bioconductor: phyloseq | Projects

10.1186/s40168-017-0242-1

New evidences on the altered gut microbiota in autism spectrum disorders
Cited by: 599
Author(s): Francesco Strati, Duccio Cavalieri, Davide Albanese, Claudio De Felice, Claudio Donati, Joussef Hayek, Olivier Jousson, Silvia Leoncini, Daniela Renzi, Antonino Calabrò, Carlotta De Filippo
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0172647

Salivary inflammatory markers and microbiome in normoglycemic lean and obese children compared to obese children with type 2 diabetes
Cited by: 46
Author(s): Waleed F. Janem, Frank A. Scannapieco, Amarpeet Sabharwal, Maria Tsompana, Harvey Alan Berman, Elaine M. Haase, Jeffrey C. Miecznikowski, Lucy D. Mastrandrea
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0226635

Colonic bacterial composition is sex-specific in aged CD-1 mice fed diets varying in fat quality
Cited by: 7
Author(s): Allison L Unger, Korin Eckstrom, Thomas L. Jetton, Jana Kraft
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-018-20967-0

Diversity and metabolic potential of the microbiota associated with a soil arthropod
Cited by: 29
Author(s): Simon Bahrndorff, Nadieh de Jonge, Jacob Kjerulf Hansen, Jannik Mørk Skovgaard Lauritzen, Lasse Holt Spanggaard, Mathias Hamann Sørensen, Morten Yde, Jeppe Lund Nielsen
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-21255-7

Vaccination Against Lawsonia intracellularis Decreases Shedding of Salmonella enterica serovar Typhimurium in Co-Infected Pigs and Alters the Gut Microbiome
Cited by: 20
Author(s): Fernando Leite, Randall S. Singer, Tonya Ward, Connie J. Gebhart, Richard E. Isaacson
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-23679-7

Response of Aquatic Bacterial Communities to Hydraulic Fracturing in Northwestern Pennsylvania: A Five-Year Study
Cited by: 21
Author(s): Nikea Ulrich, Veronica Kirchner, Rebecca Drucker, Justin Wright, Christopher J. McLimans, Terry C. Hazen, Maria Fernanda Campa, Christopher J. Grant, Regina Lamendella
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0244489

Consistent patterns in 16S and 18S microbial diversity from the shells of the common and widespread red-eared slider turtle (Trachemys scripta)
Cited by: 3
Author(s): Matthew Parks, Cameron Kedy, Casey Skalla
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0183984

Development of tailored indigenous marine consortia for the degradation of naturally weathered polyethylene films
Cited by: 76
Author(s): Evdokia Syranidou, Katerina Karkanorachaki, Filippo Amorotti, Eftychia Repouskou, Kevin J. Kroll, Boris A. Kolvenbach, Philippe F.-X. Corvini, Fabio Fava, Nicolas Kalogerakis
Software Mentions: 2
Published: about 9 years ago

10.3389/fmicb.2020.00983

Shifts in the Fecal Microbial Community of Cystoisospora suis Infected Piglets in Response to Toltrazuril
Cited by: 10
Author(s): Aruna Shrestha, Barbara U. Metzler‐Zebeli, Hamadi Karembé, Daniel Šperling, Simone Koger, Anja Joachim
Software Mentions: 2
Published: over 6 years ago

10.1038/s42003-020-1106-y

Rapid detection of microbiota cell type diversity using machine-learned classification of flow cytometry data
Cited by: 21
Author(s): Birge D. Özel Duygan, Noushin Hadadi, Ambrin Farizah Babu, Markus Seyfried, van der Peter Meer
Software Mentions: 2
Published: about 6 years ago

10.1038/s42003-020-0838-z

Growth and rapid succession of methanotrophs effectively limit methane release during lake overturn
Cited by: 36
Author(s): Magdalena Mayr, M. Zimmermann, Jason Dey, Andreas Brand, Bernhard Wehrli, Helmut Bürgmann
Software Mentions: 2
Published: over 6 years ago

10.1186/s40168-017-0229-y

Optimization of DNA extraction for advancing coral microbiota investigations
Cited by: 33
Author(s): Laura Weber, Emelia DeForce, Amy Apprill
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0251883

Biogeochemical dynamics and microbial community development under sulfate- and iron-reducing conditions based on electron shuttle amendment
Cited by: 5
Author(s): Theodore M. Flynn, Dionysios A. Antonopoulos, Kelly Skinner, Jennifer M. Brulc, Eric R. Johnston, Maxim I. Boyanov, Man Jae Kwon, Kenneth M. Kemner, Edward J. O’Loughlin
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2020.00315

The Microbial Diversity of Cabbage Pest Delia radicum Across Multiple Life Stages
Cited by: 6
Author(s): Tijs J. M. van den Bosch, Cornelia U. Welte
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0245534

Gut microbiome dysbiosis and correlation with blood biomarkers in active-tuberculosis in endemic setting
Cited by: 12
Author(s): Aasia Khaliq, Resmi Ravindran, Samia Afzal, Prasant Kumar Jena, Muhammad Akhtar, Atiqa Ambreen, Yu Wan, K. A. Malik, Muhammad Irfan, Imran Khan
Software Mentions: 2
Published: over 5 years ago

10.1186/s12866-021-02168-4

Meta-analysis suggests the microbiome responds to Evolve and Resequence experiments in Drosophila melanogaster
Cited by: 9
Author(s): Lucas P. Henry, Julien F. Ayroles
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2019.03107

Using Precisely Defined in vivo Microbiotas to Understand Microbial Regulation of IgE
Cited by: 21
Author(s): Madeleine Wyss, Kirsty Brown, Christine E. Thomson, Mia Elizabeth Koegler, Fernanda Fernandes Terra, Vina Fan, Francesca Ronchi, Dominique Bihan, Ian A. Lewis, Markus B. Geuking, Kathy D. McCoy
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0142825

Variation in Taxonomic Composition of the Fecal Microbiota in an Inbred Mouse Strain across Individuals and Time
Cited by: 62
Author(s): Yana Emmy Hoy, Elisabeth M. Bik, Trevor D. Lawley, Susan Holmes, Denise M. Monack, Julie A. Theriot, David A. Relman
Software Mentions: 2
Published: almost 11 years ago

10.3389/fmicb.2018.02969

Minimal Influence of Extracellular DNA on Molecular Surveys of Marine Sedimentary Communities
Cited by: 30
Author(s): Gustavo A. Ramírez, Steffen Leth Jørgensen, Rui Zhao, Steven D’Hondt
Software Mentions: 2
Published: almost 8 years ago

10.1186/s40168-017-0352-9

Laboratory colonization stabilizes the naturally dynamic microbiome composition of field collected Dermacentor andersoni ticks
Cited by: 28
Author(s): Cory A. Gall, Glen A. Scoles, Krisztián Mágori, Kathleen L. Mason, Kelly A. Brayton
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41396-019-0576-8

Inside out: microbiota dynamics during host-plant adaptation of whiteflies
Cited by: 42
Author(s): Diego Santos-García, Natividad Mestre-Rincon, Einat Zchori-Fein, Shai Morin
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0223067

Prokaryotic and eukaryotic microbiomes associated with blooms of the ichthyotoxic dinoflagellate Cochlodinium (Margalefidinium) polykrikoides in New York, USA, estuaries
Cited by: 13
Author(s): Theresa K. Hattenrath-Lehmann, Jennifer G. Jankowiak, Florian Koch, Christopher J. Gobler
Software Mentions: 2
Published: almost 7 years ago

10.1093/femsec/fiy127

Effect of spatial origin and hydrocarbon composition on bacterial consortia community structure and hydrocarbon biodegradation rates
Cited by: 25
Author(s): Lloyd D. Potts, Luis J Perez Calderon, Evangelia Gontikaki, Lehanne Keith, Cécile Gubry‐Rangin, James A. Anderson, Ursula Witte
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2019.01060

Bacterial Community Dynamics in an Oyster Hatchery in Response to Probiotic Treatment
Cited by: 31
Author(s): Rebecca J. Stevick, Saebom Sohn, Tejashree Modak, David R. Nelson, David C. Rowley, Karin Tammi, Roxanna Smolowitz, Kathryn Markey Lundgren, Anton F. Post, Marta Gómez-Chiarri
Software Mentions: 2
Published: over 7 years ago

10.1186/s40168-018-0467-7

Mind the gut: genomic insights to population divergence and gut microbial composition of two marine keystone species
Cited by: 27
Author(s): Katharina Fietz, Christian Olaf Rye Hintze, Mikkel Skovrind, Tue Kjærgaard Nielsen, Morten T. Limborg, Marcus Anders Krag, Per J. Palsbøll, Lars Hestbjerg Hansen, Peter Rask Møller, M. Thomas P. Gilbert
Software Mentions: 2
Published: over 8 years ago

10.1186/s12879-019-3674-3

Viral species richness and composition in young children with loose or watery stool in Ethiopia
Cited by: 17
Author(s): Kristen Aiemjoy, Eda Altan, Solomon Aragie, Dionna M. Fry, Tung Gia Phan, Xutao Deng, Melsew Chanyalew, Zerihun Tadesse, E. Kelly Callahan, Eric Delwart, Jeremy D. Keenan
Software Mentions: 2
Published: over 7 years ago

10.1186/1472-6831-14-157

Pyrosequencing of supra- and subgingival biofilms from inflamed peri-implant and periodontal sites
Cited by: 43
Author(s): Simone Schaumann, Ingmar Staufenbiel, Ralph Scherer, Markus B. Schilhabel, Andreas Winkel, Sascha Nico Stumpp, Jörg Eberhard, Meike Stiesch
Software Mentions: 2
Published: almost 12 years ago

10.1038/ismej.2016.139

A family of interaction-adjusted indices of community similarity
Cited by: 36
Author(s): Thomas Sebastian Benedikt Schmidt, João F. Matias Rodrigues, Christian von Mering
Software Mentions: 2
Published: almost 10 years ago

10.1186/s12864-019-5607-3

Combining microfluidics and RNA-sequencing to assess the inducible defensome of a mushroom against nematodes
Cited by: 15
Author(s): Annageldi Tayyrov, Claire E. Stanley, Sophie Azevedo, Markus Künzler
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2017.00801

Spatial Structure of the Mormon Cricket Gut Microbiome and its Predicted Contribution to Nutrition and Immune Function
Cited by: 25
Author(s): Chad C. Smith, Robert B. Srygley, Frank Healy, Karthikeyan Swaminath, Ulrich G. Mueller
Software Mentions: 2
Published: over 9 years ago

10.3389/fmicb.2021.669937

Candidatus Methylumidiphilus Drives Peaks in Methanotrophic Relative Abundance in Stratified Lakes and Ponds Across Northern Landscapes
Cited by: 9
Author(s): Gaëtan Martin, Antti J. Rissanen, Sarahi L. Garcia, Maliheh Mehrshad, Moritz Buck, Sari Peura
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0179443

DNA extraction replicates improve diversity and compositional dissimilarity in metabarcoding of eukaryotes in marine sediments
Cited by: 61
Author(s): Anders Lanzén, Katrine Lekang, Inge Jonassen, Eric M. Thompson, Christofer Troedsson
Software Mentions: 2
Published: over 9 years ago

10.1128/mSystems.00055-19

Selection, Succession, and Stabilization of Soil Microbial Consortia
Cited by: 48
Author(s): Elias K. Zegeye, Colin Brislawn, Yuliya Farris, Sarah Fansler, Kirsten Hofmockel, Janet K. Jansson, Aaron Wright, Emily B. Graham, Dan Naylor, Ryan McClure, Hans C. Bernstein
Software Mentions: 2
Published: about 7 years ago

10.1128/mBio.01917-20

Cooperation, Competition, and Specialized Metabolism in a Simplified Root Nodule Microbiome
Cited by: 25
Author(s): Bridget L. Hansen, Rita de Cássia Pessotti, Monika Fischer, Alyssa Collins, Laila El-Hifnawi, Mira D. Liu, Matthew F. Traxler
Software Mentions: 2
Published: about 6 years ago

10.3389/fmicb.2021.676610

Native AMF Communities in an Italian Vineyard at Two Different Phenological Stages of Vitis vinifera
Cited by: 2
Author(s): Patrizia Cesaro, Nadia Massa, Elisa Bona, Giorgia Novello, Valeria Todeschini, Lara Boatti, Flavio Mignone, Elisa Gamalero, Graziella Berta, Graziano Lingua
Software Mentions: 2
Published: about 5 years ago

10.3389/fmicb.2021.621069

Zooming Into the Microbiota of Home-Made and Industrial Kefir Produced in Greece Using Classical Microbiological and Amplicon-Based Metagenomics Analyses
Cited by: 29
Author(s): Μαρία Κάζου, Andriana Grafakou, Effie Tsakalidou, Marina Georgalaki
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2021.700256

Microbiological Surveillance of Biogas Plants: Targeting Acetogenic Community
Cited by: 6
Author(s): Abhijeet Singh, Jan Moestedt, A.J. van den Berg, Anna Schnürer
Software Mentions: 2
Published: about 5 years ago

10.3389/fmicb.2017.02321

Parallelized, Aerobic, Single Carbon-Source Enrichments from Different Natural Environments Contain Divergent Microbial Communities
Cited by: 23
Author(s): Theodore M. Flynn, Jason C. Koval, Stephanie M. Greenwald, Sarah M. Owens, Kenneth M. Kemner, Dionysios A. Antonopoulos
Software Mentions: 2
Published: almost 9 years ago

10.3389/fmicb.2021.675763

Directional Selection of Microbial Community Reduces Propionate Accumulation in Glycerol and Glucose Anaerobic Bioconversion Under Elevated pCO2
Cited by: 11
Author(s): Pamela Ceron-Chafla, Yu Ting Chang, Korneel Rabaey, Jules B. van Lier, Ralph E.F. Lindeboom
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2020.01671

Metagenomic Characterization of Indoor Dust Bacterial and Fungal Microbiota in Homes of Asthma and Non-asthma Patients Using Next Generation Sequencing
Cited by: 18
Author(s): Jean‐Pierre Gangneux, Mohamed Sassi, Pierre Lemire, Pierre Le Cann
Software Mentions: 2
Published: about 6 years ago

10.3389/fmicb.2018.03190

Specific Effect of Trace Metals on Marine Heterotrophic Microbial Activity and Diversity: Key Role of Iron and Zinc and Hydrocarbon-Degrading Bacteria
Cited by: 13
Author(s): Federico Baltar, Andres Gutiérrez‐Rodríguez, Moana Meyer, Isadora Skudelny, Sylvia G. Sander, Blair Thomson, Scott D. Nodder, Rob Middag, Sergio E. Morales
Software Mentions: 2
Published: almost 8 years ago

10.3389/fmicb.2019.00870

Impact of Warming on Greenhouse Gas Production and Microbial Diversity in Anoxic Peat From a Sphagnum-Dominated Bog (Grand Rapids, Minnesota, United States)
Cited by: 39
Author(s): Max Kolton, Ansley Marks, Rachel M. Wilson, Jeffrey P. Chanton, Joel E. Kostka
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2020.01469

Assessment of Gram- and Viability-Staining Methods for Quantifying Bacterial Community Dynamics Using Flow Cytometry
Cited by: 14
Author(s): Aurore Duquenoy, Samuel Bellais, Cyrielle Gasc, Carole Schwintner, Joël Doré, Vincent Thomas
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2018.02246

A Nematode of the Mid-Atlantic Ridge Hydrothermal Vents Harbors a Possible Symbiotic Relationship
Cited by: 16
Author(s): Laure Bellec, Marie-Anne Cambon-Bonavita, Valérie Cueff-Gauchard, Lucile Durand, Nicolas Gayet, Daniela Zeppilli
Software Mentions: 2
Published: about 8 years ago

10.3389/fmicb.2016.01040

Microbial Community Responses to Increased Water and Organic Matter in the Arid Soils of the McMurdo Dry Valleys, Antarctica
Cited by: 43
Author(s): Heather N. Buelow, Ara S. Winter, David Van Horn, John E. Barrett, M. N. Gooseff, Egbert Schwartz, Cristina Takacs-Vesbach
Software Mentions: 2
Published: about 10 years ago

10.3389/fmicb.2021.619632

Microbial Communities in Flexible Biomethanation of Hydrogen Are Functionally Resilient Upon Starvation
Cited by: 12
Author(s): Washington Logroño, Denny Popp, Marcell Nikolausz, Paul Kluge, Hauke Harms, Sabine Kleinsteuber
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2020.01938

Distinct Temporal Succession of Bacterial Communities in Early Marine Biofilms in a Portuguese Atlantic Port
Cited by: 26
Author(s): Jorge T. Antunes, António G G Sousa, Joana Azevedo, Adriana Rego, Pedro N. Leão, Vítor Vasconcelos
Software Mentions: 2
Published: about 6 years ago

10.3389/fmicb.2016.01227

Age and Gender Affect the Composition of Fungal Population of the Human Gastrointestinal Tract
Cited by: 146
Author(s): Francesco Strati, Monica Di Paola, Irene Stefanini, Davide Albanese, Lisa Rizzetto, Paolo Lionetti, Antonino Calabrò, Olivier Jousson, Claudio Donati, Duccio Cavalieri, Carlotta De Filippo
Software Mentions: 2
Published: about 10 years ago

10.3389/fmicb.2015.01342

Actinobacterial Diversity in Volcanic Caves and Associated Geomicrobiological Interactions
Cited by: 81
Author(s): Cristina Riquelme, Jennifer J.M. Hathaway, Maria de Lurdes Enes Dapkevicius, Ana Z. Miller, Ara Kooser, Diana E. Northup, Valme Jurado, Octavio Fernández, Cesáreo Sáiz‐Jiménez, Naowarat Cheeptham
Software Mentions: 2
Published: almost 11 years ago

10.3389/fmicb.2017.01078

The Impact of Hydration and Temperature on Bacterial Diversity in Arid Soil Mesocosms
Cited by: 15
Author(s): Adam Šťovíček, Ani Azatyan, M. I. M. Soares, Osnat Gillor
Software Mentions: 2
Published: over 9 years ago

10.3389/fmicb.2015.01454

Bacterial Composition and Survival on Sahara Dust Particles Transported to the European Alps
Cited by: 66
Author(s): Marco Meola, Anna Lazzaro, Josef Zeyer
Software Mentions: 2
Published: almost 11 years ago

10.3389/fmicb.2017.01464

Intestinal Bacterial Communities of Trypanosome-Infected and Uninfected Glossina palpalis palpalis from Three Human African Trypanomiasis Foci in Cameroon
Cited by: 12
Author(s): F. Jacob, Tresor Tito Tanekou Melachio, Guy R. Njitchouang, Geoffrey Gimonneau, Flobert Njiokou, Luc Abate, Richard Christen, Julie Réveillaud, Anne Geiger
Software Mentions: 2
Published: about 9 years ago

10.3389/fmicb.2020.606825

Synthetic Sequencing Standards: A Guide to Database Choice for Rumen Microbiota Amplicon Sequencing Analysis
Cited by: 11
Author(s): Pamela M. Smith, Sinéad M. Waters, Ruth Gómez Expósito, Hauke Smidt, Crea Carberry, Matthew S. McCabe
Software Mentions: 2
Published: almost 6 years ago

10.3389/fmicb.2020.587979

Effects of Bacterial Supplementation on Black Soldier Fly Growth and Development at Benchtop and Industrial Scale
Cited by: 16
Author(s): Emilia Kooienga, Courtney N. Baugher, Morgan Currin, Jeffery K. Tomberlin, Heather R. Jordan
Software Mentions: 2
Published: almost 6 years ago

10.3389/fmicb.2020.00311

Microbiota Composition and Evenness Predict Survival Rate of Oysters Confronted to Pacific Oyster Mortality Syndrome
Cited by: 42
Author(s): Camille Clérissi, Julien de Lorgeril, Bruno Petton, Aude Lucasson, Jean-Michel Escoubas, Yannick Gueguen, Lionel Dégremont, Guillaume Mitta, Ève Toulza
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-019-51488-z

Changes in motor behavior, neuropathology, and gut microbiota of a Batten disease mouse model following administration of acidified drinking water
Cited by: 18
Author(s): Tyler B. Johnson, Logan M. Langin, Jing Zhao, Jill M. Weimer, David A. Pearce, Attila Kovács
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-019-56042-5

Picoplankton accumulate and recycle polyphosphate to support high primary productivity in coastal Lake Ontario
Cited by: 15
Author(s): Jiying Li, Diane Plouchart, Arthur Zastepa, Maria Dittrich
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-020-62246-x

Assessment of unconventional antimicrobial compounds for the control of ‘Candidatus Liberibacter asiaticus’, the causative agent of citrus greening disease
Cited by: 16
Author(s): C. L. Gardner, Danilo Silva, Fernando A. Pagliai, Pan Ling, Kaylie A. Padgett-Pagliai, Ryan A. Blaustein, Marcelo Luciano Merli, Dan Zhang, Cécile Pereira, Max Teplitski, José X. Chaparro, Svetlana Y. Folimonova, Ana Conesa, Salvador A. Gezan, Graciela L. Lorca, Claudio F. González
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-020-70443-x

Effect of cereal fermentation and carbohydrase supplementation on growth, nutrient digestibility and intestinal microbiota in liquid-fed grow-finishing pigs
Cited by: 14
Author(s): A. Torres-Pitarch, Gillian E. Gardiner, Paul Cormican, Mary C. Rea, Fiona Crispie, John V. O’Doherty, Pierre Cozannet, Tomás Ryan, James T. Cullen, Peadar G. Lawlor
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-020-70683-x

Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype
Cited by: 9
Author(s): Sahar Abdelrazek, Sulbha Choudhari, Jyothi Thimmapuram, Petr Šimon, Micaela Colley, Tesfaye Mengiste, Lori Hoagland
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-020-73913-4

The wasted chewing gum bacteriome
Cited by: 7
Author(s): Leila Satari, Alba Guillén, Àngela Vidal‐Verdú, Manuel Porcar
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-020-73614-y

Manipulation of the gut microbiota by the use of prebiotic fibre does not override a genetic predisposition to heart failure
Cited by: 7
Author(s): Hamdi Jama, April Fiedler, Kirill Tsyganov, Erin M. Nelson, Duncan Horlock, Michael Nakai, Helen Kiriazis, Chad Johnson, Xiao Jun Du, Charles R. Mackay, Francine Z. Marques, David M. Kaye
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-020-76145-8

Alterations of the gut bacterial microbiota in rhesus macaques with SIV infection and on short- or long-term antiretroviral therapy
Cited by: 17
Author(s): Summer Siddiqui, Duran Bao, Lara A. Doyle-Meyers, Jason Dufour, Yuntao Wu, Yaozhong Liu, Binhua Ling
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-021-89606-5

Effect of a bioconverted product of Lotus corniculatus seed on the axillary microbiome and body odor
Cited by: 2
Author(s): Minji Kim, Setu Bazie Tagele, HyungWoo Jo, Min‐Chul Kim, Young Hun Jung, Yeong-Jun Park, Jai-Hyun So, Hae Jin Kim, Ho Jin Kim, Dong-Geol Lee, Seunghyun Kang, Jae‐Ho Shin
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-021-93859-5

Environmental DNA reveals the fine-grained and hierarchical spatial structure of kelp forest fish communities
Cited by: 18
Author(s): Thomas Lamy, Kathleen J. Pitz, Francisco P. Chávez, Christie E. Yorke, Robert J. Miller
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-94498-6

Variations in the oral microbiome are associated with depression in young adults
Cited by: 33
Author(s): Benjamin Wingfield, Coral Lapsley, Andrew McDowell, Georgios Miliotis, Margaret McLafferty, Siobhan O’Neill, Sonya Coleman, TM McGinnity, Anthony J. Bjourson, Elaine Murray
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-021-98248-6

Ruminant fat intake improves gut microbiota, serum inflammatory parameter and fatty acid profile in tissues of Wistar rats
Cited by: 2
Author(s): Larissa de Brito Medeiros, Susana P. Alves, Rui J.B. Bessa, Juliana Késsia Barbosa Soares, Camila Neves Meireles Costa, Jailane de Souza Aquino, Gerlane Coelho Bernardo Guerra, Daline Fernandes de Souza Araújo, Lydiane Tavares Toscano, Alexandre Silva, Adriano Francisco Alves, Mateus Lacerda Pereira Lemos, Wydemberg J. Araújo, Ariosvaldo Nunes de Medeiros, Celso José Bruno de Oliveira, Rita de Cássia Ramos do Egypto Queiroga
Software Mentions: 2
Published: about 5 years ago

10.3390/toxics9080192

Cutaneous Effects of In Utero and Lactational Exposure of C57BL/6J Mice to 2,3,7,8-Tetrachlorodibenzo-p-dioxin
Cited by: 3
Author(s): Jyoti Bhuju, Kristin M. Olesen, Clarisse S. Muenyi, Tejesh Patel, Robert W. Read, Lauren Thompson, Omar Skalli, Qi Zheng, Elizabeth A. Grice, Carrie Hayes Sutter, Thomas R. Sutter
Software Mentions: 2
Published: about 5 years ago

10.1128/mBio.01366-16

Large Blooms of <i>Bacillales</i> ( <i>Firmicutes</i> ) Underlie the Response to Wetting of Cyanobacterial Biocrusts at Various Stages of Maturity
Cited by: 22
Author(s): Ulaş Karaöz, Estelle Couradeau, Ulisses Nunes da Rocha, Hsiao Chien Lim, Trent Northen, Ferrán García-Pichel, Eoin L. Brodie
Software Mentions: 2
Published: over 8 years ago

10.1128/mBio.02820-19

Long-Term Effects of Early-Life Antibiotic Exposure on Resistance to Subsequent Bacterial Infection
Cited by: 42
Author(s): C. Roubaud-Baudron, Victoria Ruiz, Alexander M. Swan, Bruce A. Vallance, Ceren Özkul, Zhiheng Pei, Jackie Li, Thomas Battaglia, Guillermo I. Perez-Perez, Martin J. Blaser
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41598-020-74137-2

Optimized DNA extraction and purification method for characterization of bacterial and fungal communities in lung tissue samples
Cited by: 14
Author(s): Vicente Pérez‐Brocal, Fabien Magne, Susana Ruiz-Ruiz, Carolina A. Ponce, R. Bustamante, Viviana San Martin, Mireya Gutierrez, Gianna Gatti, Sergio L. Vargas, Andrés Moya
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-020-73156-3

Next-generation sequencing in the diagnosis of viral encephalitis: sensitivity and clinical limitations
Cited by: 20
Author(s): Karol Perlejewski, Iwona Bukowska-Ośko, Małgorzata Rydzanicz, Agnieszka Pawełczyk, Kamila Caraballo Cortѐs, Sylwia Osuch, Marcin Paciorek, Tomasz Dzieciątkowski, Marek Radkowski, Tomasz Laskus
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-020-66452-5

Effect of life stage and pesticide exposure on the gut microbiota of Aedes albopictus and Culex pipiens L
Cited by: 12
Author(s): Elijah O. Juma, Brian F. Allan, Chang‐Hyun Kim, Chris Stone, Christopher A. Dunlap, Ephantus J. Muturi
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-020-65321-5

No correlation between microbiota composition and blood parameters in nesting flatback turtles (Natator depressus)
Cited by: 5
Author(s): T. Franciscus Scheelings, Robert J. Moore, Thi Thu Hao Van, Marcel Klaassen, Richard D. Reina
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-020-64788-6

The role of the adaptor molecule STING during Schistosoma mansoni infection
Cited by: 6
Author(s): Cristina de Fátima de Oliveira Brum Augusto de Souza, Rodrigo C. O. Sanches, Natan R. G. Assis, Fábio V. Marinho, Fábio S. Mambelli, Suellen B. Morais, Enrico G. T. Gimenez, Erika S. Guimarães, Thaís Castro, Sérgio C. Oliveira
Software Mentions: 1
Published: over 6 years ago

10.7150/thno.43716

Parthenolide ameliorates colon inflammation through regulating Treg/Th17 balance in a gut microbiota-dependent manner
Cited by: 123
Author(s): Yaojiang Liu, Bo Tang, Fengchao Wang, Li Tang, Yuanyuan Lei, Ya Luo, Shengjie Huang, Min Ye, Ling-Yi Wu, Wei Wang, Shuang Liu, Shiming Yang, Xiao‐Fan Zhao
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-020-63688-z

Rebaudioside affords hepatoprotection ameliorating sugar sweetened beverage- induced nonalcoholic steatohepatitis
Cited by: 12
Author(s): Dong Xi, Jashdeep Bhattacharjee, Rosa Marı́a Salazar-González, Soyoung Park, Alice Jang, Mikako Warren, Russell Merritt, Sonia Michail, Sébastien G. Bouret, Rohit Kohli
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2017.01495

Cyanobacterial Allelochemicals But Not Cyanobacterial Cells Markedly Reduce Microbial Community Diversity
Cited by: 30
Author(s): Filipa Dias, Jorge T. Antunes, Tiago Ribeiro, Joana Azevedo, Vı́tor Vasconcelos, Pedro N. Leão
Software Mentions: 1
Published: about 9 years ago

10.1038/s41598-019-51293-8

Beneficial effects of Lactobacillus reuteri 6475 on bone density in male mice is dependent on lymphocytes
Cited by: 23
Author(s): Fraser L. Collins, Naiomy Deliz Rios‐Arce, Jonathan D. Schepper, A. Daniel Jones, Laura Schaefer, Robert A. Britton, Laura R. McCabe, Narayanan Parameswaran
Software Mentions: 1
Published: almost 7 years ago

10.3390/toxins10110443

Impact of Dinophysis acuminata Feeding Mesodinium rubrum on Nutrient Dynamics and Bacterial Composition in a Microcosm
Cited by: 9
Author(s): Gao Rong Han, Chenlei Hua, Mengmeng Tong
Software Mentions: 1
Published: almost 8 years ago

10.3389/fmicb.2020.01029

Over Winter Microbial Processes in a Svalbard Snow Pack: An Experimental Approach
Cited by: 4
Author(s): Alexandra Holland, Benoît Bergk Pinto, Rose Layton, Christopher Williamson, Alexandre M. Anesio, Timothy M. Vogel, Catherine Larose, Martyn Tranter
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2016.01448

From Mouth to Model: Combining in vivo and in vitro Oral Biofilm Growth
Cited by: 23
Author(s): Barbara Klug, Elisabeth Santigli, Christian Westendorf, Stefan Tangl, Gernot Wimmer, Martín Grube
Software Mentions: 1
Published: about 10 years ago

10.3389/fmicb.2017.00718

A Critical Assessment of the Microorganisms Proposed to be Important to Enhanced Biological Phosphorus Removal in Full-Scale Wastewater Treatment Systems
Cited by: 183
Author(s): Mikkel Stokholm-Bjerregaard, Simon Jon McIlroy, Marta Nierychlo, Søren Michael Karst, Mads Albertsen, Per Halkjær Nielsen
Software Mentions: 1
Published: over 9 years ago

10.3389/fmicb.2020.582867

Identification of Bacteria in Two Food Waste Black Soldier Fly Larvae Rearing Residues
Cited by: 26
Author(s): Moritz Gold, Fabienne von Allmen, Christian Zurbrügg, Jibin Zhang, Alexander Mathys
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2019.01360

Maternal Exposure to Non-nutritive Sweeteners Impacts Progeny’s Metabolism and Microbiome
Cited by: 62
Author(s): Stéphanie Olivier-Van Stichelen, Kristina I. Rother, John A. Hanover
Software Mentions: 1
Published: over 7 years ago

10.3389/fmicb.2018.02696

Transcriptome-Stable Isotope Probing Provides Targeted Functional and Taxonomic Insights Into Microaerobic Pollutant-Degrading Aquifer Microbiota
Cited by: 18
Author(s): Lauren Bradford, Gisle Vestergaard, Andräs Táncsics, Baoli Zhu, Michael Schloter, Tillmann Lueders
Software Mentions: 1
Published: almost 8 years ago

10.1128/mBio.00824-17

First Insights into the Diverse Human Archaeome: Specific Detection of Archaea in the Gastrointestinal Tract, Lung, and Nose and on Skin
Cited by: 149
Author(s): Kaisa Koskinen, Manuela R. Păuşan, A. Perras, Michael W. Beck, Corinna Bang, Maximilian Mora, Anke Schilhabel, Ruth A. Schmitz, Christine Moissl-Eichinger
Software Mentions: 1
Published: almost 9 years ago

10.3389/fmicb.2014.00613

Investigations of potential microbial methanogenic and carbon monoxide utilization pathways in ultra-basic reducing springs associated with present-day continental serpentinization: the Tablelands, NL, CAN
Cited by: 36
Author(s): Penny L. Morrill, William J. Brazelton, Leonie Kohl, Amanda Rietze, Sarah M. Miles, H. Kavanagh, M. O. Schrenk, Susan E. Ziegler, Susan Q. Lang
Software Mentions: 1
Published: almost 12 years ago

10.3389/fmicb.2019.00973

Diversity and Co-occurrence Pattern Analysis of Cecal Microbiota Establishment at the Onset of Solid Feeding in Young Rabbits
Cited by: 15
Author(s): Tehya Read, Laurence Fortun-Lamothe, Géraldine Pascal, Malo Le Boulch, Laurent Cauquil, Béatrice Gabinaud, Carole Bannelier, Elodie Balmisse, Nicolas Destombes, Olivier Bouchez, Thierry Gidenne, Sylvie Combes
Software Mentions: 1
Published: over 7 years ago

10.3389/fmicb.2014.00522

Assessing impacts of unconventional natural gas extraction on microbial communities in headwater stream ecosystems in Northwestern Pennsylvania
Cited by: 37
Author(s): Ryan V. Trexler, Caroline Solomon, Colin Brislawn, Justin Wright, Abigail Rosenberger, Erin E. McClure, Alyssa Grube, Mark P. Peterson, Mehdi Keddache, Olivia U. Mason, Terry C. Hazen, Christopher J. Grant, Regina Lamendella
Software Mentions: 1
Published: almost 12 years ago

10.3389/fmicb.2017.02527

Biological Characterization of Microenvironments in a Hypersaline Cold Spring Mars Analog
Cited by: 7
Author(s): H. M. Sapers, Jennifer Ronholm, Isabelle Raymond-Bouchard, Raven Comrey, G. R. Osinski, Lyle G. Whyte
Software Mentions: 1
Published: almost 9 years ago

10.3389/fmicb.2020.01538

Insights in the Global Genetics and Gut Microbiome of Black Soldier Fly, Hermetia illucens: Implications for Animal Feed Safety Control
Cited by: 31
Author(s): Fathiya M. Khamis, Fidelis L. O. Ombura, Komivi Senyo Akutse, Sevgan Subramanian, Samira A. Mohamed, Komi K. M. Fiaboe, Weerachai Saijuntha, Joop J. A. van Loon, Marcel Dicke, Thomas Dubois, Sunday Ekesi, Chrysantus M. Tanga
Software Mentions: 1
Published: about 6 years ago

10.3389/fmicb.2021.644861

Forensic Microbiome Database: A Tool for Forensic Geolocation Meta-Analysis Using Publicly Available 16S rRNA Microbiome Sequencing
Cited by: 13
Author(s): Harinder Singh, Thomas H. Clarke, Lauren Brinkac, Chris Greco, Karen E. Nelson
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-021-95842-6

Characterization of the virome associated with Haemagogus mosquitoes in Trinidad, West Indies
Cited by: 7
Author(s): Renee Ali, J. Jayaraj, Azad Mohammed, C. Chinnaraja, Christine V. F. Carrington, David W. Severson, Adesh Ramsubhag
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-021-90251-1

Differential microbial assemblages associated with shikonin-producing Borage species in two distinct soil types
Cited by: 8
Author(s): Aliya Fazal, Minkai Yang, Zhongling Wen, Farman Ali, Ran Ren, Chenyu Hao, Xingyu Chen, Jiangyan Fu, Xuan Wang, Wencai Jie, Tongming Yin, Guihua Lü, Jinliang Qi, Yonghua Yang
Software Mentions: 1
Published: over 5 years ago

10.3389/fmicb.2021.662783

Metagenomic Investigation Uncovers Presence of Probiotic-Type Microbiome in Kalparasa® (Fresh Unfermented Coconut Inflorescence Sap)
Cited by: 5
Author(s): Madhuban Gopal, Sandeep Shil, Alka Gupta, K. B. Hebbar, M. Arivalagan
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-021-86177-3

Characterization of the bacterial microbiome of Rhipicephalus (Boophilus) microplus collected from Pecari tajacu “Sajino” Madre de Dios, Peru
Cited by: 8
Author(s): Jesús Rojas‐Jaimes, David Lindo-Seminario, Germán Correa-Núñez, Benoit Diringer
Software Mentions: 1
Published: over 5 years ago

10.1093/bioinformatics/btu693

Seed: a user-friendly tool for exploring and visualizing microbial community data
Cited by: 7
Author(s): Daniel Beck, Christopher Dennis, James A. Foster
Software Mentions: 1
Published: almost 12 years ago

10.1177/0022034520914594

Profiling of Oral Bacterial Communities
Cited by: 39
Author(s): William Wade, Erica M. Prosdocimi
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0227707

Assessment of peritoneal microbial features and tumor marker levels as potential diagnostic tools for ovarian cancer
Cited by: 20
Author(s): Ruizhong Miao, Taylor C. Badger, Kathleen Groesch, Paula L. Diaz-Sylvester, Teresa Wilson, Allen Ghareeb, Jongjin Anne Martin, Melissa Cregger, Michael Welge, Colleen Bushell, Loretta Auvil, Ruoqing Zhu, Laurent Brard, Andrea Braundmeier-Fleming
Software Mentions: 1
Published: over 6 years ago

Projects: bioconductor: phyloseq

Science Score: 75/100

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Papers Mentioning phyloseq 1,702