cran: PERMANOVA | Projects | Ecosyste.ms: Papers

10.1038/s41598-020-69160-2

Individual-based population genomics reveal different drivers of adaptation in sympatric fish
Cited by: 10
Author(s): Héctor Torrado, Carlos Carreras, Núria Raventós, Enrique Macpherson, Marta Pascual
Software Mentions: 8
Published: over 4 years ago

10.3389/fmicb.2020.01376

Mobilization of Antibiotic Resistance: Are Current Approaches for Colocalizing Resistomes and Mobilomes Useful?
Cited by: 28
Author(s): Ilya B. Slizovskiy, Kingshuk Mukherjee, Christopher Dean, Christina Boucher, Noelle Noyes
Software Mentions: 8
Published: over 4 years ago

10.3390/microorganisms9091943

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

10.1186/s12866-020-1716-z

Repeated inoculation with fresh rumen fluid before or during weaning modulates the microbiota composition and co-occurrence of the rumen and colon of lambs
Cited by: 31
Author(s): Shaobo Yu, Guangyu Zhang, Zhibo Liu, Peng Wu, Zhongtang Yu, Jiakun Wang
Software Mentions: 8
Published: almost 5 years ago

10.3389/fmicb.2020.626713

Temporal Dynamics of Cloacal Microbiota in Adult Laying Chickens With and Without Access to an Outdoor Range
Cited by: 6
Author(s): Janneke Schreuder, Francisca C. Velkers, Alex Bossers, Ruth Bouwstra, W.F. de Boer, Pim van Hooft, J.A. Stegeman, Stephanie D. Jurburg
Software Mentions: 8
Published: almost 4 years ago

10.1093/molbev/msab029

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

10.3389/fmicb.2021.644828

The Cheese Production Facility Microbiome Exhibits Temporal and Spatial Variability
Cited by: 12
Author(s): Jared Johnson, Chris Curtin, Joy Waite‐Cusic
Software Mentions: 8
Published: over 3 years ago

10.1002/acn3.51441

Gut microbiome is associated with multiple sclerosis activity in children
Cited by: 18
Author(s): Mary Horton, Kathryn McCauley, Douglas Fadrosh, Kei E. Fujimura, Jennifer Graves, Jayne Ness, Yolanda Wheeler, Mark Gorman, Leslie Benson, Bianca Weinstock‐Guttman, Amy Waldman, Moses Rodriguez, Jan‐Mendelt Tillema, Lauren Krupp, Anita Belman, Soe Mar, Mary Rensel, Tanuja Chitnis, T. Charles Casper, John Rose, Janace Hart, Xiaorong Shao, Helen Tremlett, Susan V. Lynch, Lisa F. Barcellos, Emmanuelle Waubant
Software Mentions: 8
Published: over 3 years ago

10.1002/ece3.5289

Disturbance history mediates climate change effects on subtropical forest biomass and dynamics
Cited by: 16
Author(s): Alexandre F. Souza, Solon Jonas Longhi
Software Mentions: 8
Published: over 5 years ago

10.3390/nu13093295

Associations between Maternal Diet, Body Composition and Gut Microbial Ecology in Pregnancy
Cited by: 14
Author(s): Meghan L. Ruebel, Stephanie Gilley, Clark Sims, Ying Zhang, Donald Turner, Sree V. Chintapalli, Brian D. Piccolo, Aline Andres, Kartik Shankar
Software Mentions: 8
Published: about 3 years ago

10.1186/s40168-018-0468-6

Multilevel social structure and diet shape the gut microbiota of the gelada monkey, the only grazing primate
Cited by: 44
Author(s): Pål Trosvik, Eric J. de Muinck, Eli Knispel Rueness, Peter J. Fashing, Evan C. Beierschmitt, Kadie R. Callingham, Jacob B. Kraus, Thomas H. Trew, Amera Moges, Addisu Mekonnen, Vivek V. Venkataraman, Nga Nguyen
Software Mentions: 8
Published: over 6 years ago

10.7717/peerj.10696

Rapid relative increase of crustose coralline algae following herbivore exclusion in a reef of El Salvador
Cited by: 1
Author(s): Xochitl E. Elías Ilosvay, Johanna Segovia, Sebastian C. A. Ferse, Walter Ernesto Elias, Christian Wild
Software Mentions: 8
Published: almost 4 years ago

10.1093/molbev/msaa135

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

10.3390/microorganisms9020378

Differences in the Concentration of the Fecal Neurotransmitters GABA and Glutamate Are Associated with Microbial Composition among Healthy Human Subjects
Cited by: 18
Author(s): Hend Altaib, Kohei Nakamura, Mayuko Abe, Yassien Badr, Emiko Yanase, Izumi Nomura, Tomohiko Suzuki
Software Mentions: 8
Published: almost 4 years ago

10.3389/fmicb.2021.627437

A Taxon-Wise Insight Into Rock Weathering and Nitrogen Fixation Functional Profiles of Proglacial Systems
Cited by: 4
Author(s): Gilda Varliero, Alexandre M. Anesio, Gary Barker
Software Mentions: 8
Published: about 3 years ago

10.1002/ece3.7579

Molecular diet analysis of neotropical bats based on fecal DNA metabarcoding
Cited by: 36
Author(s): Melissa R. Ingala, Nancy B. Simmons, Claudia Wultsch, Konstantinos Krampis, Kaiya L. Provost, Susan L. Perkins
Software Mentions: 8
Published: over 3 years ago

10.1002/ece3.6913

Changes in beta diversity and species functional traits differ between saplings and mature trees in an old‐growth forest
Cited by: 1
Author(s): David Anthony Kirk, Marie‐Hélène Brice, Michael S. W. Bradstreet, Ken A. Elliott
Software Mentions: 8
Published: almost 4 years ago

10.1128/mSphere.00176-18

High Rate of Infection by Only Oncogenic Human Papillomavirus in Amerindians
Cited by: 10
Author(s): Daniela Vargas-Robles, Magda Magris, Natalia Morales, Maurits N.C. de Koning, Iveth Rodríguez, Tahidid Nieves, Filipa Godoy-Vitorino, Gloria Inés Sánchez, Luis David Alcaraz, Larry J. Forney, María-Eglée Pérez, Luis García-Briceño, Leen–Jan van Doorn, Maria Gloria Domínguez-Bello
Software Mentions: 8
Published: over 6 years ago

10.1128/mSphere.00488-17

Novel ITS1 Fungal Primers for Characterization of the Mycobiome
Cited by: 68
Author(s): Mykhaylo Usyk, Christine P. Zolnik, Hitesh D. Patel, Michael H. Levi, Robert D. Burk
Software Mentions: 8
Published: almost 7 years ago

10.1128/mSystems.00174-16

Distinct Biogeographic Patterns for Archaea, Bacteria, and Fungi along the Vegetation Gradient at the Continental Scale in Eastern China
Cited by: 89
Author(s): Bin Ma, Zhongmin Dai, Haizhen Wang, Melissa Dsouza, Xingmei Liu, Yan He, Jianjun Wu, Jorge L. Mazza Rodrigues, Jack A. Gilbert, Philip C. Brookes, Jianming Xu
Software Mentions: 8
Published: over 7 years ago

10.1128/mSphere.00916-19

Dual and Triple Epithelial Coculture Model Systems with Donor-Derived Microbiota and THP-1 Macrophages To Mimic Host-Microbe Interactions in the Human Sinonasal Cavities
Cited by: 15
Author(s): Charlotte De Rudder, Marta Calatayud, Sarah Lebeer, Tom Van de Wiele
Software Mentions: 8
Published: over 4 years ago

10.1038/s41598-020-69828-9

Shifts in the microbiota associated with male mosquitoes (Aedes aegypti) exposed to an obligate gut fungal symbiont (Zancudomyces culisetae)
Cited by: 0
Author(s): Jonas Frankel-Bricker
Software Mentions: 8
Published: over 4 years ago

10.3390/biology10010007

Effect of Weed Management on the Parasitoid Community in Mediterranean Vineyards
Cited by: 9
Author(s): Gabriella M Möller, Tamar Keasar, Idan Shapira, Daniella M Möller, Marco Ferrante, Michal Segoli
Software Mentions: 8
Published: almost 4 years ago

10.1038/s41598-019-38483-0

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

10.3390/microorganisms9061153

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

10.1007/s00300-021-02823-6

Seasonal dynamics of meroplankton in a sub-Antarctic fjord (Southern Patagonia, Chile)
Cited by: 1
Author(s): Santiago E A Pineda-Metz, Américo Montiel
Software Mentions: 8
Published: over 3 years ago

10.1186/s42523-021-00111-6

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

10.1186/s12864-020-06971-7

Comparative genomic analysis of Flavobacteriaceae: insights into carbohydrate metabolism, gliding motility and secondary metabolite biosynthesis
Cited by: 44
Author(s): Asimenia Gavriilidou, Johanna Gutleben, Dennis Versluis, Francesca Forgiarini, Mark W. J. van Passel, Colin J. Ingham, Hauke Smidt, Detmer Sipkema
Software Mentions: 8
Published: over 4 years ago

10.1128/mSystems.00122-17

Market Integration Predicts Human Gut Microbiome Attributes across a Gradient of Economic Development
Cited by: 27
Author(s): Keaton Stagaman, Tara J Cepon-Robins, Melissa A. Liebert, Theresa E. Gildner, Samuel S. Urlacher, Felicia C. Madimenos, Karen Guillemin, J. Josh Snodgrass, Lawrence S. Sugiyama, Brendan J. M. Bohannan
Software Mentions: 8
Published: over 6 years ago

10.3389/fpls.2017.00930

The Influence of Land Use Intensity on the Plant-Associated Microbiome of Dactylis glomerata L.
Cited by: 44
Author(s): Jennifer Estendorfer, Barbara Stempfhuber, Paula Haury, Gisle Vestergaard, Matthias C. Rillig, Jasmin Joshi, Peter Schröder, Michael Schloter
Software Mentions: 8
Published: over 7 years ago

10.1186/s12864-020-6703-0

Gut microbiota in children with juvenile idiopathic arthritis: characteristics, biomarker identification, and usefulness in clinical prediction
Cited by: 26
Author(s): Xubo Qian, Yong‐Xin Liu, Xiaohong Ye, Wen Jie Zheng, Shaoxia Lv, Miaojun Mo, Jinjing Lin, Wen-Qin Wang, Weihan Wang, Xianning Zhang, Meiping Lu
Software Mentions: 8
Published: over 4 years ago

10.3390/microorganisms7120662

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

10.1038/s41598-018-34019-0

Microbial structure and function in infant and juvenile rhesus macaques are primarily affected by age, not vaccination status
Cited by: 4
Author(s): Yu Hasegawa, Britni Curtis, Vernon Yutuc, Megan Rulien, Kelly Morrisroe, Kristin Watkins, Clayton Ferrier, Chris English, Laura Hewitson, Carolyn M. Slupsky
Software Mentions: 8
Published: about 6 years ago

10.3389/fmicb.2019.02492

Do Organic Substrates Drive Microbial Community Interactions in Arctic Snow?
Cited by: 17
Author(s): Benoît Bergk Pinto, Lorrie Maccario, Aurélien Dommergue, Timothy M. Vogel, Catherine Larose
Software Mentions: 8
Published: about 5 years ago

10.1128/mBio.00637-18

How, When, and Where Relic DNA Affects Microbial Diversity
Cited by: 114
Author(s): Jay T. Lennon, Mario E. Muscarella, Sarah A. Placella, Brent K Lehmkuhl
Software Mentions: 8
Published: over 6 years ago

10.1128/mSystems.00152-21

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

10.3389/fmicb.2020.555347

Dysbiosis in the Dead: Human Postmortem Microbiome Beta-Dispersion as an Indicator of Manner and Cause of Death
Cited by: 22
Author(s): Sierra F. Kaszubinski, Jennifer L. Pechal, Katelyn Smiles, Carl J. Schmidt, Heather R. Jordan, Mariah H. Meek, M. Eric Benbow
Software Mentions: 8
Published: about 4 years ago

10.1128/mSystems.01356-20

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

10.1128/mSystems.01153-20

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

10.1038/s41396-020-0622-6

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

10.1371/journal.pone.0246491

Trophic structure of a nektobenthic community exploited by a multispecific bottom trawling fishery in Northeastern Brazil
Cited by: 3
Author(s): Alex Souza Lira, Flávia Lucena‐Frédou, Frédéric Ménard, Thierry Frédou, Júlio Guazzelli Gonzalez, Valdimere Ferreira, José Souto Rosa Filho, Jean-Marie Munaron, François Le Loc’h
Software Mentions: 8
Published: almost 4 years ago

10.1038/s41598-021-92913-6

Ganoderma lucidum promotes sleep through a gut microbiota-dependent and serotonin-involved pathway in mice
Cited by: 14
Author(s): Chunyan Yao, Zhiyuan Wang, Huiyong Jiang, Yan Ren, Qin Huang, Yin Wang, Hui Xie, Ying Zou, Ying Yu, Longxian Lv
Software Mentions: 8
Published: over 3 years ago

10.1080/19490976.2021.1966263

Deprivation of dietary fiber in specific-pathogen-free mice promotes susceptibility to the intestinal mucosal pathogen Citrobacter rodentium
Cited by: 28
Author(s): Mareike Neumann, Alex Steimle, Erica T. Grant, Mathis Wolter, Amy Parrish, Stéphanie Willième, Dirk Brenner, Eric C. Martens, Mahesh S. Desai
Software Mentions: 8
Published: almost 4 years ago

10.3390/microorganisms9061273

Inoculation with Mycorrhizal Fungi and Irrigation Management Shape the Bacterial and Fungal Communities and Networks in Vineyard Soils
Cited by: 8
Author(s): Nazareth Torres, Runze Yu, S. Kaan Kurtural
Software Mentions: 8
Published: over 3 years ago

10.1038/s41598-017-02685-1

Intraspecific differences in molecular stress responses and coral pathobiome contribute to mortality under bacterial challenge in Acropora millepora
Cited by: 73
Author(s): Rachel M. Wright, Carly D. Kenkel, Carly E. Dunn, Erin N. Shilling, Line K. Bay, Mikhail V. Matz
Software Mentions: 8
Published: over 7 years ago

10.1038/s41598-021-99046-w

Using fecal immunochemical tubes for the analysis of the gut microbiome has the potential to improve colorectal cancer screening
Cited by: 7
Author(s): Kertu Liis Krigul, Oliver Aasmets, Kreete Lüll, Tõnis Org, Elin Org
Software Mentions: 8
Published: about 3 years ago

10.1038/s41396-018-0279-6

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

10.1038/s41598-021-96160-7

Wolves, dogs and humans in regular contact can mutually impact each other’s skin microbiota
Cited by: 6
Author(s): Stefanie U. Wetzels, Cameron Strachan, Beate Conrady, Martin Wagner, Iwan Burgener, Zsófia Virányi, Evelyne Selberherr
Software Mentions: 8
Published: about 3 years ago

10.1080/19490976.2021.1903289

Translational activity is uncoupled from nucleic acid content in bacterial cells of the human gut microbiota
Cited by: 9
Author(s): Mariia Taguer, Ben Shapiro, Corinne F. Maurice
Software Mentions: 8
Published: almost 4 years ago

10.3390/microorganisms8091265

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

10.1128/mSystems.01150-20

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

10.1038/s41598-019-55706-6

Tailings microbial community profile and prediction of its functionality in basins of tungsten mine
Cited by: 26
Author(s): Ana Paula Chung, Carina Coimbra, Pedro Farias, Romeu Francisco, Rita Branco, Francisco Veiga Simão, Érico Rodrigues Gomes, Alcides Pereira, Maria Cristina Vila, António Fiúza, Martin Steen Mortensen, Søren J. Sørensen, Paula V. Morais
Software Mentions: 8
Published: almost 5 years ago

10.1038/s41598-020-57622-6

Mainland and island populations of Mussaenda kwangtungensis differ in their phyllosphere fungal community composition and network structure
Cited by: 16
Author(s): Xin Qian, Shengchun Li, Bian Wu, Yong-Long Wang, Niu‐Niu Ji, Hui Yao, Hongyue Cai, Miaomiao Shi, Dianxiang Zhang
Software Mentions: 8
Published: almost 5 years ago

10.3390/toxins13080583

Metaproteomics Reveals Alteration of the Gut Microbiome in Weaned Piglets Due to the Ingestion of the Mycotoxins Deoxynivalenol and Zearalenone
Cited by: 6
Author(s): Johan S. Sáenz, Alina Kurz, Ursula Ruczizka, Moritz Bünger, Maximiliane Dippel, Veronika Nagl, Bertrand Grenier, Andrea Ladinig, Jana Seifert, Evelyne Selberherr
Software Mentions: 8
Published: over 3 years ago

10.3390/microorganisms9091873

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

10.1111/1365-2656.13065

Host genetics and geography influence microbiome composition in the sponge Ircinia campana
Cited by: 48
Author(s): Sarah M. Griffiths, Rachael E. Antwis, Luca Lenzi, Anita Lucaci, Donald C. Behringer, Mark J. Butler, Richard F. Preziosi
Software Mentions: 8
Published: about 5 years ago

10.3389/fmicb.2021.728479

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

10.1038/s41396-021-00949-3

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

10.1093/gigascience/giz004

The unique composition of Indian gut microbiome, gene catalogue, and associated fecal metabolome deciphered using multi-omics approaches
Cited by: 103
Author(s): Darshan B. Dhakan, Abhijit Maji, Ashok Sharma, Rituja Saxena, Joby Pulikkan, Tony Grace, Andrés Gómez, Joy Scaria, Katherine R. Amato, Vineet K. Sharma
Software Mentions: 8
Published: almost 6 years ago

10.1371/journal.pone.0231875

Soil fungal communities differ between shaded and sun-intensive coffee plantations in El Salvador
Cited by: 10
Author(s): M. V. Rao, Robert A. Rice, Robert C. Fleischer, Carly R. Muletz‐Wolz
Software Mentions: 8
Published: over 4 years ago

10.1007/s00125-019-4848-7

Metformin-induced changes of the gut microbiota in healthy young men: results of a non-blinded, one-armed intervention study
Cited by: 117
Author(s): Thomas Bryrup, Cæcilie W. Thomsen, Timo Kern, Kristine H. Allin, Ivan Brandslund, Niklas Rye Jørgensen, Henrik Vestergaard, Torben Hansen, Oluf Pedersen, Trine Nielsen
Software Mentions: 8
Published: over 5 years ago

10.1038/s41396-021-00902-4

Intracellular bacteria are common and taxonomically diverse in cultured and in hospite algal endosymbionts of coral reefs
Cited by: 51
Author(s): Justin Maire, Sam K. Girvan, Sophie E. Barkla, Alexis Perez‐Gonzalez, David J. Suggett, Linda L. Blackall, Madeleine J. H. van Oppen
Software Mentions: 8
Published: almost 4 years ago

10.1186/s13073-017-0428-y

Functional implications of microbial and viral gut metagenome changes in early stage L-DOPA-naïve Parkinson’s disease patients
Cited by: 378
Author(s): Janis R. Bedarf, Falk Hildebrand, Luís Pedro Coelho, Shinichi Sunagawa, Mohammad Bahram, Felix Goeser, Peer Bork, Ullrich Wüllner
Software Mentions: 8
Published: over 7 years ago

10.3390/genes10110875

The Role of Plasticity and Adaptation in the Incipient Speciation of a Fire Salamander Population
Cited by: 6
Author(s): Joana Sabino‐Pinto, Daniel J. Goedbloed, Eugenia Sanchez, Thomas Czypionka, Arne W. Nolte, Sebastian Steinfartz
Software Mentions: 8
Published: about 5 years ago

10.1007/s12031-020-01787-2

Studying Autism Using Untargeted Metabolomics in Newborn Screening Samples
Cited by: 13
Author(s): Julie Courraud, Madeleine Ernst, Susan Svane Laursen, David M. Hougaard, Arieh Cohen
Software Mentions: 8
Published: almost 4 years ago

10.3389/fmicb.2018.02621

Elevated CO2 Has Little Influence on the Bacterial Communities Associated With the pH-Tolerant Coral, Massive Porites spp.
Cited by: 18
Author(s): Paul A. O’Brien, Hillary A. Smith, Stewart Fallon, Katharina Fabricius, Bette L. Willis, Kathleen M. Morrow, David G. Bourne
Software Mentions: 8
Published: about 6 years ago

10.1093/cz/zoab026

Hormonal modulation of reproduction and fertility signaling in polistine wasps
Cited by: 8
Author(s): Cíntia Akemi Oi, Rafael Carvalho da Silva, I. D. R. Stevens, Helena Mendes Ferreira, Fábio Santos do Nascimento, Tom Wenseleers
Software Mentions: 8
Published: over 3 years ago

10.1038/s41396-019-0383-2

Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots
Cited by: 596
Author(s): Samiran Banerjee, Florian Walder, Lucie Büchi, Marion Meyer, Alain Held, Andreas Gattinger, Thomas Keller, Raphaël Charles, Marcel G. A. van der Heijden
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0217804

Longitudinal microbiome profiling reveals impermanence of probiotic bacteria in domestic pigeons
Cited by: 12
Author(s): Kirsten Grond, Julie Perreau, Wesley T. Loo, A. James Spring, Colleen M. Cavanaugh, Sarah M. Hird
Software Mentions: 8
Published: over 5 years ago

10.3389/fmicb.2019.01834

Captivity and Infection by the Fungal Pathogen Batrachochytrium salamandrivorans Perturb the Amphibian Skin Microbiome
Cited by: 35
Author(s): Kieran A. Bates, Jennifer Shelton, Victoria L. Mercier, Kevin Hopkins, Xavier A. Harrison, Silviu O. Petrovan, Matthew C. Fisher
Software Mentions: 8
Published: about 5 years ago

10.1371/journal.pone.0134502

Identifying Shifts in Leaf-Litter Ant Assemblages (Hymenoptera: Formicidae) across Ecosystem Boundaries Using Multiple Sampling Methods
Cited by: 15
Author(s): Michal Wiezik, Marek Svitok, Adela Wieziková, Martin Dovčiak
Software Mentions: 8
Published: over 9 years ago

10.3389/fmicb.2020.01045

Effects of Intra- and Interspecific Plant Density on Rhizosphere Bacterial Communities
Cited by: 23
Author(s): Andrea Cavalieri, Friedhelm Bak, Adriana M. García-Lemos, Jacob Weiner, Mette Haubjerg Nicolaisen, Ole Nybroe
Software Mentions: 8
Published: over 4 years ago

10.7717/peerj.1356

Urban habitat complexity affects species richness but not environmental filtering of morphologically-diverse ants
Cited by: 22
Author(s): Alessandro Ossola, M. Nash, Fiona J. Christie, Amy K. Hahs, Stephen J. Livesley
Software Mentions: 8
Published: about 9 years ago

10.1002/ece3.7211

Investigating the morphological and genetic divergence of arctic char ( Salvelinus alpinus) populations in lakes of arctic Alaska
Cited by: 3
Author(s): Stephen L. Klobucar, Jessica A. Rick, Elizabeth G. Mandeville, Catherine E. Wagner, Phaedra Budy
Software Mentions: 8
Published: over 3 years ago

10.1186/s12983-018-0297-2

Nutritional quality modulates trait variability
Cited by: 5
Author(s): Adrian Brückner, Romina Schuster, Katja Wehner, Michael Heethoff
Software Mentions: 8
Published: almost 6 years ago

10.1038/s41598-021-91118-1

The presence of Pseudogymnoascus destructans, a fungal pathogen of bats, correlates with changes in microbial metacommunity structure
Cited by: 3
Author(s): Matthew Grisnik, Joshua B. Grinath, Donald M. Walker
Software Mentions: 8
Published: over 3 years ago

10.1038/s41598-021-89065-y

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

10.3389/fmicb.2020.00494

A Multi-Omics Analysis Suggests Links Between the Differentiated Surface Metabolome and Epiphytic Microbiota Along the Thallus of a Mediterranean Seaweed Holobiont
Cited by: 27
Author(s): Benoît Paix, Nathan Carriot, Raphaëlle Barry‐Martinet, Stéphane Greff, Benjamin Misson, Jean‐François Briand, Gérald Culioli
Software Mentions: 8
Published: over 4 years ago

10.3389/fmicb.2021.632935

Co-Occurrence of Listeria spp. and Spoilage Associated Microbiota During Meat Processing Due to Cross-Contamination Events
Cited by: 19
Author(s): Benjamin Zwirzitz, Stefanie U. Wetzels, Emmanuel D. Dixon, Svenja Fleischmann, Evelyne Selberherr, Sarah Thalguter, Narciso M. Quijada, Monika Dzieciol, Martin Wagner, Beatrix Stessl
Software Mentions: 8
Published: almost 4 years ago

10.3389/fmicb.2021.676615

Attributes of Drying Define the Structure and Functioning of Microbial Communities in Temperate Riverbed Sediment
Cited by: 7
Author(s): José Schreckinger, Michael Mutz, Clara Mendoza‐Lera, Aline Frossard
Software Mentions: 8
Published: over 3 years ago

10.3389/fmicb.2021.696398

The Microbiome of the Medicinal Plants Achillea millefolium L. and Hamamelis virginiana L.
Cited by: 10
Author(s): Simon Sauer, Leon Dlugosch, Dietmar R. Kammerer, Florian C. Stintzing, Meinhard Simon
Software Mentions: 8
Published: over 3 years ago

10.1038/s41396-020-0621-7

Spatiotemporal dynamics of the archaeal community in coastal sediments: assembly process and co-occurrence relationship
Cited by: 120
Author(s): Jiwen Liu, Shangqing Zhu, Xiaoyue Liu, Peng Yao, Tiantian Ge, Xiao‐Hua Zhang
Software Mentions: 8
Published: over 4 years ago

10.1038/s41598-017-14785-z

Poly-β-hydroxybutyrate administration during early life: effects on performance, immunity and microbial community of European sea bass yolk-sac larvae
Cited by: 18
Author(s): Andrea Franke, Olivia Roth, Peter De Schryver, Till Bayer, Linsey Garcia‐Gonzalez, Sven Künzel, Peter Bossier, Joanna J. Miest, Catriona Clemmesen
Software Mentions: 8
Published: about 7 years ago

10.1038/s41598-018-26332-5

Cross-shelf investigation of coral reef cryptic benthic organisms reveals diversity patterns of the hidden majority
Cited by: 47
Author(s): John K. Pearman, Matthieu Leray, Rodrigo Villalobos, Ryuji J. Machida, Michael L. Berumen, Nancy Knowlton, Susana Carvalho
Software Mentions: 8
Published: over 6 years ago

10.1038/s41598-020-80840-x

Distinct bacterial community structure and composition along different cowpea producing ecoregions in Northeastern Brazil
Cited by: 7
Author(s): Luciana de Sousa Lopes, Lucas William Mendes, Jadson Emanuel Lopes Antunes, Louise Melo de Souza Oliveira, Vânia Maria Maciel Melo, Arthur Prudêncio de Araújo Pereira, Antônio Félix da Costa, José de Paula Oliveira, Cosme Rafael Martínez, Márcia do Vale Barreto Figueiredo, Ademir Sérgio Ferreira de Araújo
Software Mentions: 8
Published: almost 4 years ago

10.1002/ece3.6305

Effects of diet, habitat, and phylogeny on the fecal microbiome of wild African savanna (Loxodonta africana) and forest elephants (L. cyclotis)
Cited by: 16
Author(s): Kris Budd, Joe C. Gunn, Tabitha Finch, Katy E. Klymus, Noah Sitati, Lori S. Eggert
Software Mentions: 8
Published: over 4 years ago

10.1186/s13059-018-1616-9

Population structure of human gut bacteria in a diverse cohort from rural Tanzania and Botswana
Cited by: 61
Author(s): Matthew E.B. Hansen, Meagan A Rubel, Aubrey Bailey, Alessia Ranciaro, S. R. Thompson, Michael C. Campbell, William Beggs, Jaanki R. Dave, Gaonyadiwe George Mokone, Sununguko Wata Mpoloka, Thomas Nyambo, Christian C. Abnet, Stephen J. Chanock, Frederic D. Bushman, Sarah A. Tishkoff
Software Mentions: 8
Published: almost 6 years ago

10.1007/s11274-019-2737-3

The vaginal microbial communities of healthy expectant Brazilian mothers and its correlation with the newborn’s gut colonization
Cited by: 15
Author(s): Priscila Caroline Thiago Dobbler, Volker Mai, Renato S. Procianoy, Rita de Cássia dos Santos Silveira, Andrea Corso, Luiz Fernando Würdig Roesch
Software Mentions: 7
Published: about 5 years ago

10.1186/s40851-021-00176-w

Integrative taxonomy resolves species identities within the Macrobiotus pallarii complex (Eutardigrada: Macrobiotidae)
Cited by: 18
Author(s): Daniel Stec, Matteo Vecchi, Magdalena Dudziak, Paul Bartels, Sara Calhim, Łukasz Michalczyk
Software Mentions: 7
Published: over 3 years ago

10.3390/jof7040253

Molecular and Environmental Triggering Factors of Pathogenicity of Fusarium oxysporum and F. solani Isolates Involved in the Coffee Corky-Root Disease
Cited by: 3
Author(s): Roberto Gamboa-Becerra, Daniel López-Lima, Luc Villain, Jean‐Christophe Breitler, Gloria Carrión, Damaris Desgarennes
Software Mentions: 7
Published: over 3 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 4 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 4 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 5 years ago

10.1038/s41598-018-29373-y

Experimentally induced metamorphosis in highly regenerative axolotl (ambystoma mexicanum) under constant diet restructures microbiota
Cited by: 25
Author(s): Turan Demircan, Guvanch Ovezmyradov, Berna Yıldırım, İlknur Keskin, Ayşe Elif İlhan, Ece Cana Fesçioğlu, Gürkan Öztürk, Süleyman Yıldırım
Software Mentions: 7
Published: over 6 years ago

10.7189/jogh.11.04047

Topical emollient therapy with sunflower seed oil alters the skin microbiota of young children with severe acute malnutrition in Bangladesh: A randomised, controlled study
Cited by: 3
Author(s): Natalie Fischer, Gary L. Darmstadt, K. M. Shahunja, Jonathan Crowther, Lindsay Kendall, Rachel A. Gibson, Tahmeed Ahmed, David A. Relman
Software Mentions: 7
Published: over 3 years ago

10.3389/fmicb.2021.640253

In vitro Fermentation Reveals Changes in Butyrate Production Dependent on Resistant Starch Source and Microbiome Composition
Cited by: 22
Author(s): June Teichmann, Darrell Cockburn
Software Mentions: 7
Published: over 3 years ago

10.1371/journal.pone.0250344

One dog’s waste is another dog’s wealth: A pilot study of fecal microbiota transplantation in dogs with acute hemorrhagic diarrhea syndrome
Cited by: 13
Author(s): Arnon Gal, Patrick C. Barko, Patrick J. Biggs, Kristene Gedye, Anne C. Midwinter, David A. Williams, Richard K. Burchell, P. Pazzi
Software Mentions: 7
Published: over 3 years ago

10.3389/fmicb.2018.01620

Rhizosphere Bacterial Communities Differ According to Fertilizer Regimes and Cabbage (Brassica oleracea var. capitata L.) Harvest Time, but Not Aphid Herbivory
Cited by: 26
Author(s): Flora Jane Mary O'Brien, Marc G. Dumont, Jeremy S. Webb, Guy M. Poppy
Software Mentions: 7
Published: over 6 years ago

10.1002/ece3.4194

Vertical canopy gradient shaping the stratification of leaf‐chewer–parasitoid interactions in a temperate forest
Cited by: 15
Author(s): Martin Šigut, Hana Šigutová, Ján Šipoš, Petr Pyszko, Nela Kotásková, Pavel Drozd
Software Mentions: 7
Published: over 6 years ago

10.1007/s00572-020-01001-6

Phosphate availability and ectomycorrhizal symbiosis with Pinus sylvestris have independent effects on the Paxillus involutus transcriptome
Cited by: 6
Author(s): Christina Paparokidou, Jonathan R. Leake, David J. Beerling, Stephen A. Rolfe
Software Mentions: 7
Published: about 4 years ago

Projects: cran: PERMANOVA

Papers Mentioning PERMANOVA 6,292