species Are There on Earth and in the Ocean?

(2011) Camilo Mora et al.   PLOS BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Bacterial diversity in the snow over Tibetan Plateau Glaciers

(2009) Yongqin Liu et al.   EXTREMOPHILES

Identification of mosquito bloodmeals using mitochondrialcytochrome oxidase subunit Iandcytochrome bgene sequences

(2008) J. S. TOWNZEN et al.   MEDICAL AND VETERINARY ENTOMOLOGY

Impact of a Century of Climate Change on Small-Mammal Communities in Yosemite National Park, USA

(2008) C. Moritz et al.   SCIENCE