cran: PERMANOVA | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2021.706214

Dietary Exposure of Pacific Oyster (Crassostrea gigas) Larvae to Compromised Microalgae Results in Impaired Fitness and Microbiome Shift
Cited by: 5
Author(s): Julien Vignier, Olivier Laroche, Anne Rolton, Pandora Wadsworth, K. Kumanan, Branwen Trochel, Xavier Pochon, Nathan King
Software Mentions: 10
Published: about 3 years ago

10.1128/mSphere.00334-20

Extreme Viral Partitioning in a Marine-Derived High Arctic Lake
Cited by: 13
Author(s): Myriam Labbé, Catherine Girard, Warwick F. Vincent, Alexander I. Culley
Software Mentions: 10
Published: over 4 years ago

10.7554/eLife.65088

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3
Cited by: 604
Author(s): Francesco Beghini, Lauren J. McIver, Aitor Blanco-Míguez, Léonard Dubois, Francesco Asnicar, Sagun Maharjan, Ana Mailyan, Paolo Manghi, Matthias Scholz, Andrew Maltez Thomas, Mireia Vallès-Colomer, George Weingart, Yancong Zhang, Moreno Zolfo, Curtis Huttenhower, Eric A. Franzosa, Nicola Segata
Software Mentions: 10
Published: over 3 years ago

10.1371/journal.pbio.2005396

Gut microbiome transition across a lifestyle gradient in Himalaya
Cited by: 109
Author(s): Aashish R. Jha, Emily Davenport, Yoshina Gautam, Dinesh Bhandari, Sarmila Tandukar, Katharine M. Ng, Gabriela K. Fragiadakis, Susan Holmes, Guru Prasad Gautam, Jeff D. Leach, Jeevan Bahadur Sherchand, Carlos D. Bustamante, Justin L. Sonnenburg
Software Mentions: 10
Published: about 6 years ago

10.3389/fmicb.2021.642543

Patterns of Microbiome Variation Among Infrapopulations of Permanent Bloodsucking Parasites
Cited by: 6
Author(s): Jorge Doña, Stephany Virrueta Herrera, Tommi Nyman, Mervi Kunnasranta, Kevin P. Johnson
Software Mentions: 10
Published: over 3 years ago

10.3389/fmicb.2019.02476

Characterization of the Mycobiome of the Seagrass, Zostera marina, Reveals Putative Associations With Marine Chytrids
Cited by: 29
Author(s): Cassandra L. Ettinger, Jonathan A. Eisen
Software Mentions: 10
Published: about 5 years ago

10.3389/fmicb.2021.643730

Particle Collection in Imhoff Sedimentation Cones Enriches Both Motile Chemotactic and Particle-Attached Bacteria
Cited by: 8
Author(s): Anneke Heins, Greta Reintjes, Rudolf Amann, Jens Harder
Software Mentions: 10
Published: over 3 years ago

10.3389/fpls.2020.00136

The Bacterial Microbiome of Meloidogyne-Based Disease Complex in Coffee and Tomato
Cited by: 17
Author(s): Araceli Lamelas, Damaris Desgarennes, Daniel López-Lima, Luc Villain, Alexandro Alonso-Sánchez, Alejandro Artacho, Amparo Latorre, Andrés Moya, Gloria Carrión
Software Mentions: 10
Published: over 4 years ago

10.1186/s40168-019-0647-0

Protist communities are more sensitive to nitrogen fertilization than other microorganisms in diverse agricultural soils
Cited by: 218
Author(s): Zhi Bo Zhao, Ji Zheng He, Stefan Geisen, Han Long, Jun Tao Wang, Ju-Pei Shen, Wen Jun Wei, Yun Fang, Pei Pei Li, Limei Zhang
Software Mentions: 10
Published: over 5 years ago

10.3389/fpubh.2018.00235

One Health Relationships Between Human, Animal, and Environmental Microbiomes: A Mini-Review
Cited by: 110
Author(s): Pauline Trinh, Jesse Zaneveld, Sarah Safranek, Peter Rabinowitz
Software Mentions: 10
Published: about 6 years ago

10.1002/ece3.5599

Linking pollen foraging of megachilid bees to their nest bacterial microbiota
Cited by: 29
Author(s): Anna Voulgari‐Kokota, Markus J. Ankenbrand, Gudrun Grimmer, Ingolf Steffan‐Dewenter, Alexander Keller
Software Mentions: 10
Published: about 5 years ago

10.1371/journal.pgen.1008458

Microbial phenotypic heterogeneity in response to a metabolic toxin: Continuous, dynamically shifting distribution of formaldehyde tolerance in Methylobacterium extorquens populations
Cited by: 23
Author(s): Jessica A. Lee, Siavash Riazi, Shahla Nemati, Jannell V. Bazurto, Andreas E. Vasdekis, Benjamin J. Ridenhour, Christopher H. Remien, Christopher J. Marx
Software Mentions: 10
Published: about 5 years ago

10.1038/s41598-020-71663-x

Discovering the indigenous microbial communities associated with the natural fermentation of sap from the cider gum Eucalyptus gunnii
Cited by: 12
Author(s): Cristián Varela, Joanna F. Sundstrom, Kathleen Cuijvers, Vladimir Jiranek, Anthony R. Borneman
Software Mentions: 10
Published: about 4 years ago

10.1038/s41598-020-74952-7

Characterising the effect of crop species and fertilisation treatment on root fungal communities
Cited by: 6
Author(s): Liina Soonvald, Kaire Loit, Eve Runno-Paurson, Alar Astover, Leho Tedersoo
Software Mentions: 9
Published: about 4 years ago

10.1186/s40168-020-00887-w

Gut microbiota modulation with long-chain corn bran arabinoxylan in adults with overweight and obesity is linked to an individualized temporal increase in fecal propionate
Cited by: 73
Author(s): Nguyen K. Nguyen, Edward C. Deehan, Zhengxiao Zhang, Mingliang Jin, Nami Baskota, María Elisa Pérez-Muñoz, Janis Cole, Yunus E. Tunçil, Benjamin Seethaler, Ting Wang, Martine Laville, Nathalie M. Delzenne, Stephan C. Bischoff, Bruce R. Hamaker, Inés Martínez, Dan Knights, Jeffrey A. Bakal, Carla M. Prado, Jens Walter
Software Mentions: 9
Published: over 4 years ago

10.3389/fpls.2019.00910

Characterization of the Wood Mycobiome of Vitis vinifera in a Vineyard Affected by Esca. Spatial Distribution of Fungal Communities and Their Putative Relation With Leaf Symptoms
Cited by: 57
Author(s): Giovanni Del Frari, Alex Gobbi, Marie Rønne Aggerbeck, Helena Oliveira, Lars Hestbjerg Hansen, Ricardo B. Ferreira
Software Mentions: 9
Published: over 5 years ago

10.1080/19490976.2021.1957408

Imbalance of the intestinal virome and altered viral-bacterial interactions caused by a conditional deletion of the vitamin D receptor
Cited by: 14
Author(s): Jilei Zhang, Yongguo Zhang, Yinglin Xia, Jun Sun
Software Mentions: 9
Published: almost 4 years ago

10.1007/s00040-018-0624-9

The gut microbiome is associated with behavioural task in honey bees
Cited by: 75
Author(s): Julia C. Jones, Carmelo Fruciano, J. H. Marchant, Falk Hildebrand, Kristoffer Forslund, Peer Bork, Philipp Engel, William O. Hughes
Software Mentions: 9
Published: over 6 years ago

10.1186/s40168-020-00873-2

Climate mediates continental scale patterns of stream microbial functional diversity
Cited by: 22
Author(s): Félix Picazo, Annika Vilmi, Juha Aalto, Janne Soininen, Emilio O. Casamayor, Yongqin Liu, Qinglong L. Wu, Lijuan Ren, Jizhong Zhou, Jian Shen, Jianjun Wang
Software Mentions: 9
Published: over 4 years ago

10.1038/s41598-017-10753-9

Evidence for rangewide panmixia despite multiple barriers to dispersal in a marine mussel
Cited by: 20
Author(s): Carla R. Lourenço, Katy R. Nicastro, Christopher D. McQuaid, Rosa M. Chefaoui, Jorge Assis, M. Taleb, Gerardo I. Zardi
Software Mentions: 9
Published: about 7 years ago

10.1038/s41396-019-0458-0

Virome heterogeneity and connectivity in waterfowl and shorebird communities
Cited by: 53
Author(s): Michelle Wille, Mǎng Shī, Marcel Klaassen, Aeron C. Hurt, Edward C. Holmes
Software Mentions: 9
Published: over 5 years ago

10.3389/fmicb.2021.641643

Temporal Bacterial Community Diversity in the Nicotiana tabacum Rhizosphere Over Years of Continuous Monocropping
Cited by: 10
Author(s): Yan Ling, Wenyou Zhang, Wangjun Duan, Yizheng Zhang, Wen Zheng, Xianjun Lai
Software Mentions: 9
Published: over 3 years ago

10.1002/ece3.2391

Bacteria‐type‐specific biparental immune priming in the pipefishSyngnathus typhle
Cited by: 16
Author(s): Anne Beemelmanns, Olivia Roth
Software Mentions: 9
Published: about 8 years ago

10.1186/s40168-021-01054-5

A multi-OMIC characterisation of biodegradation and microbial community succession within the PET plastisphere
Cited by: 39
Author(s): Robyn J. Wright, Rafael Bosch, Morgan G. I. Langille, Matthew I. Gibson, Joseph Alexander Christie-Oleza
Software Mentions: 9
Published: over 3 years ago

10.1002/ece3.6079

Species specificity and intraspecific variation in the chemical profiles of Heliconius butterflies across a large geographic range
Cited by: 28
Author(s): Kathy Darragh, Gabriela Montejo‐Kovacevich, Krzysztof M. Kozak, Colin R. Morrison, Clarisse M. É. Figueiredo, Jonathan Stuart Ready, Camilo Salazar, Mauricio Linares, Kelsey J. R. P. Byers, Richard M. Merrill, W. Owen McMillan, Stefan Schulz, Chris D. Jiggins
Software Mentions: 9
Published: over 4 years ago

10.1371/journal.pone.0220770

Characterizing the soil microbiome and quantifying antibiotic resistance gene dynamics in agricultural soil following swine CAFO manure application
Cited by: 40
Author(s): Edward Lopatto, Jinlyung Choi, Alfredo Colina, Lanying Ma, Adina Howe, Shannon M. Hinsa-Leasure
Software Mentions: 9
Published: over 5 years ago

10.3389/fmicb.2021.654135

Gullies and Moraines Are Islands of Biodiversity in an Arid, Mountain Landscape, Asgard Range, Antarctica
Cited by: 3
Author(s): Adam J. Solon, Claire F. Mastrangelo, Lara Vimercati, Pacifica Sommers, John L. Darcy, Eli M. S. Gendron, Dorota L. Porazinska, Steven K. Schmidt
Software Mentions: 9
Published: over 3 years ago

10.1186/s40168-021-01089-8

Remodeling of the maternal gut microbiome during pregnancy is shaped by parity
Cited by: 28
Author(s): Alexander S. F. Berry, Meghann K. Pierdon, Ana M. Misic, Megan C. Sullivan, Kevin T. O’Brien, Ying Chen, Samuel Murray, Lydia A. Ramharack, Robert N. Baldassano, Thomas D. Parsons, Daniel P. Beiting
Software Mentions: 9
Published: over 3 years ago

10.1128/mSphere.00097-18

Influential Parameters for the Analysis of Intracellular Parasite Metabolomics
Cited by: 11
Author(s): Maureen A. Carey, Vincent Covelli, Audrey C. Brown, Gregory L. Medlock, Mareike Haaren, Jessica G. Cooper, Jason A. Papin, Jennifer L. Guler
Software Mentions: 9
Published: over 6 years ago

10.1128/mSphere.00537-20

Gut Microbiota Predict Enterococcus Expansion but Not Vancomycin-Resistant Enterococcus Acquisition
Cited by: 10
Author(s): Rishi Chanderraj, Christopher Brown, Kevin J. Hinkle, Nicole R. Falkowski, Piyush Ranjan, Robert P. Dickson, Robert J. Woods
Software Mentions: 9
Published: almost 4 years ago

10.3389/fmicb.2020.01398

Microbiome Shifts Associated With the Introduction of Wild Atlantic Horseshoe Crabs (Limulus polyphemus) Into a Touch-Tank Exhibit
Cited by: 9
Author(s): Ariel D. Friel, Sean A. Neiswenter, Cale O. Seymour, Lauren Rose Bali, Ginger McNamara, Fabian Leija, Jack Jewell, Brian P. Hedlund
Software Mentions: 9
Published: over 4 years ago

10.1002/ece3.7662

Ant community composition and functional traits in new grassland strips within agricultural landscapes
Cited by: 5
Author(s): Victor Sebastian Scharnhorst, Konrad Fiedler, Thomas Frank, Dietmar Moser, Dominik Rabl, Manuela Brandl, Raja Imran Hussain, Ronnie Walcher, Bea Maas
Software Mentions: 9
Published: over 3 years ago

10.1038/s41598-020-76792-x

Energy depletion and opportunistic microbial colonisation in white syndrome lesions from corals across the Indo-Pacific
Cited by: 3
Author(s): Hillary A. Smith, Jessica A. Conlan, F. Joseph Pollock, Naohiro Wada, Amanda Shore, Julia Yun-Hsuan Hung, Greta S. Aeby, Bette L. Willis, David S. Francis, David G. Bourne
Software Mentions: 9
Published: about 4 years ago

10.3389/fmicb.2019.02320

Saccharomyces cerevisiae Induces Immune Enhancing and Shapes Gut Microbiota in Social Wasps
Cited by: 18
Author(s): Niccolò Meriggi, Monica Di Paola, Francesco Vitali, Damaríz Rivero, Federico Cappa, Francesco Turillazzi, Agnese Gori, Leonardo Dapporto, L. Beani, Stefano Turillazzi, Duccio Cavalieri
Software Mentions: 9
Published: about 5 years ago

10.3389/fmolb.2021.686110

Investigating the Role of Root Exudates in Recruiting Streptomyces Bacteria to the Arabidopsis thaliana Microbiome
Cited by: 14
Author(s): Sarah F. Worsley, Michael C. Macey, Samuel M. M. Prudence, Barrie Wilkinson, J. Colin Murrell, Matthew I. Hutchings
Software Mentions: 9
Published: over 3 years ago

10.3389/fmicb.2018.02711

Land-Use Intensity Rather Than Plant Functional Identity Shapes Bacterial and Fungal Rhizosphere Communities
Cited by: 45
Author(s): Ricardo Schöps, Kezia Goldmann, Katharina Herz, Guillaume Lentendu, Ingo Schöning, Helge Bruelheide, Tesfaye Wubet, François Buscot
Software Mentions: 9
Published: about 6 years ago

10.1002/ece3.5927

Islands in the desert for cavity‐nesting bees and wasps: Ecology, patterns of diversity, and conservation at oases of Baja California Peninsula
Cited by: 4
Author(s): Armando Falcón‐Brindis, María Luisa Jiménez, Ricardo Rodríguez‐Estrella
Software Mentions: 9
Published: almost 5 years ago

10.1038/s41598-021-95778-x

Uneven declines between corals and cryptobenthic fish symbionts from multiple disturbances
Cited by: 6
Author(s): Catheline Y.M. Froehlich, O. Selma Klanten, Martin L. Hing, Mark Dowton, Marian Y. L. Wong
Software Mentions: 9
Published: over 3 years ago

10.1038/s41598-020-59068-2

Tritrophic interactions follow phylogenetic escalation and climatic adaptation
Cited by: 5
Author(s): Alan Kergunteuil, Lauréline Humair, Anne-Laure Maire, María Fernanda Moreno‐Aguilar, Adrienne L. Godschalx, Pilar Catalán, Sergio Rasmann
Software Mentions: 9
Published: almost 5 years ago

10.1038/s41598-019-50540-2

Deciphering bacterial and fungal endophyte communities in leaves of two maple trees with green islands
Cited by: 23
Author(s): Franziska Wemheuer, Bernd Wemheuer, Rolf Daniel, Stefan Vidal
Software Mentions: 9
Published: about 5 years ago

10.3390/toxics9010010

Phylogenetic Integration Reveals the Zebrafish Core Microbiome and Its Sensitivity to Environmental Exposures
Cited by: 18
Author(s): Thomas J. Sharpton, Keaton Stagaman, Michael J. Sieler, Holly K. Arnold, Edward W. Davis
Software Mentions: 9
Published: almost 4 years ago

10.7717/peerj.9017

Population structure and microbial community diversity of two common tetillid sponges in a tropical reef lagoon
Cited by: 10
Author(s): Jake Ivan P. Baquiran, Michael Angelou L. Nada, Niño Posadas, Dana P. Manogan, Patrick C. Cabaitan, Cecilia Conaco
Software Mentions: 9
Published: over 4 years ago

10.1186/s40168-019-0743-1

Comparative analysis of amplicon and metagenomic sequencing methods reveals key features in the evolution of animal metaorganisms
Cited by: 128
Author(s): Philipp Rausch, Malte Rühlemann, Shauni Doms, Shauni Doms, Tal Dagan, Katja Dierking, Hanna Domin, Sebastian Fraune, Jakob von Frieling, Ute Hentschel, Femke Anouska Heinsen, Marc P. Höppner, Martin T. Jahn, Cornelia Jaspers, Kohar Annie B. Kissoyan, Daniela Langfeldt, Ateequr Rehman, Thorsten B.H. Reusch, Thomas Roeder, Ruth A. Schmitz, Hinrich Schulenburg, Ryszard Soluch, Felix Sommer, Eva H. Stukenbrock, Nancy Weiland‐Bräuer, Philip Rosenstiel, André Franke, Thomas C. G. Bosch, John F. Baines
Software Mentions: 9
Published: about 5 years ago

10.1007/s13238-020-00724-8

A practical guide to amplicon and metagenomic analysis of microbiome data
Cited by: 311
Author(s): Yong‐Xin Liu, Yuan Qin, Tong Chen, Meiping Lu, Xubo Qian, Xiaoxuan Guo, Yang Bai
Software Mentions: 9
Published: over 4 years ago

10.3389/fmicb.2020.01536

Low Abundance of Methanotrophs in Sediments of Shallow Boreal Coastal Zones With High Water Methane Concentrations
Cited by: 13
Author(s): Elias Broman, Xiaole Sun, Christian Stranne, Marco Salgado, Stefano Bonaglia, M. C. Geibel, Martin Jakobsson, Alf Norkko, Christoph Humborg, Francisco J. A. Nascimento
Software Mentions: 9
Published: over 4 years ago

10.1186/s40168-020-00977-9

Seasonal shifts in the gut microbiome indicate plastic responses to diet in wild geladas
Cited by: 84
Author(s): Alice Baniel, Katherine R. Amato, Jacinta C. Beehner, Thore J. Bergman, Arianne Mercer, Rachel F. Perlman, Lauren Petrullo, Laurie J Reitsema, Sierra Sams, Amy Lu, Noah Snyder‐Mackler
Software Mentions: 9
Published: almost 4 years ago

10.7717/peerj.2562

Beech cupules as keystone structures for soil fauna
Cited by: 7
Author(s): Nereida Melguizo‐Ruiz, Gerardo Jiménez‐Navarro, Jordi Moya‐Laraño
Software Mentions: 9
Published: about 8 years ago

10.1002/ece3.6221

Effects of captivity, diet, and relocation on the gut bacterial communities of white‐footed mice
Cited by: 18
Author(s): Pauline van Leeuwen, Nadia Mykytczuk, Gabriela F. Mastromonaco, Albrecht I. Schulte‐Hostedde
Software Mentions: 9
Published: over 4 years ago

10.3390/nu13082666

Improvement of Cutaneous Wound Healing via Topical Application of Heat-Killed Lactococcus chungangensis CAU 1447 on Diabetic Mice
Cited by: 20
Author(s): YoHan Nam, Jonghwa Kim, Jihye Baek, Wonyong Kim
Software Mentions: 9
Published: over 3 years ago

10.1186/s42523-021-00118-z

Microbial composition differs between production systems and is associated with growth performance and carcass quality in pigs
Cited by: 5
Author(s): Christian Maltecca, Robert R. Dunn, Yuqing He, Nathan P. McNulty, Constantino Schillebeeckx, Charles V. Schwab, Caleb M Shull, Justin Fix, Francesco Tiezzi
Software Mentions: 9
Published: about 3 years ago

10.3389/fmicb.2018.02452

Comprehensive Longitudinal Microbiome Analysis of the Chicken Cecum Reveals a Shift From Competitive to Environmental Drivers and a Window of Opportunity for Campylobacter
Cited by: 52
Author(s): Umer Zeeshan Ijaz, Lojika Sivaloganathan, Aaron McKenna, Anne Richmond, Carmel Kelly, Mark Linton, Alexandros Ch. Stratakos, Ursula Lavery, Abdi Elmi, Brendan W. Wren, Nick Dorrell, Nicolae Corcionivoschi, Ozan Gundogdu
Software Mentions: 9
Published: about 6 years ago

10.3390/microorganisms8010038

Tomato RNA-seq Data Mining Reveals the Taxonomic and Functional Diversity of Root-Associated Microbiota
Cited by: 13
Author(s): Matteo Chialva, Stefano Ghignone, Mara Novero, Wael N. Hozzein, Luisa Lanfranco, Paola Bonfante
Software Mentions: 9
Published: almost 5 years ago

10.1093/femsec/fiab097

Host species shape the community structure of culturable endophytes in fruits of wild berry species (Vaccinium myrtillus L., Empetrum nigrum L. and Vaccinium vitis-idaea L.)
Cited by: 9
Author(s): Minh-Phuong Nguyen, Kaisa Lehosmaa, Françoise Martz, Janne J. Koskimäki, Anna Maria Pirttilä, Hely Häggman
Software Mentions: 9
Published: over 3 years ago

10.1038/s41598-018-38339-z

Spatial distribution of prokaryotic communities in hypersaline soils
Cited by: 26
Author(s): Blanca Vera-Gargallo, Taniya Roy Chowdhury, Joseph Brown, Sarah Fansler, Ana Durán‐Viseras, Cristina Sánchez‐Porro, Vanessa Bailey, Janet Jansson, António Ventosa
Software Mentions: 9
Published: almost 6 years ago

10.1038/s41396-019-0546-1

Spatial and temporal axes impact ecology of the gut microbiome in juvenile European lobster (Homarus gammarus)
Cited by: 29
Author(s): Corey C. Holt, Mark van der Giezen, Carly L. Daniels, Grant D. Stentiford, David Bass
Software Mentions: 9
Published: about 5 years ago

10.1111/mec.15106

The right response at the right time: Exploring helminth immune modulation in sticklebacks by experimental coinfection
Cited by: 10
Author(s): Agnes Piecyk, Marc Ritter, Martin Kalbe
Software Mentions: 9
Published: over 5 years ago

10.1111/1462-2920.14870

Microbial signatures of protected and impacted Northern Caribbean reefs: changes from Cuba to the Florida Keys
Cited by: 23
Author(s): Laura Weber, Patricia González‐Díaz, Maickel Armenteros, Víctor Manuel Ferrer, Fernando Bretos, Erich Bartels, Alyson E. Santoro, Amy Apprill
Software Mentions: 9
Published: almost 5 years ago

10.3390/metabo10030086

Local Phenomena Shape Backyard Soil Metabolite Composition
Cited by: 9
Author(s): Tra D Nguyen, Mahbobeh Lesani, Ines Forrest, Yunpeng Lan, Danya A. Dean, Quentin M. R. Gibaut, Yanting Guo, Ekram Hossain, Marcela Olvera, Hannah Panlilio, Adwaita R. Parab, Chao‐Yi Wu, Jean A. Bernatchez, Robert H. Cichewicz, Laura-Isobel McCall
Software Mentions: 9
Published: over 4 years ago

10.3390/nu12061779

Maternal Microbiota, Cortisol Concentration, and Post-Partum Weight Recovery Are Dependent on Mode of Delivery
Cited by: 7
Author(s): Marta Selma‐Royo, Izaskun García-Mantrana, Marta Calatayud, Anna Parra-Llorca, Cecilia Martínez‐Costa, María Carmen Collado
Software Mentions: 9
Published: over 4 years ago

10.1186/s12864-018-5092-0

High-throughput proteomic profiling of the fish liver following bacterial infection
Cited by: 58
Author(s): Dwight R. Causey, Moritz A N Pohl, David Stead, Samuel Martín, Christopher J. Secombes, Daniel J. Macqueen
Software Mentions: 9
Published: about 6 years ago

10.1155/2019/3717239

Primary Production in the Water Column as Major Structuring Element of the Biogeographical Distribution and Function of Archaea in Deep-Sea Sediments of the Central Pacific Ocean
Cited by: 9
Author(s): Franziska Wemheuer, Avril Jean Elisabeth von Hoyningen-Huene, Marion Pohlner, Julius Degenhardt, Bert Engelen, Rolf Daniel, Bernd Wemheuer
Software Mentions: 9
Published: over 5 years ago

10.1186/s12866-021-02211-4

Microbiome characterization of defensive tissues in the model anemone Exaiptasia diaphana
Cited by: 10
Author(s): Justin Maire, Linda L. Blackall, Madeleine J. H. van Oppen
Software Mentions: 9
Published: over 3 years ago

10.1371/journal.pone.0229887

Characterization of dairy cow rumen bacterial and archaeal communities associated with grass silage and maize silage based diets
Cited by: 4
Author(s): Jueeli D. Vaidya, S. van Gastelen, Hauke Smidt, Caroline M. Plugge, Joan E. Edwards
Software Mentions: 9
Published: over 4 years ago

10.1038/s42003-021-01948-y

High biodiversity in a benzene-degrading nitrate-reducing culture is sustained by a few primary consumers
Cited by: 9
Author(s): Chrats Melkonian, Lucas Fillinger, Siavash Atashgahi, Ulisses Nunes da Rocha, Eric Kuiper, Brett G. Olivier, Martin Braster, Willi Gottstein, Rick Helmus, John R. Parsons, Hauke Smidt, Marcelle van der Waals, Jan Gerritse, Bernd W. Brandt, Wilfred F. M. Röling, Douwe Molenaar, Rob J.M. van Spanning
Software Mentions: 9
Published: over 3 years ago

10.1186/s42523-020-00071-3

Differential response of digesta- and mucosa-associated intestinal microbiota to dietary insect meal during the seawater phase of Atlantic salmon
Cited by: 43
Author(s): Yanxian Li, Leonardo Bruni, Alexander Jaramillo-Torres, Karina Gajardo, Trond M. Kortner, Åshild Krogdahl
Software Mentions: 9
Published: almost 4 years ago

10.1128/mSystems.00298-20

Coupling Bacterial Community Assembly to Microbial Metabolism across Soil Profiles
Cited by: 72
Author(s): Lu Luan, Chao Liang, Lijun Chen, Haotian Wang, Qinsong Xu, Yuji Jiang, Bo Sun
Software Mentions: 9
Published: over 4 years ago

10.1264/jsme2.ME18109

Impact of Introduction of Arbuscular Mycorrhizal Fungi on the Root Microbial Community in Agricultural Fields
Cited by: 33
Author(s): Turgut Yiğit Akyol, Rieko Niwa, Hideki Hirakawa, Hayato Maruyama, Takumi Sato, Takae Suzuki, Ayako Fukunaga, Takashi Sato, Shigenobu Yoshida, Keitaro Tawaraya, Masanori Saitô, Tatsuhiro Ezawa, Shusei Sato
Software Mentions: 9
Published: almost 6 years ago

10.1111/1462-2920.14631

Effect of long‐term organic and mineral fertilization strategies on rhizosphere microbiota assemblage and performance of lettuce
Cited by: 41
Author(s): Soumitra Paul Chowdhury, Doreen Babin, Martin Sandmann, Samuel Jacquiod, Loreen Sommermann, Søren J. Sørensen, Andreas Fließbach, Paul Mäder, Joerg Geistlinger, Kornelia Smalla, Michael Rothballer, Rita Grosch
Software Mentions: 9
Published: over 5 years ago

10.1186/s12862-019-1406-3

Specificity of resistance and geographic patterns of virulence in a vertebrate host-parasite system
Cited by: 9
Author(s): Agnes Piecyk, Olivia Roth, Martin Kalbe
Software Mentions: 9
Published: over 5 years ago

10.3389/fmicb.2021.713234

Metabolomic Predictors of Non-alcoholic Steatohepatitis and Advanced Fibrosis in Children
Cited by: 12
Author(s): Kattayoun Kordy, Fan Li, David J Lee, Jason M. Kinchen, Michael Jew, Maria Eduarda La Rocque, Sara Zabih, Mónica Saavedra, Cora L. Woodward, Nicole J Cunningham, Nicole H. Tobin, Grace M. Aldrovandi
Software Mentions: 9
Published: over 3 years ago

10.1186/s12866-021-02299-8

Diversity and flexibility of algal symbiont community in globally distributed larger benthic foraminifera of the genus Amphistegina
Cited by: 5
Author(s): Martina Prazeres, Thomas E. Roberts, Shadrina Fildzah Ramadhani, Steve S. Doo, Christiane Schmidt, Marleen Stuhr, Willem Renema
Software Mentions: 9
Published: about 3 years ago

10.3389/fmicb.2020.587972

DNA-Stable Isotope Probing Shotgun Metagenomics Reveals the Resilience of Active Microbial Communities to Biochar Amendment in Oxisol Soil
Cited by: 11
Author(s): Julian Yu, Michael J. Pavia, Lauren M. Deem, Susan E. Crow, Jonathan Deenik, C. Ryan Penton
Software Mentions: 9
Published: about 4 years ago

10.1038/s41598-021-88943-9

Characterizing rumen microbiota and CAZyme profile of Indian dromedary camel (Camelus dromedarius) in response to different roughages
Cited by: 17
Author(s): Ankit T. Hinsu, Nilam J. Tulsani, Ketankumar Panchal, Ramesh Pandit, Basanti Jyotsana, Nishant A. Dafale, N. B. Patil, Hemant J. Purohit, Chaitanya Joshi, Subhash J. Jakhesara
Software Mentions: 9
Published: over 3 years ago

10.1128/mSystems.00815-20

Traditional Human Populations and Nonhuman Primates Show Parallel Gut Microbiome Adaptations to Analogous Ecological Conditions
Cited by: 11
Author(s): Ashok Sharma, Klára J. Petrželková, Barbora Pafčo, Carolyn A. Jost Robinson, Terence Fuh, Brenda A. Wilson, Rebecca M. Stumpf, Manolito Torralba, Ran Blekhman, Bryan A. White, Karen E. Nelson, Steven R. Leigh, Andrés Gómez
Software Mentions: 9
Published: almost 4 years ago

10.1371/journal.pone.0243070

Temporal changes in bird communities in areas with different histories of fire disturbance in highland grasslands of Brazil
Cited by: 3
Author(s): Eduardo Chiarani, Maurício Bettio, Carla Suertegaray Fontana
Software Mentions: 9
Published: almost 4 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: over 3 years ago

10.1128/mSystems.00897-19

Comparative Analysis of Root Microbiomes of Rice Cultivars with High and Low Methane Emissions Reveals Differences in Abundance of Methanogenic Archaea and Putative Upstream Fermenters
Cited by: 26
Author(s): Zachary Liechty, Christian Santos‐Medellín, Joseph Edwards, Bao‐Anh Thi Nguyen, David Mikhail, Shane Eason, Gregory C. Phillips, Venkatesan Sundaresan
Software Mentions: 9
Published: almost 5 years ago

10.3389/fmicb.2020.557253

Sixty-One Volatiles Have Phylogenetic Signals Across Bacterial Domain and Fungal Kingdom
Cited by: 16
Author(s): Moamen M. Elmassry, Mohamed A. Farag, Robert Preißner, Björn-Oliver Gohlke, Birgit Piechulla, Marie Chantal Lemfack
Software Mentions: 9
Published: about 4 years ago

10.1038/s41396-021-00949-3

Social networks strongly predict the gut microbiota of wild mice
Cited by: 51
Author(s): Aura Raulo, Bryony Allen, Tanya Troitsky, Arild Husby, Josh A. Firth, Tim Coulson, Sarah C. L. Knowles
Software Mentions: 8
Published: over 3 years ago

10.1128/mSystems.01150-20

Distinct Community Assembly Processes of Abundant and Rare Soil Bacteria in Coastal Wetlands along an Inundation Gradient
Cited by: 36
Author(s): Gui‐Feng Gao, Dan Peng, Binu M. Tripathi, Yihui Zhang, Haiyan Chu
Software Mentions: 8
Published: almost 4 years ago

10.1093/molbev/msaa135

Dental Calculus as a Tool to Study the Evolution of the Mammalian Oral Microbiome
Cited by: 25
Author(s): Jaelle C. Brealey, Henrique G. Leitão, Tom van der Valk, Wenbo Xu, Katia Bougiouri, Love Dalén, Katerina Guschanski
Software Mentions: 8
Published: over 4 years ago

10.1186/s13104-016-2171-7

The effect of DNA extraction methodology on gut microbiota research applications
Cited by: 54
Author(s): Konstantinos Gerasimidis, Martin Bertz, Christopher Quince, K. T. Brunner, Alanna E. Bruce, Emilie Combet, Szymon T. Calus, Nicholas J. Loman, Umer Zeeshan Ijaz
Software Mentions: 8
Published: over 8 years ago

10.1038/s41396-020-0622-6

Comparative genome-centric analysis reveals seasonal variation in the function of coral reef microbiomes
Cited by: 35
Author(s): Bettina Glasl, Steven J. Robbins, Pedro R. Frade, Emma Marangon, Patrick W. Laffy, David G. Bourne, Nicole S. Webster
Software Mentions: 8
Published: over 4 years ago

10.1038/s41396-018-0279-6

Bacterial contributions to delignification and lignocellulose degradation in forest soils with metagenomic and quantitative stable isotope probing
Cited by: 228
Author(s): Roland C. Wilhelm, Rahul Singh, Lindsay D. Eltis, William W. Mohn
Software Mentions: 8
Published: about 6 years ago

10.1186/s42523-021-00111-6

Characterization of the gut microbiome in wild rocky mountainsnails (Oreohelix strigosa)
Cited by: 2
Author(s): Bridget Chalifour, Jingchun Li
Software Mentions: 8
Published: over 3 years ago

10.1128/mSystems.00152-21

Differential Analysis of Longitudinal Methicillin-Resistant Staphylococcus aureus Colonization in Relation to Microbial Shifts in the Nasal Microbiome of Neonatal Piglets
Cited by: 2
Author(s): Shriram Patel, Abel A. Vlasblom, Koen M. Verstappen, Aldert Zomer, Ad C. Fluit, Malbert R. C. Rogers, Jaap A. Wagenaar, Marcus J. Claesson, Birgitta Duim
Software Mentions: 8
Published: about 3 years ago

10.3390/microorganisms8091265

Modulation of Gut Microbiota in Korean Navy Trainees following a Healthy Lifestyle Change
Cited by: 10
Author(s): Young Hun Jung, Setu Bazie Tagele, HyunWoo Son, Jerald Conrad Ibal, Dorsaf Kerfahi, Hyunju Yun, Bora Lee, Clara Yongjoo Park, Eun Soo Kim, Sang-Jun Kim, Jae‐Ho Shin
Software Mentions: 8
Published: over 4 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

10.1128/mSystems.01356-20

Spinal Cord Injury Changes the Structure and Functional Potential of Gut Bacterial and Viral Communities
Cited by: 26
Author(s): Jingjie Du, Ahmed A. Zayed, Kristina A. Kigerl, Kylie Zane, Matthew B. Sullivan, Phillip G. Popovich
Software Mentions: 8
Published: over 3 years ago

10.1128/mSystems.01153-20

Bacterial Communities in Concrete Reflect Its Composite Nature and Change with Weathering
Cited by: 8
Author(s): E. Anders Kiledal, Jessica L. Keffer, Julia A. Maresca
Software Mentions: 8
Published: over 3 years ago

10.1093/molbev/msab029

Herbicide Selection Promotes Antibiotic Resistance in Soil Microbiomes
Cited by: 56
Author(s): Hanpeng Liao, Xi Li, Qiue Yang, Yudan Bai, Peng Cui, Chang Wen, Chen Liu, Zhi Chen, Jiahuan Tang, Jiangang Che, Zhen Yu, Stefan Geisen, Shungui Zhou, Ville‐Petri Friman, Yong‐Guan Zhu
Software Mentions: 8
Published: almost 4 years ago

10.3390/microorganisms9091943

Fungi in Permafrost-Affected Soils of the Canadian Arctic: Horizon- and Site-Specific Keystone Taxa Revealed by Co-Occurrence Network
Cited by: 6
Author(s): Milan Varsadiya, Tim Urich, Gustaf Hugelius, Jiří Bárta
Software Mentions: 8
Published: about 3 years ago

10.3390/microorganisms9091873

Nutrient Enrichment Predominantly Affects Low Diversity Microbiomes in a Marine Trophic Symbiosis between Algal Farming Fish and Corals
Cited by: 5
Author(s): Adriana Messyasz, Rebecca L. Maher, Sonora S. Meiling, Rebecca Vega Thurber
Software Mentions: 8
Published: about 3 years ago

10.3389/fmicb.2021.728479

Cross-Sectional Study on the Gut Microbiome of Parkinson’s Disease Patients in Central China
Cited by: 11
Author(s): Liangwei Mao, Yu Zhang, Jing Tian, Ming Sang, Guimin Zhang, Yiming Zhou, Puqing Wang
Software Mentions: 8
Published: about 3 years ago

10.1038/s41598-021-89065-y

Exposure to airborne bacteria depends upon vertical stratification and vegetation complexity
Cited by: 24
Author(s): Jake M. Robinson, Christian Cando‐Dumancela, Rachael E. Antwis, Ross Cameron, Craig Liddicoat, Ravin Poudel, Philip Weinstein, Martin F. Breed
Software Mentions: 8
Published: over 3 years ago

10.1186/s42523-021-00096-2

Salmon gut microbiota correlates with disease infection status: potential for monitoring health in farmed animals
Cited by: 65
Author(s): Davide Bozzi, Jacob Agerbo Rasmussen, Christian Carøe, Harald Sveier, Kristian Nordøy, M. Thomas P. Gilbert, Morten T. Limborg
Software Mentions: 8
Published: over 3 years ago

10.3390/microorganisms7120662

Grapevine Phyllosphere Community Analysis in Response to Elicitor Application against Powdery Mildew
Cited by: 17
Author(s): Luca Nerva, Chiara Pagliarani, Massimo Pugliese, M. Monchiero, Solène Gonthier, M. L. Gullino, Giorgio Gambino, Walter Chitarra
Software Mentions: 8
Published: almost 5 years ago

10.1038/s41598-019-38483-0

Metabotyping as a Stopover in Genome-to-Phenome Mapping
Cited by: 31
Author(s): Pubudu Handakumbura, Bryan Stanfill, Albert Rivas‐Ubach, Dan Fortin, John P. Vogel, Christer Jansson
Software Mentions: 8
Published: almost 6 years ago

10.3390/microorganisms9061153

Variation in Human Milk Composition Is Related to Differences in Milk and Infant Fecal Microbial Communities
Cited by: 30
Author(s): Ryan M. Pace, Janet E. Williams, Bianca Robertson, Kimberly A. Lackey, Courtney L. Meehan, William J. Price, James A. Foster, Daniel Sellen, Elizabeth Kamau-Mbuthia, Egidioh W. Kamundia, Samwel Mbugua, Sophie E. Moore, Andrew M. Prentice, Debela G. Kita, Linda J. Kvist, Gloria E. Otoo, Lorena Ruíz, Juan M. Rodríguez, Rossina G. Pareja, Mark A. McGuire, Lars Bode, Michelle K. McGuire
Software Mentions: 8
Published: over 3 years ago

10.1038/s41598-019-39638-9

Gut microbiota of the European Brown Hare (Lepus europaeus)
Cited by: 14
Author(s): Gabrielle Stalder, Beate Pinior, Benjamin Zwirzitz, Igor Loncaric, Dennis Jakupović, Sebastian Vetter, Steve Smith, Annika Posautz, Franz Hoelzl, Martin Wagner, Daniel Hoffmann, Anna Kübber‐Heiss, Evelyne Mann
Software Mentions: 8
Published: over 5 years ago

Projects: cran: PERMANOVA

Papers Mentioning PERMANOVA 6,292