cran: vegan | Projects | Ecosyste.ms: Papers

10.1093/aobpla/plw010

Host trait combinations drive abundance and canopy distribution of atmospheric bromeliad assemblages
Cited by: 12
Author(s): Cleber Juliano Neves Chaves, Júlio César Dyonisio, Davi Rodrigo Rossatto
Software Mentions: 10
Published: about 11 years ago

10.1371/journal.pone.0020682

Spatially Explicit Analysis of Metal Transfer to Biota: Influence of Soil Contamination and Landscape
Cited by: 44
Author(s): Clémentine Fritsch, Michaël Cœurdassier, Patrick Giraudoux, Francis Raoul, Francis Douay, Dominique Rieffel, Annette de Vaufleury, Renaud Scheifler
Software Mentions: 10
Published: over 15 years ago

10.1186/s12915-021-01029-w

Global population genetic structure and demographic trajectories of the black soldier fly, Hermetia illucens
Cited by: 36
Author(s): Cengiz Kaya, Tomas N Generalovic, Gunilla Ståhls, Martin Hauser, Ana Clariza Samayoa, Carlos Gustavo Nunes-Silva, Heather Roxburgh, Jens Wohlfahrt, Ebenezer Ato Ewusie, Marc Kenis, Yupa Hanboonsong, Jesús Orozco, Nancy Carrejo, Satoshi Nakamura, Laura Gasco, Santos Rojo, Chrysantus M. Tanga, Rudolf Meier, Clint Rhode, Christine Picard, Chris D. Jiggins, Florian Leiber, Jeffery K. Tomberlin, Martin Hasselmann, Wolf U. Blanckenhorn, Martin Kapun, Christoph Sandrock
Software Mentions: 10
Published: over 5 years ago

10.1128/AEM.00880-20

Community Structure of Arbuscular Mycorrhizal Fungi in Soils of Switchgrass Harvested for Bioenergy
Cited by: 7
Author(s): Alden C. Dirks, Randall D. Jackson
Software Mentions: 10
Published: about 6 years ago

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 5 years ago

10.1093/femsec/fiab127

Microbial characterisation and Cold-Adapted Predicted Protein (CAPP) database construction from the active layer of Greenland's permafrost
Cited by: 1
Author(s): Gilda Varliero, Muhammad Rafiq, Swati Singh, Annabel Summerfield, Fotis Sgouridis, Donald A. Cowan, Gary Barker
Software Mentions: 10
Published: about 5 years ago

10.1002/ece3.7907

Inventory of the benthic eukaryotic diversity in the oldest European lake
Cited by: 2
Author(s): Benjamin Wilden, Walter Traunspurger, Stefan Geisen
Software Mentions: 10
Published: over 5 years ago

10.1093/plankt/fbaa017

Rapid succession drives spring community dynamics of small protists at Helgoland Roads, North Sea
Cited by: 11
Author(s): Laura Käse, Alexandra Kraberg, Katja Metfies, Stefan Neuhaus, Pim Sprong, Bernhard M. Fuchs, Maarten Boersma, Karen Helen Wiltshire
Software Mentions: 10
Published: over 6 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 7 years ago

10.3390/microorganisms8121887

A Multi-Omics Protocol for Swine Feces to Elucidate Longitudinal Dynamics in Microbiome Structure and Function
Cited by: 13
Author(s): Laurin Christopher Gierse, Alexander Meene, Daniel Schultz, Theresa Schwaiger, Claudia Karte, Charlotte Schröder, Haitao Wang, Christine Wünsche, Karen Methling, Bernd Kreikemeyer, Stephan Fuchs, Jörg Bernhardt, Dörte Becher, Michael Lalk, Tim Urich, Katharina Riedel
Software Mentions: 10
Published: almost 6 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: almost 8 years ago

10.1371/journal.pone.0208780

Clusters of high abundance of plants detected from local indicators of spatial association (LISA) in a semi-deciduous tropical forest
Cited by: 13
Author(s): José Ramón Martínez Batlle, Yntze van der Hoek
Software Mentions: 10
Published: almost 8 years ago

10.7717/peerj.11222

The postcranial skeleton of Cerrejonisuchus improcerus (Crocodyliformes: Dyrosauridae) and the unusual anatomy of dyrosaurids
Cited by: 1
Author(s): Isaure Scavezzoni, Valentin Fischer
Software Mentions: 10
Published: over 5 years ago

10.1186/s42523-020-00039-3

Microbial environment shapes immune function and cloacal microbiota dynamics in zebra finches Taeniopygia guttata
Cited by: 20
Author(s): H. Pieter J. van Veelen, Joana Falcão Salles, Kevin D. Matson, Marco van der Velde, B. Irene Tieleman
Software Mentions: 10
Published: over 6 years ago

10.3390/microorganisms9081723

Fecal Supernatant from Adult with Autism Spectrum Disorder Alters Digestive Functions, Intestinal Epithelial Barrier, and Enteric Nervous System
Cited by: 7
Author(s): Jacques Gonzalès, Justine Marchix, Laetitia Aymeric, Catherine Le Berre‐Scoul, Johanna Zoppi, Philippe Bordron, Marie Burel, Laetitia Davidovic, J. L. Richard, Alexandru Gaman, Florian Lejuste, Julie Z. Brouillet, Françoise Le Vacon, Samuel Chaffron, Marion Leboyer, Hélène Boudin, Michel Neunlist
Software Mentions: 10
Published: over 5 years ago

10.1038/s41598-020-79875-x

Relationship between dental and periodontal health status and the salivary microbiome: bacterial diversity, co-occurrence networks and predictive models
Cited by: 23
Author(s): Marta Relvas, Alba Regueira-Iglesias, Carlos Balsa-Castro, Filomena Salazar, José Júlio Pacheco, Cristina Cabral, Corsina Velazco de Henriques, Inmaculada Tomás
Software Mentions: 10
Published: almost 6 years ago

10.1186/s12859-021-03967-2

tidyMicro: a pipeline for microbiome data analysis and visualization using the tidyverse in R
Cited by: 7
Author(s): Charlie M. Carpenter, Daniel N. Frank, Kayla Williamson, Jaron Arbet, Brandie D. Wagner, Katerina Kechris, Miranda Kroehl
Software Mentions: 10
Published: almost 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 7 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 6 years ago

10.1111/eva.13143

Population genomics and history of speciation reveal fishery management gaps in two related redfish species ( Sebastes mentella and Sebastes fasciatus )
Cited by: 20
Author(s): Laura Benestan, Quentin Rougemont, Caroline Senay, Éric Normandeau, Éric Parent, Rick M. Rideout, Louis Bernatchez, Yvan Lambert, Céline Audet, Gérard Parent
Software Mentions: 10
Published: almost 6 years ago

10.1186/s40168-021-01104-y

Type 1 diabetes in pregnancy is associated with distinct changes in the composition and function of the gut microbiome
Cited by: 22
Author(s): Alexandra J. Roth‐Schulze, Megan A. S. Penno, Katrina Ngui, Helena Oakey, Esther Bandala‐Sanchez, Andrew C. Smith, Theo R. Allnutt, Rebecca L. Thomson, Peter Vuillermin, Maria E. Craig, William D. Rawlinson, Elizabeth A. Davis, Mark Harris, Georgia Soldatos, Peter Colman, John M. Wentworth, Aveni Haynes, Simon C. Barry, Richard Sinnott, Grant Morahan, Naiara G. Bediaga, Gordon K. Smyth, Anthony T. Papenfuss, Jennifer Couper, Leonard C. Harrison
Software Mentions: 10
Published: over 5 years ago

10.1186/s40168-019-0756-9

Agricultural management and plant selection interactively affect rhizosphere microbial community structure and nitrogen cycling
Cited by: 174
Author(s): Jennifer E. Schmidt, Angela D. Kent, Vanessa Brisson, Amélie C. M. Gaudin
Software Mentions: 10
Published: about 7 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 7 years ago

10.1186/s40168-019-0745-z

Specific gut microbiome members are associated with distinct immune markers in pediatric allogeneic hematopoietic stem cell transplantation
Cited by: 57
Author(s): Anna Cäcilia Ingham, Katrine Kielsen, Malene Skovsted Cilieborg, Ole Lund, Susan Holmes, Frank Møller Aarestrup, Klaus Müller, Sünje Johanna Pamp
Software Mentions: 9
Published: about 7 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 5 years ago

10.1186/s12859-020-03703-2

SQMtools: automated processing and visual analysis of ’omics data with R and anvi’o
Cited by: 25
Author(s): Fernando Puente-Sánchez, Natalia García-García, Javier Tamames
Software Mentions: 9
Published: about 6 years ago

10.1111/mec.15120

Lineage specific histories of Mycobacterium tuberculosis dispersal in Africa and Eurasia
Cited by: 69
Author(s): Mary O’Neill, Abigail C. Shockey, Alex Zarley, William Aylward, Vegard Eldholm, Andrew Kitchen, Caitlin S. Pepperell
Software Mentions: 9
Published: over 7 years ago

10.1007/s00265-021-03041-0

Neophobia in 10 ungulate species—a comparative approach
Cited by: 14
Author(s): Alina Schaffer, Álvaro López Caicoya, Montserrat Colell, Ruben Holland, Lorenzo von Fersen, Anja Widdig, Federica Amici
Software Mentions: 9
Published: over 5 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 7 years ago

10.3389/fmicb.2021.616956

Assembly Processes and Co-occurrence Patterns of Abundant and Rare Bacterial Community in the Eastern Indian Ocean
Cited by: 9
Author(s): Liuyang Li, Laxman Pujari, Chao Wu, Dongyang Huang, Yuqiu Wei, Congcong Guo, Guicheng Zhang, Wenzhe Xu, Haijiao Liu, Xingzhou Wang, Min Wang, Jun Sun
Software Mentions: 9
Published: over 5 years ago

10.3389/fmicb.2020.575707

Evaluating the Potential Antibiotic Resistance Status in Environment Based on the Trait of Microbial Community
Cited by: 9
Author(s): Zhiguo Su, Bei Huang, Quanquan Mu, Donghui Wen
Software Mentions: 9
Published: about 6 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 8 years ago

10.3389/fmicb.2021.649981

Differential Impacts of Water Table and Temperature on Bacterial Communities in Pore Water From a Subalpine Peatland, Central China
Cited by: 7
Author(s): Wen Tian, Xiang Xiao, Hongmei Wang
Software Mentions: 9
Published: over 5 years ago

10.3389/fmicb.2018.01323

Exposure to Arsenic Alters the Microbiome of Larval Zebrafish
Cited by: 37
Author(s): Dylan Dahan, Brooke A. Jude, Regina Lamendella, Felicia Keesing, Gabriel G. Perron
Software Mentions: 9
Published: over 8 years ago

10.7717/peerj.9089

Resampling-based methods for biologists
Cited by: 35
Author(s): John Fieberg, Kelsey Vitense, Douglas H. Johnson
Software Mentions: 9
Published: over 6 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 8 years ago

10.7717/peerj.5055

A novel approach to study the morphology and chemistry of pollen in a phylogenetic context, applied to the halophytic taxon Nitraria L.(Nitrariaceae)
Cited by: 19
Author(s): Amber Woutersen, Phillip E. Jardine, Raúl Giovanni Bogotá-Ángel, Hongxiang Zhang, Daniele Silvestro, Alexandre Antonelli, Elena Gogna, Roy Erkens, William D. Gosling, Guillaume Dupont‐Nivet, Carina Hoorn
Software Mentions: 9
Published: over 8 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 5 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 8 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 8 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: about 6 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 5 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 10 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 7 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 6 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 5 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 5 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 6 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 6 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 8 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 5 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 6 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: almost 6 years ago

10.1038/s41598-018-33733-z

Human gut microbe co-cultures have greater potential than monocultures for food waste remediation to commodity chemicals
Cited by: 14
Author(s): Matthew Perisin, Christian Sund
Software Mentions: 9
Published: about 8 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 6 years ago

10.7717/peerj.6127

Bacterial and archaeal spatial distribution and its environmental drivers in an extremely haloalkaline soil at the landscape scale
Cited by: 8
Author(s): Martha Adriana Martínez-Olivas, Norma G. Jiménez‐Bueno, Juan Alfredo Hernández-García, Carmine Fusaro, Marco Luna‐Guido, Yendi E. Navarro‐Noya, Luc Dendooven
Software Mentions: 9
Published: over 7 years ago

10.7717/peerj.3795

Multivariate ordination identifies vegetation types associated with spider conservation in brassica crops
Cited by: 4
Author(s): Hafiz Sohaib Ahmed Saqib, Minsheng You, Geoff M. Gurr
Software Mentions: 9
Published: about 9 years ago

10.1093/bioinformatics/btaa838

MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities
Cited by: 16
Author(s): Janina Reeder, Mo Huang, Joshua S. Kaminker, Joseph N. Paulson
Software Mentions: 9
Published: about 6 years ago

10.1186/s12862-015-0296-2

Recurrent camouflaged invasions and dispersal of an Asian freshwater gastropod in tropical Africa
Cited by: 11
Author(s): Bert Van Bocxlaer, Catharina Clewing, Jean-Papy Mongindo Etimosundja, Alidor Busanga Kankonda, Oscar Wembo Ndeo, Christian Albrecht
Software Mentions: 9
Published: over 11 years ago

10.1186/s40168-018-0592-3

Citizen science charts two major “stomatotypes” in the oral microbiome of adolescents and reveals links with habits and drinking water composition
Cited by: 73
Author(s): Jesse R. Willis, Pedro González-Torres, Alexandros A. Pittis, Luis A. Bejarano, Luca Cozzuto, Núria Andreu, Miriam Alloza-Trabado, Antònia Valentín, Ewa Księżopolska, Harris Onywera, Magda Montfort, Antonio Hermoso, Susana Iraola-Guzmán, Ester Saus, Annick Labeeuw, Carlo Carolis, Jochen Hecht, Julia Ponomarenko, Toni Gabaldón
Software Mentions: 9
Published: almost 8 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 6 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 7 years ago

10.3390/ijms22042214

How Are the Flower Structure and Nectar Composition of the Generalistic Orchid Neottia ovata Adapted to a Wide Range of Pollinators?
Cited by: 8
Author(s): Emilia Brzosko, Andrzej Bajguz, Magdalena Chmur, Justyna Burzyńska, Edyta Jermakowicz, Paweł Mirski, Piotr Zieliński
Software Mentions: 9
Published: over 5 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: almost 8 years ago

10.3389/fmicb.2020.00175

Cultivation of Bacteria From Aplysina aerophoba: Effects of Oxygen and Nutrient Gradients
Cited by: 10
Author(s): Johanna Gutleben, Catarina Loureiro, Laura Adriana Ramírez Romero, Sudarshan A. Shetty, René H. Wijffels, Hauke Smidt, Detmer Sipkema
Software Mentions: 9
Published: over 6 years ago

10.1371/journal.pone.0215310

Local and regional drivers of ant communities in forest-grassland ecotones in South Brazil: A taxonomic and phylogenetic approach
Cited by: 16
Author(s): William Dröse, Luciana Regina Podgaiski, Camila Fagundes Dias, Milton de Souza Mendonça
Software Mentions: 9
Published: over 7 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 5 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 5 years ago

10.1038/s41598-021-89496-7

Erosion of tropical bird diversity over a century is influenced by abundance, diet and subtle climatic tolerances
Cited by: 12
Author(s): Jenna R. Curtis, W. Douglas Robinson, Ghislain Rompré, Randall P. Moore, Bruce McCune
Software Mentions: 9
Published: over 5 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 8 years ago

10.1002/ece3.7437

Mixing tree species associated with arbuscular or ectotrophic mycorrhizae reveals dual mycorrhization and interactive effects on the fungal partners
Cited by: 14
Author(s): Heike Heklau, Nicole Schindler, François Buscot, Nico Eisenhauer, Olga Ferlian, Luis Daniel Prada-Salcedo, Helge Bruelheide
Software Mentions: 9
Published: over 5 years ago

10.1371/journal.pone.0236084

Mating system is correlated with immunogenetic diversity in sympatric species of Peromyscine mice
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Author(s): Jesyka Meléndez‐Rosa, Ke Bi, Eileen A. Lacey
Software Mentions: 9
Published: over 6 years ago

10.1371/journal.pone.0121102

ShapeR: An R Package to Study Otolith Shape Variation among Fish Populations
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Author(s): Lísa Anne Libungan, Snæbjörn Pálsson
Software Mentions: 9
Published: over 11 years ago

10.1038/s41437-018-0059-0

Unexpected mixed-mode transmission and moderate genetic regulation of Symbiodinium communities in a brooding coral
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Software Mentions: 9
Published: over 8 years ago

10.1038/s41598-019-50540-2

Deciphering bacterial and fungal endophyte communities in leaves of two maple trees with green islands
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Author(s): Franziska Wemheuer, Bernd Wemheuer, Rolf Daniel, Stefan Vidal
Software Mentions: 9
Published: about 7 years ago

10.1186/s40168-021-01054-5

A multi-OMIC characterisation of biodegradation and microbial community succession within the PET plastisphere
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Author(s): Robyn J. Wright, Rafael Bosch, Morgan G. I. Langille, Matthew I. Gibson, Joseph Alexander Christie-Oleza
Software Mentions: 9
Published: over 5 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
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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 5 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 6 years ago

10.7717/peerj.2562

Beech cupules as keystone structures for soil fauna
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Author(s): Nereida Melguizo‐Ruiz, Gerardo Jiménez‐Navarro, Jordi Moya‐Laraño
Software Mentions: 9
Published: about 10 years ago

10.3389/fnhum.2013.00520

Decreased small-world functional network connectivity and clustering across resting state networks in schizophrenia: an fMRI classification tutorial
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Author(s): Ariana Anderson, Mark S. Cohen
Software Mentions: 9
Published: almost 14 years ago

10.7717/peerj.6746

Deterministic processes dominate soil microbial community assembly in subalpine coniferous forests on the Loess Plateau
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Author(s): Pengyu Zhao, Jiabing Bao, Xue Wang, Yi Liu, Cui Li, Bo Chai
Software Mentions: 9
Published: over 7 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 7 years ago

10.1038/srep29002

Effects of landscape anthropization on mosquito community composition and abundance
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Author(s): Martina Ferraguti, Josué Martínez‐de la Puente, David Roiz, Santiago Ruíz, Ramón C. Soriguer, Jordi Figuerola
Software Mentions: 9
Published: over 10 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: about 7 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 6 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 6 years ago

10.1371/journal.pone.0209402

Assessing the potential for competition between Pacific Halibut (Hippoglossus stenolepis) and Arrowtooth Flounder (Atheresthes stomias) in the Gulf of Alaska
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Author(s): Cheryl L. Barnes, Anne H. Beaudreau, Mary E. Hunsicker, Lorenzo Ciannelli
Software Mentions: 9
Published: almost 8 years ago

10.1186/s40168-020-00873-2

Climate mediates continental scale patterns of stream microbial functional diversity
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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 6 years ago

10.1038/s41598-021-96431-3

Phytochemistry reflects different evolutionary history in traditional classes versus specialized structural motifs
Cited by: 7
Author(s): Kathryn A. Uckele, Joshua P. Jahner, Eric J. Tepe, Lora A. Richards, Lee A. Dyer, Kaitlin M. Ochsenrider, Casey S. Philbin, Massuo Jorge Kato, Lydia F. Yamaguchi, Matthew L. Forister, Angela M. Smilanich, Craig D. Dodson, Christopher S. Jeffrey, Thomas L. Parchman
Software Mentions: 9
Published: about 5 years ago

10.1038/s41396-019-0458-0

Virome heterogeneity and connectivity in waterfowl and shorebird communities
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Author(s): Michelle Wille, Mǎng Shī, Marcel Klaassen, Aeron C. Hurt, Edward C. Holmes
Software Mentions: 9
Published: over 7 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 5 years ago

10.7717/peerj.4555

Small tropical islands with dense human population: differences in water quality of near-shore waters are associated with distinct bacterial communities
Cited by: 10
Author(s): Hauke Kegler, Christiane Hassenrück, Pia Kegler, Tim C Jennerjahn, Muhammad Lukman, Jamaluddin Jompa, Astrid Gärdes
Software Mentions: 9
Published: over 8 years ago

10.1002/mbo3.780

Biases in the metabarcoding of plant pathogens using rust fungi as a model system
Cited by: 13
Author(s): Andreas Makiola, Ian A. Dickie, Robert J. Holdaway, Jamie R. Wood, Kate H. Orwin, Charles K. Lee, Travis R. Glare
Software Mentions: 9
Published: almost 8 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 7 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 9 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 6 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 6 years ago

10.1002/ece3.8018

Delimitation despite discordance: Evaluating the species limits of a confounding species complex in the face of mitonuclear discordance
Cited by: 8
Author(s): Thomas J. Firneno, Justin R. O’Neill, Michael W. Itgen, Timothy A. Kihneman, Josiah H. Townsend, Matthew K. Fujita
Software Mentions: 9
Published: over 5 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 7 years ago

10.1038/s41598-020-72569-4

Abiotic and past climatic conditions drive protein abundance variation among natural populations of the caddisfly Crunoecia irrorata
Cited by: 2
Author(s): Joshua Niklas Ebner, Danilo Ritz, Stefanie von Fumetti
Software Mentions: 9
Published: about 6 years ago

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