cran: metacoder | Projects | Ecosyste.ms: Papers

10.1038/s41396-020-00814-9

Food or just a free ride? A meta-analysis reveals the global diversity of the Plastisphere
Cited by: 96
Author(s): Robyn J. Wright, Morgan G. I. Langille, Tony R. Walker
Software Mentions: 23
Published: almost 4 years ago

10.1186/s40168-021-01100-2

Microbiota long-term dynamics and prediction of acute graft-versus-host disease in pediatric allogeneic stem cell transplantation
Cited by: 31
Author(s): Anna Cäcilia Ingham, Katrine Kielsen, Hanne Mordhorst, Marianne Ifversen, Frank Møller Aarestrup, Klaus Müller, Sünje Johanna Pamp
Software Mentions: 18
Published: about 3 years ago

10.12688/f1000research.27268.1

rANOMALY: AmplicoN wOrkflow for Microbial community AnaLYsis
Cited by: 16
Author(s): Sébastien Theil, Étienne Rifa
Software Mentions: 16
Published: over 3 years ago

10.12688/f1000research.14013.2

Taxa: An R package implementing data standards and methods for taxonomic data
Cited by: 23
Author(s): Zachary Foster, Scott Chamberlain, Niklaus J. Grünwald
Software Mentions: 12
Published: about 6 years ago

10.1371/journal.pcbi.1005404

Metacoder: An R package for visualization and manipulation of community taxonomic diversity data
Cited by: 437
Author(s): Zachary Foster, Thomas J. Sharpton, Niklaus J. Grünwald
Software Mentions: 12
Published: over 7 years ago

10.3389/fmicb.2019.02291

Reduced Gut Microbiome Diversity and Metabolome Differences in Rhinoceros Species at Risk for Iron Overload Disorder
Cited by: 25
Author(s): Terri L. Roth, Alexandra D. Switzer, Miki Watanabe-Chailland, Elisabeth M. Bik, David A. Relman, Lindsey E. Romick-Rosendale, Nicholas J. Ollberding
Software Mentions: 11
Published: almost 5 years ago

10.3389/fmicb.2021.657508

Land-Use System and Forest Floor Explain Prokaryotic Metacommunity Structuring and Spatial Turnover in Amazonian Forest-to-Pasture Conversion Areas
Cited by: 3
Author(s): Fernando Igne Rocha, Thiago Gonçalves Ribeiro, Marcelo Antoniol Fontes, Stefan Schwab, Márcia Reed Rodrigues Coelho, J. F. Lumbreras, P. E. F. da Motta, W. G. Teixeira, James R. Cole, Ana Carolina Borsanelli, Iveraldo S. Dutra, Adina Howe, Aline Pacobahyba de Oliveira, Ederson da Conceição Jesus
Software Mentions: 10
Published: over 3 years ago

10.1038/s41598-021-92648-4

Transmitting silks of maize have a complex and dynamic microbiome
Cited by: 5
Author(s): Eman M. Khalaf, Anuja Shrestha, Jeffrey Rinne, Michael D. J. Lynch, Charles Shearer, Victor Limay-Rios, L. M. Reid, Manish N. Raizada
Software Mentions: 9
Published: about 3 years ago

10.3390/microorganisms9061313

Influential Insider: Wolbachia, an Intracellular Symbiont, Manipulates Bacterial Diversity in Its Insect Host
Cited by: 5
Author(s): Morgane Ourry, Agathe Crosland, Valérie Lopez, Stéphane A. P. Derocles, Christophe Mougel, Anne‐Marie Cortesero, Denis Poinsot
Software Mentions: 9
Published: over 3 years ago

10.1111/mec.15484

Environmental DNA surveys detect distinct metazoan communities across abyssal plains and seamounts in the western Clarion Clipperton Zone
Cited by: 43
Author(s): Olivier Laroche, Oliver Kersten, Craig R. Smith, Erica Goetze
Software Mentions: 8
Published: over 4 years ago

10.1186/s12931-020-01392-2

Characterisation of microbiota in saliva, bronchoalveolar lavage fluid, non-malignant, peritumoural and tumour tissue in non-small cell lung cancer patients: a cross-sectional clinical trial
Cited by: 27
Author(s): Rea Bingula, Edith Filaire, Ioana Molnar, Eve Delmas, Jean‐Yves Berthon, Marie‐Paule Vasson, Annick Bernalier-Donadille, Marc Filaire
Software Mentions: 7
Published: about 4 years ago

10.1038/s41598-019-54532-0

Variations in terrestrial arthropod DNA metabarcoding methods recovers robust beta diversity but variable richness and site indicators
Cited by: 19
Author(s): Teresita M. Porter, Dave M. Morris, Nathan Basiliko, Mehrdad Hajibabaei, Daniel Doucet, Susan Bowman, Erik J. S. Emilson, Caroline E. Emilson, Derek Chartrand, Kerrie L. Wainio-Keizer, Armand Séguin, Lisa Venier
Software Mentions: 7
Published: almost 5 years ago

10.3389/fpls.2019.01405

Fungicides and the Grapevine Wood Mycobiome: A Case Study on Tracheomycotic Ascomycete Phaeomoniella chlamydospora Reveals Potential for Two Novel Control Strategies
Cited by: 16
Author(s): Giovanni Del Frari, Alex Gobbi, Marie Rønne Aggerbeck, Helena Oliveira, Lars Hestbjerg Hansen, Ricardo B. Ferreira
Software Mentions: 7
Published: almost 5 years ago

10.1186/s13071-019-3761-8

Regional biogeography of microbiota composition in the Chagas disease vector Rhodnius pallescens
Cited by: 15
Author(s): Troy J. Kieran, Kaylee M. H. Arnold, Jesse C. Thomas, Christina P. Varian, Azäel Saldaña, José E. Calzada, Nicole L. Gottdenker
Software Mentions: 6
Published: almost 5 years ago

10.1186/s42523-021-00084-6

Probiotics mediated gut microbiota diversity shifts are associated with reduction in histopathology and shedding of Lawsonia intracellularis
Cited by: 5
Author(s): Adrian Muwonge, Anbu K. Karuppannan, Tanja Opriessnig
Software Mentions: 5
Published: over 3 years ago

10.3390/microorganisms9091803

Phytate and Microbial Suspension Amendments Increased Soybean Growth and Shifted Microbial Community Structure
Cited by: 5
Author(s): Boshir Ahmed, Jean-Baptiste Floc’h, Lahrach Zakaria, Mohamed Hijri
Software Mentions: 5
Published: about 3 years ago

10.1093/femsec/fiy225

Highly competitive fungi manipulate bacterial communities in decomposing beech wood (<i>Fagus sylvatica</i>)
Cited by: 29
Author(s): Sarah Johnston, Jennifer Hiscox, Melanie Savoury, Lynne Boddy, Andrew J. Weightman
Software Mentions: 5
Published: almost 6 years ago

10.3390/insects11090645

Diet Breadth Affects Bacterial Identity but Not Diversity in the Pollen Provisions of Closely Related Polylectic and Oligolectic Bees
Cited by: 10
Author(s): Jason A. Rothman, Diana Cox-Foster, Corey J. Andrikopoulos, Quinn S. McFrederick
Software Mentions: 4
Published: almost 4 years ago

10.1038/s41597-020-00752-3

Soil bacterial community structures in relation to different oil palm management practices
Cited by: 11
Author(s): Dirk Hölscher, Dominik Schneider, Nina Hennings, Anja Meryandini, Rolf Daniel
Software Mentions: 4
Published: almost 4 years ago

10.1016/j.csbj.2021.02.003

Uncharted territories in the discovery of antifungal and antivirulence natural products from bacteria
Cited by: 5
Author(s): Raghav Vij, Bernhard Hube, Sascha Brunke
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-020-80602-9

Assessing the efficacy of eDNA metabarcoding for measuring microbial biodiversity within forest ecosystems
Cited by: 11
Author(s): Zachary S. Ladin, Barbra D. Ferrell, Jacob T. Dums, Moore Rm, Delphis F. Levia, W. Gregory Shriver, Vincent D’Amico, Tara L. E. Trammell, João Carlos Setúbal, K. Eric Wommack
Software Mentions: 3
Published: over 3 years ago

10.1186/s40168-020-0789-0

Community recovery dynamics in yellow perch microbiome after gradual and constant metallic perturbations
Cited by: 20
Author(s): Bachar Cheaib, Hamza Seghouani, Umer Zeeshan Ijaz, Nicolas Derôme
Software Mentions: 3
Published: over 4 years ago

10.1002/ece3.6688

Examining the molecular mechanisms contributing to the success of an invasive species across different ecosystems
Cited by: 0
Author(s): Sarah K. Lamar, Ian Beddows, Charlyn Partridge
Software Mentions: 3
Published: about 4 years ago

10.1371/journal.pone.0248147

Influence of industry standard feeding frequencies on behavioral patterns and rumen and fecal bacterial communities in Holstein and Jersey cows
Cited by: 5
Author(s): Vanessa M. De La Guardia-Hidrogo, Henry A. Paz
Software Mentions: 3
Published: over 3 years ago

10.3389/fmicb.2020.615659

Regional Diversity of Maritime Antarctic Soil Fungi and Predicted Responses of Guilds and Growth Forms to Climate Change
Cited by: 13
Author(s): Kevin K. Newsham, Marie L. Davey, D. W. Hopkins, Paul G. Dennis
Software Mentions: 3
Published: over 3 years ago

10.1111/eva.13166

Incipient resistance to an effective pesticide results from genetic adaptation and the canalization of gene expression
Cited by: 12
Author(s): Xiaoshen Yin, Alexander S. Martinez, Abigail Perkins, Morgan Sparks, Avril M. Harder, Janna R. Willoughby, Marı́a S. Sepúlveda, Mark R. Christie
Software Mentions: 2
Published: almost 4 years ago

10.3389/fmicb.2020.573969

A Longitudinal Study of the Human Oropharynx Microbiota Over Time Reveals a Common Core and Significant Variations With Self-Reported Disease
Cited by: 8
Author(s): Lydia Luise Bach, Asha Ram, Umer Zeeshan Ijaz, Thomas J. Evans, Jan Lindström
Software Mentions: 2
Published: over 3 years ago

10.3389/fpls.2020.572199

Changes in the Microbiome in the Soil of an American Ginseng Continuous Plantation
Cited by: 35
Author(s): Ji‐Guang Zhang, Shaohui Fan, Jun Qin, Jichen Dai, Fang‐Jie Zhao, Liqiang Gao, Xihong Lian, Wenjing Shang, Xiangming Xu, Xiaoping Hu
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-018-32221-8

The human gut pan-microbiome presents a compositional core formed by discrete phylogenetic units
Cited by: 25
Author(s): Daniel Aguirre de Cárcer
Software Mentions: 2
Published: almost 6 years ago

10.3390/microorganisms8122040

Comparative Gut Microbiome Differences between Ferric Citrate and Calcium Carbonate Phosphate Binders in Patients with End-Stage Kidney Disease
Cited by: 16
Author(s): Ping Wu, Po-Yu Liu, Ya Wen Chiu, Wen Chun Hung, Yi Ting Lin, Ting Yun Lin, Szu Chun Hung, Rachel Ann Delicano, Mei Chuan Kuo, Chun Ying Wu
Software Mentions: 2
Published: over 3 years ago

10.1186/s12864-021-07553-x

Rapid genetic adaptation to recently colonized environments is driven by genes underlying life history traits
Cited by: 8
Author(s): Xiaoshen Yin, Alexander S. Martinez, Marı́a S. Sepúlveda, Mark R. Christie
Software Mentions: 2
Published: over 3 years ago

10.1080/20002297.2019.1654786

Metaproteomics analysis of microbial diversity of human saliva and tongue dorsum in young healthy individuals
Cited by: 24
Author(s): Alexander Rabe, Manuela Gesell Salazar, Stephan Michalik, Stephan Fuchs, Alexander Welk, Thomas Kocher, Uwe Völker
Software Mentions: 1
Published: over 5 years ago

Ecosyste.ms: Papers

Projects: cran: metacoder

Papers Mentioning metacoder 32