cran: vegan | Projects | Ecosyste.ms: Papers

10.3389/fimmu.2018.01444

Elucidating T Cell Activation-Dependent Mechanisms for Bifurcation of Regulatory and Effector T Cell Differentiation by Multidimensional and Single-Cell Analysis
Cited by: 10
Author(s): Alla Bradley, Takeji Hashimoto, M. Ono
Software Mentions: 7
Published: about 8 years ago

10.1038/s41598-019-41886-8

Geographic separation and genetic differentiation of populations are not coupled with niche differentiation in threatened Kaiser’s spotted newt (Neurergus kaiseri)
Cited by: 24
Author(s): Forough Goudarzi, Mahmoud‐Reza Hemami, Loïs Rancilhac, Mansoureh Malekian, Sima Fakheran, Kathryn R. Elmer, Sebastian Steinfartz
Software Mentions: 7
Published: over 7 years ago

10.1111/mec.14931

The evolution of abdominal microbiomes in fungus‐growing ants
Cited by: 23
Author(s): Panagiotis Sapountzis, David R. Nash, Morten Schiøtt, Jacobus J. Boomsma
Software Mentions: 7
Published: over 7 years ago

10.1038/s41598-019-43274-8

Multiple stressors interact primarily through antagonism to drive changes in the coral microbiome
Cited by: 55
Author(s): Rebecca L. Maher, Mallory M. Rice, Ryan McMinds, Deron E. Burkepile, Rebecca Vega Thurber
Software Mentions: 7
Published: over 7 years ago

10.3389/fmicb.2021.646821

Fungal Diversity and Community Assembly of Ectomycorrhizal Fungi Associated With Five Pine Species in Inner Mongolia, China
Cited by: 7
Author(s): Yong-Long Wang, Xuan Zhang, Ying Xu, Busayo Joshua Babalola, Simin Xiang, Ye Zhao, Yida Fan
Software Mentions: 7
Published: over 5 years ago

10.1002/ece3.6588

Investigating population‐scale allelic differential expression in wild populations of Oithona similis (Cyclopoida, Claus, 1866)
Cited by: 8
Author(s): Romuald Laso-Jadart, Kevin Sugier, Emmanuelle Petit, Karine Labadie, Pierre Peterlongo, Christophe Ambroise, Patrick Wincker, Jean‐Louis Jamet, Mohammed‐Amin Madoui
Software Mentions: 7
Published: about 6 years ago

10.1002/ece3.7901

Linking ecology, morphology, and metabolism: Niche differentiation in sympatric populations of closely related species of the genus Littorina (Neritrema)
Cited by: 7
Author(s): Arina L. Maltseva, Marina A. Varfolomeeva, Roman V. Ayanka, Elizaveta R. Gafarova, Egor A. Repkin, Polina Pavlova, Alexei L. Shavarda, Natalia A. Mikhailova, Andrei I. Granovitch
Software Mentions: 7
Published: about 5 years ago

10.1038/s41598-017-18435-2

Ecological plasticity in the gastrointestinal microbiomes of Ethiopian Chlorocebus monkeys
Cited by: 32
Author(s): Pål Trosvik, Eli Knispel Rueness, Eric J. de Muinck, Amera Moges, Addisu Mekonnen
Software Mentions: 7
Published: over 8 years ago

10.1038/s41598-017-13601-y

Gut microbiome alterations in Alzheimer’s disease
Cited by: 1,108
Author(s): N. Vogt, Robert L. Kerby, Kimberly A. Dill‐McFarland, Sandra Harding, Andrew P. Merluzzi, Sterling C. Johnson, Cynthia M. Carlsson, Sanjay Asthana, Henrik Zetterberg, Kaj Blennow, Barbara B. Bendlin, Federico E. Rey
Software Mentions: 7
Published: almost 9 years ago

10.1038/s41598-017-15220-z

Captive bottlenose dolphins and killer whales harbor a species-specific skin microbiota that varies among individuals
Cited by: 28
Author(s): Marlène Chiarello, Sébastien Villéger, Corinne Bouvier, Jean‐Christophe Auguet, Thierry Bouvier
Software Mentions: 7
Published: almost 9 years ago

10.3390/ani10020242

Applicability of an Unmedicated Feeding Program Aimed to Reduce the Use of Antimicrobials in Nursery Piglets: Impact on Performance and Fecal Microbiota
Cited by: 2
Author(s): Paola López-Colom, Jordi Estellé, Jordi Bonet, Julià Coma, S. M. Martín‐Orúe
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pone.0240512

Bone biodeterioration—The effect of marine and terrestrial depositional environments on early diagenesis and bone bacterial community
Cited by: 19
Author(s): Anne Eriksen, Tue Kjærgaard Nielsen, Henning Matthiesen, Christian Carøe, Lars Hestbjerg Hansen, David Gregory, Gordon Turner‐Walker, Matthew J. Collins, M. Thomas P. Gilbert
Software Mentions: 7
Published: almost 6 years ago

10.1186/s40168-019-0736-0

Differential dynamics of microbial community networks help identify microorganisms interacting with residue-borne pathogens: the case of Zymoseptoria tritici in wheat
Cited by: 39
Author(s): Lydie Kerdraon, Matthieu Barret, Valérie Laval, Frédéric Suffert
Software Mentions: 7
Published: about 7 years ago

10.3390/ani11051442

Agricultural Holdings and Slaughterhouses’ Impact on Patterns of Pathological Findings Observed during Post-Mortem Meat Inspection
Cited by: 5
Author(s): Johannes Klinger, Beate Conrady, Marina Mikula, Annemarie Käsbohrer
Software Mentions: 7
Published: over 5 years ago

10.3390/life10090185

An Overview of Bioinformatics Tools for DNA Meta-Barcoding Analysis of Microbial Communities of Bioaerosols: Digest for Microbiologists
Cited by: 3
Author(s): Hamza Mbareche, Nathan Dumont-Leblond, Guillaume J. Bilodeau, Caroline Duchaine
Software Mentions: 7
Published: almost 6 years ago

10.1002/ece3.1456

Explaining forest productivity using tree functional traits and phylogenetic information: two sides of the same coin over evolutionary scale?
Cited by: 33
Author(s): Alain Paquette, Simon Joly, Christian Messier
Software Mentions: 7
Published: over 11 years ago

10.1002/ece3.4296

Landscape genetics identifies streams and drainage infrastructure as dispersal corridors for an endangered wetland bird
Cited by: 12
Author(s): Charles B. van Rees, J. Michael Reed, R. E. Wilson, Jared G. Underwood, Sarah A. Sonsthagen
Software Mentions: 7
Published: about 8 years ago

10.1002/ece3.4094

Assessment of a livestock GPS collar based on an open‐source datalogger informs best practices for logging intensity
Cited by: 27
Author(s): Devan Allen McGranahan, Benjamin A. Geaumont, Jonathan W. Spiess
Software Mentions: 7
Published: over 8 years ago

10.1186/s12936-017-1738-7

Change in Anopheles richness and composition in response to artificial flooding during the creation of the Jirau hydroelectric dam in Porto Velho, Brazil
Cited by: 9
Author(s): Moreno S. Rodrigures, Elis P. A. Batista, Alexandre de Almeida e Silva, Fábio Medeiros da Costa, Verissimo A. S. Neto, Luiz Herman Soares Gil
Software Mentions: 7
Published: over 9 years ago

10.1002/ece3.1405

Limited sampling hampers “big data” estimation of species richness in a tropical biodiversity hotspot
Cited by: 88
Author(s): Kristine Engemann, Brian J. Enquist, Brody Sandel, Brad Boyle, Peter M. Jørgensen, Naia Morueta‐Holme, Robert K. Peet, Cyrille Violle, Jens‐Christian Svenning
Software Mentions: 7
Published: over 11 years ago

10.1098/rsos.170073

Predictors and immunological correlates of sublethal mercury exposure in vampire bats
Cited by: 44
Author(s): Daniel J. Becker, Matthew M. Chumchal, Alexandra B. Bentz, Steven G. Platt, Gábor Á. Czirják, Thomas R. Rainwater, Sonia Altizer, Daniel G. Streicker
Software Mentions: 7
Published: over 9 years ago

10.1098/rsos.210172

Assessing urinary odours across the oestrous cycle in a mouse model using portable and benchtop gas chromatography-mass spectrometry
Cited by: 4
Author(s): Jia Tang, Alice C. Poirier, Gwen Duytschaever, Laís Alves Antonio Moreira, Omer Nevo, Amanda D. Melin
Software Mentions: 7
Published: about 5 years ago

10.1098/rsos.160471

Maternal effects and Symbiodinium community composition drive differential patterns in juvenile survival in the coral Acropora tenuis
Cited by: 55
Author(s): Kate M. Quigley, Bette L. Willis, Line K. Bay
Software Mentions: 7
Published: almost 10 years ago

10.1098/rsos.210035

Local versus site-level effects of algae on coral microbial communities
Cited by: 4
Author(s): Amy A. Briggs, A. L. Brown, Craig W. Osenberg
Software Mentions: 7
Published: about 5 years ago

10.1186/s12864-018-5419-x

Dose-dependent impact of oxytetracycline on the veal calf microbiome and resistome
Cited by: 16
Author(s): Bart J. F. Keijser, Valeria Agamennone, Tim J. van den Broek, Martien P. M. Caspers, Adri van de Braak, Richard Bomers, Mieke Havekes, Eric D. Schoen, Martin van Baak, Daniël Mioch, Lonneke Bomers, R.C. Montijn
Software Mentions: 7
Published: over 7 years ago

10.1371/journal.ppat.1009537

A plasmid locus associated with Klebsiella clinical infections encodes a microbiome-dependent gut fitness factor
Cited by: 17
Author(s): Jay Vornhagen, Christine M. Bassis, S. Ramakrishnan, Robert Hein, Sophia Mason, Yehudit Bergman, Nicole Sunshine, Yunfan Fan, Caitlyn L. Holmes, Winston Timp, Michael C. Schatz, Vincent B. Young, Patricia J. Simner, Michael A. Bachman
Software Mentions: 7
Published: over 5 years ago

10.1371/journal.ppat.1007870

Antigenic cartography of immune responses to Plasmodium falciparum erythrocyte membrane protein 1 (PfEMP1)
Cited by: 6
Author(s): James Tuju, Margaret J. Mackinnon, Abdirahman Abdi, Henry Karanja, Jennifer Musyoki, George M. Warimwe, Evelyn Gitau, Kevin Marsh, Peter C. Bull, Britta C. Urban
Software Mentions: 7
Published: about 7 years ago

10.1111/gcb.15302

Stream microbial communities and ecosystem functioning show complex responses to multiple stressors in wastewater
Cited by: 44
Author(s): Francis J. Burdon, Yaohui Bai, Marta Reyes, Manu Tamminen, Philipp Staudacher, Simon Mangold, Heinz Singer, Katja Räsänen, Adriano Joss, Scott D. Tiegs, Jukka Jokela, Rik I.L. Eggen, Christian Stamm
Software Mentions: 7
Published: about 6 years ago

10.5808/GI.2019.17.1.e6

Statistical Analysis of Metagenomics Data
Cited by: 147
Author(s): M. Luz Calle
Software Mentions: 7
Published: over 7 years ago

10.3390/metabo9020024

Metabolic Alterations in Male-Sterile Potato as Compared to Male-Fertile
Cited by: 13
Author(s): М. Ф. Шишова, Roman Puzanskiy, О. А. Гаврилова, Shamuhommed Kurbanniazov, Kirill N. Demchenko, Vladislav V. Yemelyanov, Galina Pendinen, А. Л. Шаварда, Т. А. Гавриленко
Software Mentions: 7
Published: over 7 years ago

10.1007/s00248-018-1209-x

Rapid Microbial Community Changes During Initial Stages of Pine Litter Decomposition
Cited by: 35
Author(s): Marcin Gołębiewski, Agata Tarasek, Marcin Sikora, Edyta Deja-Sikora, Andrzej Tretyn, Maria Niklińska
Software Mentions: 7
Published: over 8 years ago

10.7717/peerj.5727

An automated, high-throughput method for standardizing image color profiles to improve image-based plant phenotyping
Cited by: 30
Author(s): Jeffrey C. Berry, Noah Fahlgren, Alexandria A Pokorny, Rebecca Bart, Kira M. Veley
Software Mentions: 7
Published: almost 8 years ago

10.1186/s13059-020-02144-7

1200 high-quality metagenome-assembled genomes from the rumen of African cattle and their relevance in the context of sub-optimal feeding
Cited by: 32
Author(s): Toby Wilkinson, Daniel Korir, Moses Ogugo, Robert D. Stewart, Mick Watson, Edith Paxton, John P. Goopy, Christelle Robert
Software Mentions: 7
Published: about 6 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 6 years ago

10.7717/peerj.6792

Timing and ecological priority shaped the diversification of sedges in the Himalayas
Cited by: 9
Author(s): Uzma Uzma, Pedro Jiménez‐Mejías, Rabia Amir, Muhammad Qasim Hayat, Andrew L. Hipp
Software Mentions: 7
Published: over 7 years ago

10.3390/microorganisms6040096

Genotype-Environment Interaction Shapes the Microbial Assemblage in Grapevine’s Phyllosphere and Carposphere: An NGS Approach
Cited by: 37
Author(s): Prashant Singh, Sylvain Santoni, Patrice This, Jean‐Pierre Péros
Software Mentions: 7
Published: almost 8 years ago

10.3390/microorganisms8050677

The Bacterial Gut Microbiota of Adult Patients Infected, Colonized or Noncolonized by Clostridioides difficile
Cited by: 21
Author(s): Monique J. T. Crobach, Quinten R Ducarmon, Elisabeth M. Terveer, Céline Harmanus, Ingrid M J G Sanders, Kees Verduin, Ed J. Kuijper, Romy D. Zwittink
Software Mentions: 7
Published: over 6 years ago

10.7717/peerj.6687

A longitudinal study of the faecal microbiome and metabolome of periparturient mares
Cited by: 11
Author(s): Shebl E. Salem, Rachael Hough, Chris Probert, Thomas W. Maddox, Philipp Antczak, Julian M. Ketley, Nicola Williams, Sarah J. Stoneham, Debra Archer
Software Mentions: 7
Published: over 7 years ago

10.1186/s40168-021-01044-7

Characterization of the public transit air microbiome and resistome reveals geographical specificity
Cited by: 20
Author(s): Marcus H. Y. Leung, Xinzhao Tong, Kari Oline Bøifot, Daniela Bezdan, Daniel Butler, David Danko, Jostein Gohli, D. C. Green, Mark Hernandez, Frank J. Kelly, Shawn Levy, Gabriella Mason-Buck, Marina Nieto-Caballero, Denise Syndercombe‐Court, Klas I. Udekwu, Brian P. Young, Christopher E. Mason, Marius Dybwad, P. K. H. Lee
Software Mentions: 7
Published: over 5 years ago

10.1111/1751-7915.13634

Soil microbiota influences clubroot disease by modulating Plasmodiophora brassicae and Brassica napus transcriptomes
Cited by: 19
Author(s): Stéphanie Daval, Kévin Gazengel, Arnaud Belcour, Juliette Linglin, Anne‐Yvonne Guillerm‐Erckelboudt, Alain Sarniguet, Maria Manzanares-Dauleux, Lionel Lebreton, Christophe Mougel
Software Mentions: 7
Published: about 6 years ago

10.3389/fmicb.2019.00675

Influence of Urbanization on Epiphytic Bacterial Communities of the Platanus × hispanica Tree Leaves in a Biennial Study
Cited by: 29
Author(s): Jordan Espenshade, Sofie Thijs, S.W. Gawroński, Hannelore Bové, Nele Weyens, Jaco Vangronsveld
Software Mentions: 7
Published: over 7 years ago

10.3390/genes10070484

Population Genetic Divergence and Environment Influence the Gut Microbiome in Oregon Threespine Stickleback
Cited by: 25
Author(s): Robert A Steury, Mark Currey, William A. Cresko, Brendan J. M. Bohannan
Software Mentions: 7
Published: about 7 years ago

10.3389/fmicb.2019.02330

Metagenomics Reveals Bacterial and Archaeal Adaptation to Urban Land-Use: N Catabolism, Methanogenesis, and Nutrient Acquisition
Cited by: 12
Author(s): Dietrich Epp Schmidt, D. Johan Kotze, Elisabeth Hornung, Heikki Setälä, Ian D. Yesilonis, Katalin Szlávecz, Miklós Dombos, Richard V. Pouyat, Sarel S. Cilliers, Zsolt Tóth, Stephanie A. Yarwood
Software Mentions: 7
Published: almost 7 years ago

10.7717/peerj.8103

Acquisition of fungi from the environment modifies ambrosia beetle mycobiome during invasion
Cited by: 33
Author(s): Davide Rassati, Lorenzo Marini, Antonino Malacrinò
Software Mentions: 7
Published: almost 7 years ago

10.1111/1751-7915.13301

Desulfitobacteriumcontributes to the microbial transformation of 2,4,5-T by methanogenic enrichment cultures from a Vietnamese active landfill
Cited by: 12
Author(s): Ute Lechner, Dominique Türkowsky, Thi Thu Hang Dinh, Hassan Al-Fathi, Stefan Schwoch, Stefan Franke, Michelle-Sophie Gerlach, Mandy Koch, Martin von Bergen, Nico Jehmlich, Thi Cam Ha Dang
Software Mentions: 7
Published: about 8 years ago

10.1111/1751-7915.13640

Synthetic community with six Pseudomonas strains screened from garlic rhizosphere microbiome promotes plant growth
Cited by: 55
Author(s): Lubo Zhuang, Yán Li, Zhenshuo Wang, Yue Yu, Nan Zhang, Chang Yeol Yang, Qingchao Zeng, Qi Wang
Software Mentions: 7
Published: about 6 years ago

10.1186/s42523-021-00117-0

Gut microbiome is affected by gut region but robust to host physiological changes in captive active-season ground squirrels
Cited by: 3
Author(s): Kirsten Grond, Courtney C. Kurtz, Jasmine J. Hatton, Michelle M. Sonsalla, Khrystyne N. Duddleston
Software Mentions: 7
Published: about 5 years ago

10.3389/fmicb.2021.620458

Thermal Stress Interacts With Surgeonfish Feces to Increase Coral Susceptibility to Dysbiosis and Reduce Tissue Regeneration
Cited by: 8
Author(s): Leïla Ezzat, Sarah Merolla, Cody S. Clements, Katrina S. Munsterman, Kaitlyn Landfield, Colton Stensrud, Emily R. Schmeltzer, Deron E. Burkepile, Rebecca Vega Thurber
Software Mentions: 7
Published: over 5 years ago

10.1186/s40168-017-0374-3

Dietary energy drives the dynamic response of bovine rumen viral communities
Cited by: 63
Author(s): Christopher L. Anderson, Matthew B. Sullivan, Samodha C. Fernando
Software Mentions: 7
Published: almost 9 years ago

10.1186/s12862-020-01708-2

The evolution of fruit scent: phylogenetic and developmental constraints
Cited by: 13
Author(s): Omer Nevo, Kim Valenta, Annemarie Kleiner, Diary Razafimandimby, Juan Antonio James Jeffrey, Colin A. Chapman, Manfred Ayasse
Software Mentions: 7
Published: almost 6 years ago

10.3389/fmicb.2019.02621

Influence of Various Processing Parameters on the Microbial Community Dynamics, Metabolomic Profiles, and Cup Quality During Wet Coffee Processing
Cited by: 31
Author(s): Sophia Jiyuan Zhang, Florac De Bruyn, Vasileios Pothakos, Gonzalo F Contreras, Z. Y. Cai, Cyril Moccand, Stefan Weckx, Luc De Vuyst
Software Mentions: 7
Published: almost 7 years ago

10.1093/aobpla/plab049

Genetic diversity and population structure of a global invader Mayweed chamomile (Anthemis cotula): management implications
Cited by: 2
Author(s): Subodh Adhikari, Samuel R. Revolinski, Sanford D. Eigenbrode, Ian C. Burke
Software Mentions: 7
Published: about 5 years ago

10.1038/s42003-020-01416-z

Genome-wide association studies and heritability analysis reveal the involvement of host genetics in the Japanese gut microbiota
Cited by: 37
Author(s): Sachiko Ishida, Koichi Kato, Masami Tanaka, Toshitaka Odamaki, Rieko Kubo, Eri Mitsuyama, Jin‐zhong Xiao, Rui Yamaguchi, Satoshi Uematsu, Seiya Imoto, Satoru Miyano
Software Mentions: 7
Published: almost 6 years ago

10.7717/peerj.8289

Substrate rugosity and temperature matters: patterns of benthic diversity at tropical intertidal reefs in the SW Atlantic
Cited by: 14
Author(s): Ana Carolina de Azevedo Mazzuco, Patricia Sarcinelli Stelzer, Ângelo F. Bernardino
Software Mentions: 7
Published: over 6 years ago

10.3389/fmicb.2014.00601

The R package otu2ot for implementing the entropy decomposition of nucleotide variation in sequence data
Cited by: 8
Author(s): Alban Ramette, Pier Luigi Buttigieg
Software Mentions: 7
Published: almost 12 years ago

10.1186/s40168-019-0684-8

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language
Cited by: 38
Author(s): Luís Pedro Coelho, Renato Alves, Paulo P. Monteiro, Jaime Huerta-Cepas, Ana T. Freitas, Peer Bork
Software Mentions: 7
Published: over 7 years ago

10.1007/s00248-019-01426-3

Fusarium Head Blight Modifies Fungal Endophytic Communities During Infection of Wheat Spikes
Cited by: 45
Author(s): Edward C. Rojas, Rumakanta Sapkota, Birgit Jensen, Henning Jørgensen, Tina Henriksson, Lise Nistrup Jørgensen, Mogens Nicolaisen, David B. Collinge
Software Mentions: 7
Published: about 7 years ago

10.7717/peerj.7038

Decoupled recovery of ecological communities after reclamation
Cited by: 3
Author(s): Zachary A. Sylvain, David H. Branson, Tatyana A. Rand, Natalie M. West, Erin K. Espeland
Software Mentions: 7
Published: about 7 years ago

10.1186/s40168-017-0302-6

Influence of the pneumococcal conjugate vaccines on the temporal variation of pneumococcal carriage and the nasal microbiota in healthy infants: a longitudinal analysis of a case–control study
Cited by: 27
Author(s): Moana Mika, Josua Maurer, Insa Korten, Aurélie Allemann, Suzanne Aebi, Silvio D. Brugger, Weihong Qi, Urs Frey, Philipp Latzin, Markus Hilty
Software Mentions: 7
Published: about 9 years ago

10.3389/fmicb.2020.536932

Hatching of Globodera pallida Induced by Root Exudates Is Not Influenced by Soil Microbiota Composition
Cited by: 5
Author(s): Camille Gautier, Lisa Martinez, Sylvain Fournet, Josselin Montarry, Jean-Claude Yvin, Éric Nguema-Ona, Anne‐Yvonne Guillerm‐Erckelboudt, Christophe Piriou, Juliette Linglin, Christophe Mougel, Lionel Lebreton
Software Mentions: 7
Published: almost 6 years ago

10.7717/peerj.281

Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction
Cited by: 1,961
Author(s): Zhian N. Kamvar, Javier F. Tabima, Niklaus J. Grünwald
Software Mentions: 7
Published: over 12 years ago

10.1038/s41598-019-52865-4

Niche partitioning of microbial communities in riverine floodplains
Cited by: 7
Author(s): Marc Peipoch, Scott R. Miller, Tiago Antão, H. Maurice Valett
Software Mentions: 7
Published: almost 7 years ago

10.3389/fmicb.2016.01367

Spatial and Temporal Dynamics of Pacific Oyster Hemolymph Microbiota across Multiple Scales
Cited by: 65
Author(s): Ana Lokmer, M. Anouk Goedknegt, David W. Thieltges, Dario Fiorentino, Sven Kuenzel, John F. Baines, K. Mathias Wegner
Software Mentions: 7
Published: about 10 years ago

10.7717/peerj.5319

Comparative chemical analysis of army ant mandibular gland volatiles (Formicidae: Dorylinae)
Cited by: 11
Author(s): Adrian Brückner, Philipp O. Hoenle, Christoph von Beeren
Software Mentions: 7
Published: about 8 years ago

10.1186/s40168-020-00869-y

Topography of the respiratory tract bacterial microbiota in cattle
Cited by: 36
Author(s): Christopher McMullen, Trevor W. Alexander, Renaud Léguillette, Matthew L. Workentine, Edouard Timsit
Software Mentions: 7
Published: about 6 years ago

10.1093/gigascience/giaa135

Dadasnake, a Snakemake implementation of DADA2 to process amplicon sequencing data for microbial ecology
Cited by: 33
Author(s): Christina Weißbecker, Beatrix Schnabel, Anna Heintz‐Buschart
Software Mentions: 7
Published: almost 6 years ago

10.1038/s42003-021-02315-7

Human encroachment into wildlife gut microbiomes
Cited by: 29
Author(s): Gloria Fackelmann, Mark A. F. Gillingham, Julian Schmid, Alexander Christoph Heni, Kerstin Wilhelm, Nina Schwensow, Simone Sommer
Software Mentions: 7
Published: about 5 years ago

10.1186/s12862-019-1510-4

Geographic isolation and climatic variability contribute to genetic differentiation in fragmented populations of the long-lived subalpine conifer Pinus cembra L. in the western Alps
Cited by: 26
Author(s): Endre György Tóth, Francine Tremblay, Johann M. Housset, Yves Bergeron, Christopher Carcaillet
Software Mentions: 7
Published: almost 7 years ago

10.1186/s40168-016-0167-0

Microbial succession in an inflated lunar/Mars analog habitat during a 30-day human occupation
Cited by: 28
Author(s): Teresa Mayer, Adriana Blachowicz, Alexander J. Probst, Parag Vaishampayan, Aleksandra Checinska, Tiffany M. Swarmer, Pablo de León, Kasthuri Venkateswaran
Software Mentions: 7
Published: over 10 years ago

10.3389/fmicb.2020.01330

Frog Skin Microbiota Vary With Host Species and Environment but Not Chytrid Infection
Cited by: 11
Author(s): Ariel Kruger
Software Mentions: 7
Published: about 6 years ago

10.7717/peerj.6197

Carabid community structure in northern China grassland ecosystems: Effects of local habitat on species richness, species composition and functional diversity
Cited by: 24
Author(s): Noëlline Tsafack, François Rebaudo, Hui Wang, D Nagy, Yi Xie, Xinpu Wang, Simone Fattorini
Software Mentions: 7
Published: over 7 years ago

10.3389/fmicb.2019.02286

Yeasts of Burden: Exploring the Mycobiome–Bacteriome of the Piglet GI Tract
Cited by: 35
Author(s): Ann M. Arfken, Juli Foster Frey, Timothy Ramsay, Katie Lynn Summers
Software Mentions: 7
Published: almost 7 years ago

10.1080/19490976.2020.1794466

Alterations of gut microbiota composition in neonates conceived by assisted reproductive technology and its relation to infant growth
Cited by: 6
Author(s): Qun Lü, Yuan Lin, Ting Chen, Hong Lv, Feiyang Diao, Cong Liu, Meijuan Peng, Xiufeng Ling, Hong Li, Yun Wang, Yongyue Wei, Jiangbo Du, Guangfu Jin, Yankai Xia, Hongxia Ma, Xingyin Liu, Hongbing Shen, Zhibin Hu
Software Mentions: 7
Published: about 6 years ago

10.7717/peerj.11985

Organic farming practices change the soil bacteria community, improving soil quality and maize crop yields
Cited by: 14
Author(s): Ademir Durrer, Thiago Gumière, Maurício Rumenos Guidetti Zagatto, Henrique Petry Feiler, Antônio Marcos Miranda Silva, Rodrigo Henriques Longaresi, Sérgio Kenji Homma, Elke Jurandy Bran Nogueira Cardoso
Software Mentions: 7
Published: almost 5 years ago

10.3390/microorganisms5040068

Linking Compositional and Functional Predictions to Decipher the Biogeochemical Significance in DFAA Turnover of Abundant Bacterioplankton Lineages in the North Sea
Cited by: 16
Author(s): Bernd Wemheuer, Franziska Wemheuer, Dimitri V. Meier, Sara Billerbeck, Helge-Ansgar Giebel, Meinhard Simon, Christoph Scherber, Rolf Daniel
Software Mentions: 7
Published: almost 9 years ago

10.1186/s40168-021-01012-1

Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
Cited by: 25
Author(s): Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, David Baker, Valeri Borger, Ullrich Wüllner, Falk Hildebrand
Software Mentions: 7
Published: over 5 years ago

10.1186/s12862-015-0571-2

Multilocus phylogeny and ecological differentiation of the “Eupelmus urozonus species group” (Hymenoptera, Eupelmidae) in the West-Palaearctic
Cited by: 12
Author(s): Fadel Al Khatib, Astrid Cruaud, Lucian Fusu, Guénaëlle Genson, Jean‐Yves Rasplus, Nicolas Ris, Gérard Delvare
Software Mentions: 7
Published: over 10 years ago

10.1186/s40168-017-0280-8

Human presence impacts fungal diversity of inflated lunar/Mars analog habitat
Cited by: 23
Author(s): Adriana Blachowicz, Teresa Mayer, Mina Bashir, Thomas R. Pieber, Pablo de León, Kasthuri Venkateswaran
Software Mentions: 7
Published: about 9 years ago

10.3389/fmicb.2020.00995

Microbiota in the Rhizosphere and Seed of Rice From China, With Reference to Their Transmission and Biogeography
Cited by: 31
Author(s): Xin Zhou, Jinting Wang, Z.F. Zhang, Wei Li, Wen Chen, Lei Cai
Software Mentions: 7
Published: about 6 years ago

10.1186/s40168-021-01025-w

Protists as main indicators and determinants of plant performance
Cited by: 51
Author(s): Sai Guo, Wu Xiong, Xinnan Hang, Zhilei Gao, Zixuan Jiao, Hongjun Liu, Yani Mo, Nan Zhang, George A. Kowalchuk, Rong Li, Stefan Geisen
Software Mentions: 7
Published: over 5 years ago

10.1186/1471-2164-15-480

Detection of copy number variations and their effects in Chinese bulls
Cited by: 50
Author(s): Liangzhi Zhang, Shangang Jia, Mingjuan Yang, Yao Xu, Congjun Li, Jiajie Sun, Yongzhen Huang, Xianyong Lan, Chuzhao Lei, Yang Zhou, Chunlei Zhang, Xin Zhao, Hong Chen
Software Mentions: 7
Published: about 12 years ago

10.1371/journal.pone.0102457

The “Bear” Essentials: Actualistic Research on Ursus arctos arctos in the Spanish Pyrenees and Its Implications for Paleontology and Archaeology
Cited by: 62
Author(s): Maite Arilla, Jordi Rosell, Ruth Blasco, Manuel Domínguez‐Rodrigo, Travis Rayne Pickering
Software Mentions: 7
Published: about 12 years ago

10.1371/journal.pone.0130659

The Biogeography of Putative Microbial Antibiotic Production
Cited by: 13
Author(s): Hélène Morlon, Timothy K. O’Connor, Jessica A. Bryant, Louise K. Charkoudian, Kathryn M. Docherty, E. B. Gareth Jones, Steven W. Kembel, Jessica L. Green, Brendan J. M. Bohannan
Software Mentions: 7
Published: about 11 years ago

10.1371/journal.pone.0237893

The response of culturally important plants to experimental warming and clipping in Pakistan Himalayas
Cited by: 2
Author(s): Saira Karimi, Muhammad Ali Nawaz, Saadia Naseem, Ahmed Akrem, Hussain Ali, Olivier Dangles, Zahid Ali
Software Mentions: 7
Published: over 5 years ago

10.7717/peerj.9391

Shannon diversity index: a call to replace the original Shannon’s formula with unbiased estimator in the population genetics studies
Cited by: 61
Author(s): Maciej K. Konopiński
Software Mentions: 7
Published: about 6 years ago

10.1371/journal.pone.0200729

The murine female intestinal microbiota does not shift throughout the estrous cycle
Cited by: 18
Author(s): Jessica G. Wallace, Ryan Potts, Jake C. Szamosi, Michael G. Surette, Deborah M. Sloboda
Software Mentions: 7
Published: about 8 years ago

10.1002/ece3.6994

Ecological and morphological determinants of evolutionary diversification in Darwin's finches and their relatives
Cited by: 14
Author(s): Ashley M. Reaney, Yanis Bouchenak‐Khelladi, Joe Tobias, Arhat Abzhanov
Software Mentions: 7
Published: almost 6 years ago

10.1186/s40168-015-0116-3

Microbiomes of the dust particles collected from the International Space Station and Spacecraft Assembly Facilities
Cited by: 151
Author(s): Aleksandra Checinska, Alexander J. Probst, Parag Vaishampayan, James R. White, Deepika Kumar, В. П. Степанов, George E. Fox, R. Henrik Nilsson, Duane L. Pierson, Jay L. Perry, Kasthuri Venkateswaran
Software Mentions: 7
Published: almost 11 years ago

10.3389/fmicb.2021.569791

Biological Soil Crust Bacterial Communities Vary Along Climatic and Shrub Cover Gradients Within a Sagebrush Steppe Ecosystem
Cited by: 15
Author(s): Yaqi You, Ken Aho, Kathleen A. Lohse, Stacy G. Schwabedissen, Rhesa N. Ledbetter, Timothy S. Magnuson
Software Mentions: 7
Published: over 5 years ago

10.18632/aging.102872

Transplant of microbiota from long-living people to mice reduces aging-related indices and transfers beneficial bacteria
Cited by: 26
Author(s): Yinfeng Chen, Siyuan Zhang, Bo Zeng, Jiangchao Zhao, Mingyao Yang, Mingwang Zhang, Yan Li, Qingyong Ni, De Wu, Ying Liu
Software Mentions: 7
Published: over 6 years ago

10.1128/AEM.00646-21

Spatial and Temporal Dynamics of Prokaryotic and Viral Community Assemblages in a Lotic System (Manatee Springs, Florida)
Cited by: 8
Author(s): Kema Malki, Natalie A. Sawaya, Michael J. Tisza, Felipe H. Coutinho, Karyna Rosario, Anna J. Székely, Mya Breitbart
Software Mentions: 7
Published: about 5 years ago

10.1186/s40168-016-0222-x

Gut microbiota dysbiosis contributes to the development of hypertension
Cited by: 972
Author(s): Jingjing Li, Fangqing Zhao, Yidan Wang, Junru Chen, Jie Tao, Gang Tian, Shouling Wu, Wenbin Liu, Qinghua Cui, Bin Geng, Weili Zhang, Ryan Weldon, Kelda Auguste, Lei Yang, Xiaoyan Liu, Li Chen, Xinchun Yang, Baoli Zhu, Jun Cai
Software Mentions: 7
Published: over 9 years ago

10.3390/nu13062081

Effects of a Diet Based on Foods from Symbiotic Agriculture on the Gut Microbiota of Subjects at Risk for Metabolic Syndrome
Cited by: 4
Author(s): Silvia Turroni, Elisabetta Petracci, Valeria Edefonti, Anna Maria Giudetti, Federica D’Amico, Lisa Paganelli, Giusto Giovannetti, Laura Del Coco, Francesco Paolo Fanizzi, Simone Rampelli, Débora Antoniazi Del Guerra, Claudia Rengucci, Jenny Bulgarelli, Marcella Tazzari, Nicoletta Pellegrini, Monica Ferraroni, Oriana Nanni, Patrizia Serra
Software Mentions: 7
Published: about 5 years ago

10.1080/20002297.2019.1599652

The microbiota of the mother at birth and its influence on the emerging infant oral microbiota from birth to 1 year of age: a cohort study
Cited by: 21
Author(s): Eimear Hurley, David Mullins, Maurice P. J. Barrett, Carol Anne O’Shea, M J Kinirons, C. Anthony Ryan, Catherine Stanton, Helen Whelton, Hugh M. B. Harris, Paul W. O’Toole
Software Mentions: 7
Published: over 7 years ago

10.3389/fmicb.2018.01604

Increased Numbers of Culturable Inhibitory Bacterial Taxa May Mitigate the Effects of Batrachochytrium dendrobatidis in Australian Wet Tropics Frogs
Cited by: 18
Author(s): Sara C. Bell, SM Garland, Ross A. Alford
Software Mentions: 7
Published: about 8 years ago

10.1186/s42523-021-00130-3

Differential effects of elevated nest temperature and parasitism on the gut microbiota of wild avian hosts
Cited by: 5
Author(s): Melissa R. Ingala, Lauren Albert, Alyssa Addesso, Mackenzie J. Watkins, Sarah A. Knutie
Software Mentions: 7
Published: almost 5 years ago

10.1016/j.jprot.2018.08.013

Proteomic comparison of selective breeding and growth hormone transgenesis in fish: Unique pathways to enhanced growth
Cited by: 29
Author(s): Dwight R. Causey, Jin-Hyoung Kim, David Stead, Samuel Martín, Robert H. Devlin, Daniel J. Macqueen
Software Mentions: 7
Published: over 7 years ago

10.1128/mSystems.00066-18

Microbial Community Cohesion Mediates Community Turnover in Unperturbed Aquifers
Cited by: 53
Author(s): Robert Danczak, Michael D. Johnston, Chris Kenah, Michael T. Slattery, Michael J. Wilkins
Software Mentions: 7
Published: about 8 years ago

10.1186/s12898-018-0187-7

A random survival forest illustrates the importance of natural enemies compared to host plant quality on leaf beetle survival rates
Cited by: 5
Author(s): Thomas A. Verschut, Peter A. Hambäck
Software Mentions: 7
Published: almost 8 years ago

10.3389/fmicb.2020.536978

Repetitive Sampling and Control Threshold Improve 16S rRNA Gene Sequencing Results From Produced Waters Associated With Hydraulically Fractured Shale
Cited by: 2
Author(s): Jennifer L. Shelton, Elliott P. Barnhart, Leslie F. Ruppert, Aaron M. Jubb, Madalyn S. Blondes, Christina A. DeVera
Software Mentions: 7
Published: almost 6 years ago

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Papers Mentioning vegan 6,903