List of works - Holly M. Bik

PhyloSift: phylogenetic analysis of genomes and metagenomes

scientific article published on 9 January 2014

Sequencing our way towards understanding global eukaryotic biodiversity

scientific article (publication date: April 2012)

Environmental DNA metabarcoding: Transforming how we survey animal and plant communities.

scientific article published on 16 September 2017

Metagenetic community analysis of microbial eukaryotes illuminates biogeographic patterns in deep-sea and shallow water sediments

scientific article

Microbiota of the indoor environment: a meta-analysis

scientific article published on 13 October 2015

An introduction to social media for scientists

scientific article

Dramatic shifts in benthic microbial eukaryote communities following the Deepwater Horizon oil spill

scientific article

Evolution of the indoor biome

scientific article published on 11 March 2015

Moving towards a complete molecular framework of the Nematoda: a focus on the Enoplida and early-branching clades

scientific article published on 12 November 2010

Low endemism, continued deep-shallow interchanges, and evidence for cosmopolitan distributions in free-living marine nematodes (order Enoplida).

scientific article

Intra-genomic variation in the ribosomal repeats of nematodes

scientific article

Coexisting cryptic species of the Litoditis marina complex (Nematoda) show differential resource use and have distinct microbiomes with high intraspecific variability

scientific article

The ecologist's field guide to sequence-based identification of biodiversity

scientific article published in 2016

Next-generation phenomics for the Tree of Life

scientific article (publication date: 26 June 2013)

Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient

scientific article (publication date: 13 May 2013)

Acidity promotes degradation of multi-species environmental DNA in lotic mesocosms

article

Molecular diversity of fungal phylotypes co-amplified alongside nematodes from coastal and deep-sea marine environments

scientific article

Meeting report: fungal its workshop (october 2012).

scientific article published on 15 April 2013

A molecular-based approach for examining responses of eukaryotes in microcosms to contaminant-spiked estuarine sediments

scientific article

Ten simple rules for effective online outreach

scientific article

Microbial Community Patterns Associated with Automated Teller Machine Keypads in New York City

scientific article

DNA metabarcoding—Need for robust experimental designs to draw sound ecological conclusions

scientific article published on 29 April 2019

Nematode-associated microbial taxa do not correlate with host phylogeny, geographic region or feeding morphology in marine sediment habitats

scientific article published on 29 March 2018

Let's rise up to unite taxonomy and technology

scientific article

Use of a novel sediment exposure to determine the effects of triclosan on estuarine benthic communities

scientific article published on 10 December 2012

Sample size effects on the assessment of eukaryotic diversity and community structure in aquatic sediments using high-throughput sequencing

scientific article published in Scientific Reports

A critique of Rossberg et al.: Noise obscures the genetic signal of meiobiotal ecospecies in ecogenomic datasets.

scientific article published on 26 March 2014

RCN4GSC Workshop Report: Managing Data at the Interface of Biodiversity and (Meta)Genomics, March 2011.

scientific article

Deciphering diversity and ecological function from marine metagenomes.

scientific article

Microbial Community Succession and Nutrient Cycling Responses following Perturbations of Experimental Saltwater Aquaria

article

Phinch: An interactive, exploratory data visualization framework for –Omic datasets

Rapid decline of PCR amplification from genomic extracts of DESS-preserved, slide-mounted nematodes

microBEnet: Lessons Learned from Building an Interdisciplinary Scientific Community in the Online Sphere

scientific article (publication date: June 2014)

Antarctic ecosystem responses following ice‐shelf collapse and iceberg calving: Science review and future research

scientific article

Metagenomics will highlight and drive links to taxonomic data: reply to Murray

scientific article published in 2012

Just keep it simple? Benchmarking the accuracy of taxonomy assignment software in metabarcoding studies

scientific article published on 16 July 2021

Natural experiments and long-term monitoring are critical to understand and predict marine host-microbe ecology and evolution

publication published on 19 August 2021

Corrigendum

Biodiversity monitoring using environmental DNA

scientific article published in 2021

List of works by Holly M. Bik

PhyloSift: phylogenetic analysis of genomes and metagenomes

Sequencing our way towards understanding global eukaryotic biodiversity

Environmental DNA metabarcoding: Transforming how we survey animal and plant communities.

Metagenetic community analysis of microbial eukaryotes illuminates biogeographic patterns in deep-sea and shallow water sediments

Microbiota of the indoor environment: a meta-analysis

An introduction to social media for scientists

Dramatic shifts in benthic microbial eukaryote communities following the Deepwater Horizon oil spill

Evolution of the indoor biome

Moving towards a complete molecular framework of the Nematoda: a focus on the Enoplida and early-branching clades

Low endemism, continued deep-shallow interchanges, and evidence for cosmopolitan distributions in free-living marine nematodes (order Enoplida).

Intra-genomic variation in the ribosomal repeats of nematodes

Coexisting cryptic species of the Litoditis marina complex (Nematoda) show differential resource use and have distinct microbiomes with high intraspecific variability

The ecologist's field guide to sequence-based identification of biodiversity

Next-generation phenomics for the Tree of Life

Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient

Acidity promotes degradation of multi-species environmental DNA in lotic mesocosms

Molecular diversity of fungal phylotypes co-amplified alongside nematodes from coastal and deep-sea marine environments

Meeting report: fungal its workshop (october 2012).

A molecular-based approach for examining responses of eukaryotes in microcosms to contaminant-spiked estuarine sediments

Ten simple rules for effective online outreach

Microbial Community Patterns Associated with Automated Teller Machine Keypads in New York City

DNA metabarcoding—Need for robust experimental designs to draw sound ecological conclusions

Nematode-associated microbial taxa do not correlate with host phylogeny, geographic region or feeding morphology in marine sediment habitats

Let's rise up to unite taxonomy and technology

Use of a novel sediment exposure to determine the effects of triclosan on estuarine benthic communities

Sample size effects on the assessment of eukaryotic diversity and community structure in aquatic sediments using high-throughput sequencing

A critique of Rossberg et al.: Noise obscures the genetic signal of meiobiotal ecospecies in ecogenomic datasets.

RCN4GSC Workshop Report: Managing Data at the Interface of Biodiversity and (Meta)Genomics, March 2011.

Deciphering diversity and ecological function from marine metagenomes.

Microbial Community Succession and Nutrient Cycling Responses following Perturbations of Experimental Saltwater Aquaria

Phinch: An interactive, exploratory data visualization framework for –Omic datasets

Rapid decline of PCR amplification from genomic extracts of DESS-preserved, slide-mounted nematodes

microBEnet: Lessons Learned from Building an Interdisciplinary Scientific Community in the Online Sphere

Antarctic ecosystem responses following ice‐shelf collapse and iceberg calving: Science review and future research

Metagenomics will highlight and drive links to taxonomic data: reply to Murray

Just keep it simple? Benchmarking the accuracy of taxonomy assignment software in metabarcoding studies

Natural experiments and long-term monitoring are critical to understand and predict marine host-microbe ecology and evolution

Corrigendum

Biodiversity monitoring using environmental DNA

Digital Environmentalism: Tools and Strategies for the Evolving Online Ecosystem

Molecular ecology of microbiomes in the wild: Common pitfalls, methodological advances and future directions

Perspective: Biodiversity and the (data) beast

Insights into Ecological &amp; Evolutionary Processes via community metabarcoding

Microbial Metazoa Are Microbes Too

Small worms, big ideas: evolutionary inferences from nematode DNA

The principles of tomorrow's university

Insights into Ecological & Evolutionary Processes via community metabarcoding