cran: PERMANOVA | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2018.03283

Seaweed Loads Cause Stronger Bacterial Community Shifts in Coastal Lagoon Sediments Than Nutrient Loads
Cited by: 21
Author(s): Tânia Aires, Gerard Muyzer, Ester A. Serrão, Aschwin H. Engelen
Software Mentions: 3
Published: almost 6 years ago

10.3389/fvets.2016.00002

Development of the Chick Microbiome: How Early Exposure Influences Future Microbial Diversity
Cited by: 204
Author(s): Anne Ballou, Rizwana Ali, Mary Mendoza, J. Christopher Ellis, Hosni M. Hassan, W. J. Croom, Matthew D. Koci
Software Mentions: 3
Published: almost 9 years ago

10.3389/fvets.2020.00331

Effects of Housing Types on Cecal Microbiota of Two Different Strains of Laying Hens During the Late Production Phase
Cited by: 9
Author(s): Bishnu Adhikari, Se‐Ran Jun, Young Min Kwon, Aaron S. Kiess, Pratima Adhikari
Software Mentions: 3
Published: over 4 years ago

10.3389/fvets.2021.692521

Oral Vaccination Reduces the Effects of Lawsonia intracellularis Challenge on the Swine Small and Large Intestine Microbiome
Cited by: 2
Author(s): Fernando Leite, Brittanie Winfield, Elizabeth A. Miller, Bonnie Weber, Timothy J. Johnson, Fred Sylvia, Erika Vasquez, Fábio A. Vannucci, Dana Beckler, Richard E. Isaacson
Software Mentions: 3
Published: over 3 years ago

10.3389/fvets.2020.596933

Comprehensive Survey of the Litter Bacterial Communities in Commercial Turkey Farms
Cited by: 7
Author(s): Bishnu Adhikari, Guillermo Téllez–Isaías, Tieshan Jiang, Brian Wooming, Young Min Kwon
Software Mentions: 3
Published: almost 4 years ago

10.1186/s12983-021-00427-8

Multiple phenotypic traits as triggers of host attacks towards ant symbionts: body size, morphological gestalt, and chemical mimicry accuracy
Cited by: 10
Author(s): Christoph von Beeren, Adrian Brückner, Philipp O. Hoenle, Bryan Ospina-Jara, Daniel J. C. Kronauer, Nico Blüthgen
Software Mentions: 3
Published: about 3 years ago

10.1111/1365-2435.12977

Cumulative stress restricts niche filling potential of habitat‐forming kelps in a future climate
Cited by: 20
Author(s): Nathan G. King, David Wilcockson, Richard Webster, Dan A. Smale, Laura Sophie Hoelters, Pippa J. Moore
Software Mentions: 3
Published: about 7 years ago

10.1016/j.funeco.2016.05.007

Biocontrol agent Fusarium oxysporum f.sp. strigae has no adverse effect on indigenous total fungal communities and specific AMF taxa in contrasting maize rhizospheres
Cited by: 15
Author(s): Judith Zimmermann, Mary K. Musyoki, Georg Cadisch, Frank Rasche
Software Mentions: 3
Published: about 8 years ago

10.3390/genes11080904

The Gut Microbiota Profile in Children with Prader–Willi Syndrome
Cited by: 17
Author(s): Ye Peng, Qiming Tan, Shima Afhami, Edward C. Deehan, Suisha Liang, Marie G. Gantz, Lucila Triador, Karen Madsen, Jens Walter, Hein Min Tun, Andrea M. Haqq
Software Mentions: 3
Published: over 4 years ago

10.3390/genes11091105

Comparison of Illumina versus Nanopore 16S rRNA Gene Sequencing of the Human Nasal Microbiota
Cited by: 44
Author(s): Astrid P. Heikema, Deborah Horst-Kreft, Stefan A. Boers, Rick Jansen, Saskia Hiltemann, Willem de Koning, Robert Kraaij, Maria A. J. de Ridder, Chantal B. van Houten, Louis Bont, Andrew Stubbs, John P. Hays
Software Mentions: 3
Published: about 4 years ago

10.3390/genes11111380

Metagenomic Information Recovery from Human Stool Samples Is Influenced by Sequencing Depth and Profiling Method
Cited by: 8
Author(s): Tasha M. Santiago-Rodríguez, Aaron Garoutte, Emmase Adams, Waleed Nasser, Matthew C. Ross, Alex La Reau, Zachariah Henseler, Tonya Ward, Dan Knights, Joseph F. Petrosino, Emily B. Hollister
Software Mentions: 3
Published: about 4 years ago

10.1186/gb-2013-14-1-r4

Inflammation-associated enterotypes, host genotype, cage and inter-individual effects drive gut microbiota variation in common laboratory mice
Cited by: 354
Author(s): Falk Hildebrand, Thi Loan Anh Nguyen, Brigitta M. N. Brinkman, Roberto Garcia Yunta, Bénédicte Cauwe, Peter Vandenabeele, Adrian Liston, Jeroen Raes
Software Mentions: 3
Published: almost 12 years ago

10.1186/s13059-019-1807-z

Convergence of human and Old World monkey gut microbiomes demonstrates the importance of human ecology over phylogeny
Cited by: 49
Author(s): Katherine R. Amato, Elizabeth K. Mallott, Daniel McDonald, Nathaniel J. Dominy, Tony L. Goldberg, Joanna E. Lambert, Larissa Swedell, Jessica L. Metcalf, Andrés Gómez, Gillian A. O. Britton, Rebecca M. Stumpf, Steven R. Leigh, Rob Knight
Software Mentions: 3
Published: about 5 years ago

10.1186/s13059-021-02418-8

2dFDR: a new approach to confounder adjustment substantially increases detection power in omics association studies
Cited by: 2
Author(s): Sangyoon Yi, Xianyang Zhang, Lu Yang, Jinyan Huang, Yuanhang Liu, Chen Wang, Daniel J. Schaid, Jun Chen
Software Mentions: 3
Published: over 3 years ago

10.1186/s13073-016-0290-3

Microbiota-based model improves the sensitivity of fecal immunochemical test for detecting colonic lesions
Cited by: 255
Author(s): Nielson T. Baxter, Mack T. Ruffin, Mary A.M. Rogers, Patrick D. Schloss
Software Mentions: 3
Published: over 8 years ago

10.1186/s13073-016-0368-y

Potential contribution of the uterine microbiome in the development of endometrial cancer
Cited by: 211
Author(s): Marina Walther-Antonio, Jun Chen, Francesco Multinu, Alexis N. Hokenstad, Tammy J. Distad, Elizabeth Cheek, Gary L. Keeney, Douglas J. Creedon, Heidi Nelson, Andrea Mariani, Nicholas Chia
Software Mentions: 3
Published: about 8 years ago

10.1186/s13073-020-00758-x

High-resolution temporal profiling of the human gut microbiome reveals consistent and cascading alterations in response to dietary glycans
Cited by: 18
Author(s): Richard Creswell, Jie Tan, Jonathan W. Leff, Brandon Brooks, Michael A. Mahowald, Ruth Thieroff-Ekerdt, Georg K. Gerber
Software Mentions: 3
Published: over 4 years ago

10.1016/j.geoderma.2020.114474

Mineral–nutrient relationships in African soils assessed using cluster analysis of X-ray powder diffraction patterns and compositional methods
Cited by: 22
Author(s): Benjamin Butler, Javier Palarea‐Albaladejo, Keith D. Shepherd, Kamau M. Nyambura, Erick K. Towett, Andrew Sila, S. J. Hillier
Software Mentions: 3
Published: about 4 years ago

10.1186/s13742-015-0086-1

Evaluating a multigene environmental DNA approach for biodiversity assessment
Cited by: 118
Author(s): Alexei J. Drummond, Richard D. Newcomb, Thomas R. Buckley, Donghua Xie, Andrew Dopheide, Benjamin C. M. Potter, Joseph Heled, Howard A. Ross, Leah Tooman, Stefanie Grosser, Duckchul Park, Nicholas J. Demetras, Mark I. Stevens, James C. Russell, Sandra Anderson, Anna Carter, Nicola J. Nelson
Software Mentions: 3
Published: about 9 years ago

10.1080/19490976.2020.1788898

TH1 cell-inducing Escherichia coli strain identified from the small intestinal mucosa of patients with Crohn’s disease
Cited by: 35
Author(s): Shiho Nagayama, Tomonori Yano, Koji Atarashi, Takeshi Tanoue, Mariko Sekiya, Yasutoshi Kobayashi, Hirotsugu Sakamoto, Kouichi Miura, Keijiro Sunada, Takaaki Kawaguchi, Satoru Morita, Kayoko Sugita, Seiko Narushima, Nicolas Barnich, Jun Isayama, Yuko Kiridooshi, Atsushi Shiota, Wataru Suda, Masahira Hattori, Hironori Yamamoto, Kenya Honda
Software Mentions: 3
Published: over 4 years ago

10.1080/19490976.2020.1862027

Changes in IgA-targeted microbiota following fecal transplantation for recurrent Clostridioides difficile infection
Cited by: 11
Author(s): Kelsey E. Huus, Marcin Frankowski, Maja Pučić‐Baković, Frano Vučković, Gordan Lauc, Benjamin H. Mullish, Julian R. Marchesi, Tanya Monaghan, Dina Kao, B. Brett Finlay
Software Mentions: 3
Published: almost 4 years ago

10.1080/19490976.2020.1830699

Exposure to soil environments during earlier life stages is distinguishable in the gut microbiome of adult mice
Cited by: 5
Author(s): Wenjun Liu, Zheng Sun, Castello Ma, Jiachao Zhang, Chenchen Ma, Yinjian Zhao, Hong Wei, Shi Huang, Heping Zhang
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41598-017-08401-3

Interactions count: plant origin, herbivory and disturbance jointly explain seedling recruitment and community structure
Cited by: 4
Author(s): Lotte Korell, Birgit Lang, Isabell Hensen, Harald Auge, Helge Bruelheide
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-017-08683-7

Effects of contaminants of emerging concern on Megaselia scalaris (Lowe, Diptera: Phoridae) and its microbial community
Cited by: 18
Author(s): Marcus J. Pennington, Jason A. Rothman, Michael B. Jones, Quinn S. McFrederick, Jay Gan, John T. Trumble
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-017-07639-1

Taxonomic and functional shifts in the beech rhizosphere microbiome across a natural soil toposequence
Cited by: 47
Author(s): Yannick Colin, Océane Nicolitch, Joy D. Van Nostrand, Jizhong Zhou, M.-P. Turpault, Stéphane Uroz
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-017-10663-w

Unveiling the gut microbiota composition and functionality associated with constipation through metagenomic analyses
Cited by: 100
Author(s): Leonardo Mancabelli, Christian Milani, Gabriele Andrea Lugli, Francesca Turroni, Marta Mangifesta, Alice Viappiani, Andrea Ticinesi, Antonio Nouvenne, Tiziana Meschi, Douwe van Sinderen, Marco Ventura
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-017-11427-2

The salivary microbiome is consistent between subjects and resistant to impacts of short-term hospitalization
Cited by: 29
Author(s): Damien J. Cabral, Jenna I. Wurster, Myrto Eleni Flokas, Michail Alevizakos, Michelle A. Zabat, Benjamin J. Korry, Aislinn D. Rowan, William H. Sano, Nikolaos Andreatos, Robert Ducharme, Philip A. Chan, Eleftherios Mylonakis, Beth Burgwyn Fuchs, Peter Belenky
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-017-11546-w

Subtle shifts in microbial communities occur alongside the release of carbon induced by drought and rewetting in contrasting peatland ecosystems
Cited by: 17
Author(s): Caitlin Potter, Chris Freeman, Peter N. Golyshin, Gail Ackermann, Nathalie Fenner, James E. McDonald, Abdassalam Ehbair, Timothy G. J. Jones, Loretta M. Murphy, Simon Creer
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-017-15624-x

Influences of anthropogenic land use on microbial community structure and functional potentials of stream benthic biofilms
Cited by: 31
Author(s): Xiaodong Qu, Ze Ren, Haiping Zhang, Min Zhang, Yuhang Zhang, Xiaobo Liu, Wenqi Peng
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-017-15598-w

Early diverging lineages within Cryptomycota and Chytridiomycota dominate the fungal communities in ice-covered lakes of the McMurdo Dry Valleys, Antarctica
Cited by: 62
Author(s): Keilor Rojas-Jiménez, Christian Wurzbacher, Elizabeth C. Bourne, Amy Chiuchiolo, John C. Priscu, Hans‐Peter Grossart
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-017-16371-9

Comparative Genomics of Color Morphs In the Coral Montastraea cavernosa
Cited by: 9
Author(s): Jessica K. Jarett, Matthew D. MacManes, Kathleen M. Morrow, M. Sabrina Pankey, Michael P. Lesser
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-018-20589-6

The effects of glyphosate, glufosinate, paraquat and paraquat-diquat on soil microbial activity and bacterial, archaeal and nematode diversity
Cited by: 60
Author(s): Paul G. Dennis, T. Kukulies, Christian Forstner, Thomas G. Orton, Anthony B. Pattison
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-018-21440-8

Biogeographical Differences in the Influence of Maternal Microbial Sources on the Early Successional Development of the Bovine Neonatal Gastrointestinal tract
Cited by: 103
Author(s): Carl J. Yeoman, Suzanne L. Ishaq, Elena Bichi, Sarah K. Olivo, James Lowe, Brian Aldridge
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-018-25701-4

Dissection of niche competition between introduced and indigenous arbuscular mycorrhizal fungi with respect to soybean yield responses
Cited by: 35
Author(s): Rieko Niwa, Toshie Koyama, Takumi Sato, Katsuki Adachi, Keitaro Tawaraya, Shusei Sato, Hideki Hirakawa, Shigenobu Yoshida, Tatsuhiro Ezawa
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-27100-1

Spatial and Environmental Variation of the Human Hair Microbiota
Cited by: 24
Author(s): Lauren Brinkac, Thomas H. Clarke, Harinder Singh, Chris Greco, Andrés Gómez, Manolito Torralba, Bryan Frank, Karen E. Nelson
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-28905-w

Unique subgingival microbiota associated with periodontitis in cirrhosis patients
Cited by: 24
Author(s): A. S. Jensen, Lea Ladegaard Grønkjær, Palle Holmstrup, Hendrik Vilstrup, Mogens Kilian
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-29442-2

Actinobacteria associated with Chinaberry tree are diverse and show antimicrobial activity
Cited by: 12
Author(s): Ke Zhao, Jing Li, Mingli Shen, Qiang Chen, Maoke Liu, Xiaolin Ao, Decong Liao, Yunfu Gu, Kaiwei Xu, Menggen Ma, Xiumei Yu, Quanju Xiang, Ji Chen, Xiaoping Zhang, Petri Penttinen
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-29307-8

Mineralogical and textural characteristics of nest building geomaterials used by three sympatric mud-nesting hirundine species
Cited by: 9
Author(s): Dimitrios Papoulis, Olga Tzortzakaki, Pavlos Avramidis, Panagiotis Mentis, Paraskevi Lampropoulou, George Iliopoulos
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-29730-x

Types of tobacco consumption and the oral microbiome in the United Arab Emirates Healthy Future (UAEHFS) Pilot Study
Cited by: 39
Author(s): Yvonne Vallès, Claire K. Inman, Brandilyn A. Peters, Raghib Ali, Laila Abdel Wareth, Abdishakur Abdulle, Habiba Alsafar, Fatme Al Anouti, Ayesha S. Al Dhaheri, Divya Galani, Muna Abdalla Mohamed Haji, Aisha Al Hamiz, Ayesha Al Hosani, Mohammed Al-Houqani, Abdulla Al Junaibi, Marina Kazim, Tomas Kirchhoff, Wael Al Mahmeed, Fatma Al-Maskari, Abdullah Alnaeemi, Naima Oumeziane, Ravichandran Ramasamy, Ann Marie Schmidt, Michael Weitzman, Eiman Al Zaabi, Scott E. Sherman, Richard B. Hayes, Jiyoung Ahn
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-29759-y

High Dose Vitamin D supplementation alters faecal microbiome and predisposes mice to more severe colitis
Cited by: 36
Author(s): Simon Ghaly, Nadeem O. Kaakoush, Frances Lloyd, Terence McGonigle, D. Mok, Angela Baird, Borut Klopcic, Lavinia Gordon, Shelley Gorman, Cynthia Forest, Roger Bouillon, Ian C. Lawrance, Prue H. Hart
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-30179-1

Sample size effects on the assessment of eukaryotic diversity and community structure in aquatic sediments using high-throughput sequencing
Cited by: 40
Author(s): Francisco J. A. Nascimento, Delphine Lallias, Holly M. Bik, Simon Creer
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-020-64027-y

Nitrifying biofilms deprived of organic carbon show higher functional resilience to increases in carbon supply
Cited by: 20
Author(s): Sharada Navada, Maja F. Knutsen, Ingrid Bakke, Ôlav Vadstein
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-64761-3

Fluconazole resistance in Candida albicans is induced by Pseudomonas aeruginosa quorum sensing
Cited by: 31
Author(s): Nihal Bandara, David Wood, Inka Vanwonterghem, Philip Hugenholtz, Bmy Cheung, LP Samaranayake
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-65031-y

Metagenomic analysis of an urban resistome before and after wastewater treatment
Cited by: 50
Author(s): Felipe Lira, Ivone Vaz‐Moreira, Javier Tamames, Célia M. Manaia, José Luis Martínez
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-64779-7

Hurricane-induced disturbance increases genetic diversity and population admixture of the direct-brooding isopod, Gnathia marleyi
Cited by: 9
Author(s): J. Andrés Pagán, Ana Veríssimo, Paul C. Sikkel, Raquel Xavier
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-65643-4

Station and train surface microbiomes of Mexico City’s metro (subway/underground)
Cited by: 14
Author(s): Apolinar M. Hernández, Daniela Vargas-Robles, Luis David Alcaraz, Mariana Peimbert
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-66005-w

A practical assessment of nano-phosphate on soybean (Glycine max) growth and microbiome establishment
Cited by: 14
Author(s): Michelle M. McKnight, Zhi Qu, John W. Copeland, David S. Guttman, Virginia K. Walker
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-66067-w

AMF communities associated to Vitis vinifera in an Italian vineyard subjected to integrated pest management at two different phenological stages
Cited by: 14
Author(s): Nadia Massa, Elisa Bona, Giorgia Novello, Valeria Todeschini, Lara Boatti, Flavio Mignone, Elisa Gamalero, Graziano Lingua, Graziella Berta, Patrizia Cesaro
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-66361-7

Persistence of plastic debris and its colonization by bacterial communities after two decades on the abyssal seafloor
Cited by: 52
Author(s): Stefan Krause, Massimiliano Molari, Elena V. Gorb, Elke Kossel, Matthias Haeckel
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-66477-w

Metabolomic differences between invasive alien plants from native and invaded habitats
Cited by: 15
Author(s): Sarah A. Skubel, Xiaoyang Su, Alexander Poulev, Llewellyn C. Foxcroft, Slavik Dushenkov, Ilya Raskin
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-67631-0

Soil as an extended composite phenotype of the microbial metagenome
Cited by: 37
Author(s): Andrew L. Neal, Aurélie Bacq-Labreuil, Xiaoxian Zhang, Ian M. Clark, Kevin Coleman, Sacha J. Mooney, Karl Ritz, John W. Crawford
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-72349-0

Biogeochemical water type influences community composition, species richness, and biomass in megadiverse Amazonian fish assemblages
Cited by: 30
Author(s): Juan David Bogotá-Gregory, Flávio C. T. Lima, Sandra Bibiana Correa, Cárlison Silva‐Oliveira, David G. Jenkins, Frank Raynner Vasconcelos Ribeiro, Nathan R. Lovejoy, Roberto Esser dos Reis, William G. R. Crampton
Software Mentions: 3
Published: about 4 years ago

10.1038/s41598-020-72903-w

DJ-1 (Park7) affects the gut microbiome, metabolites and the development of innate lymphoid cells (ILCs)
Cited by: 15
Author(s): Yogesh Singh, Christoph Trautwein, Achal Dhariwal, Madhuri S. Salker, Alauddin, Laimdota Zizmare, Lisann Pelzl, Martina Feger, Jakob Admard, Nicolas Casadei, Michael Föller, P. Vivek, David Park, Tak W. Mak, Julia-Stefanie Frick, D. Wallwiener, Sara Brucker, Florian Läng, Olaf Rieß
Software Mentions: 3
Published: about 4 years ago

10.1038/s41598-020-73748-z

Demographic history and adaptive synonymous and nonsynonymous variants of nuclear genes in Rhododendron oldhamii (Ericaceae)
Cited by: 1
Author(s): Yi Chiang Hsieh, Chih-Hsiung Chang, Jeng Der Chung, Shih Ying Hwang
Software Mentions: 3
Published: about 4 years ago

10.1038/s41598-020-74429-7

Riparian and in-channel habitat properties linked to dragonfly emergence
Cited by: 7
Author(s): Zoe G. O'Malley, Zacchaeus G. Compson, Jessica M. Orlofske, Donald J. Baird, R. Allen Curry, Wendy Monk
Software Mentions: 3
Published: about 4 years ago

10.1038/s41598-020-74651-3

Fecal microbiota transplantation from warthog to pig confirms the influence of the gut microbiota on African swine fever susceptibility
Cited by: 14
Author(s): Jinya Zhang, Fernando Rodrı́guez, María Jesús Navas, Mar Costa-Hurtado, Vanessa Almagro, Laia Bosch-Camós, Elisabeth López, R. Cuadrado, Francesc Accensi, Sonia Pina-Pedrero, Jorge Martínez, Florencia Correa‐Fiz
Software Mentions: 3
Published: about 4 years ago

10.1038/s41598-020-75847-3

A multi-disciplinary comparison of great ape gut microbiota in a central African forest and European zoo
Cited by: 13
Author(s): Victor Narat, Katherine R. Amato, Noémie Ranger, Maud Salmona, Séverine Mercier‐Delarue, Stephanie Rupp, Philippe Ambata, Richard Njouom, François Simon, Tamara Giles‐Vernick, Jérôme LeGoff
Software Mentions: 3
Published: about 4 years ago

10.1038/s41598-020-76474-8

Gut microbiota and metabolic health among overweight and obese individuals
Cited by: 60
Author(s): Mi‐Hyun Kim, Kyung Eun Yun, Jimin Kim, Eunkyo Park, Yoosoo Chang, Seungho Ryu, Hyung Lae Kim, Han Na Kim
Software Mentions: 3
Published: about 4 years ago

10.1128/mSystems.00295-18

A Phylogenetic and Functional Perspective on Volatile Organic Compound Production by Actinobacteria
Cited by: 35
Author(s): Mallory J. Choudoir, Sam Rossabi, Matthew J. Gebert, Detlev Helmig, Noah Fierer
Software Mentions: 3
Published: over 5 years ago

10.1128/mSystems.00004-19

Neutral Processes Drive Seasonal Assembly of the Skin Mycobiome
Cited by: 26
Author(s): Xinzhao Tong, Marcus H. Y. Leung, David E. Wilkins, Hedwig H. L. Cheung, Patrick K. H. Lee
Software Mentions: 3
Published: over 5 years ago

10.1128/mSystems.00293-19

A Microbiome-Based Index for Assessing Skin Health and Treatment Effects for Atopic Dermatitis in Children
Cited by: 20
Author(s): Zheng Sun, Shi Huang, Pengfei Zhu, Feng Yue, Helen Zhao, Ming Yang, Yinong Niu, Gongchao Jing, Xiaoquan Su, Huiying Li, Chris Callewaert, Rob Knight, Jiquan Liu, Ed Smith, Karl Wei, Jian Xu
Software Mentions: 3
Published: over 5 years ago

10.1128/mSystems.00450-19

Oral Microbiome Alterations Associated with Early Childhood Caries Highlight the Importance of Carbohydrate Metabolic Activities
Cited by: 53
Author(s): Yuan Wang, Sa Wang, Chunyan Wu, Xi Chen, Zhuhui Duan, Qian Xu, Wen Jiang, Lei Xu, Tingting Wang, Lei Su, Ying Wang, Yadong Chen, Jie Zhang, Yun Huang, Suman Tong, Cheng Zhou, Shengjue Deng, Nan Qin
Software Mentions: 3
Published: almost 5 years ago

10.1128/mSystems.00629-19

Intranasal Bacterial Therapeutics Reduce Colonization by the Respiratory Pathogen Mannheimia haemolytica in Dairy Calves
Cited by: 32
Author(s): Samat Amat, Trevor W. Alexander, Devin B. Holman, Timothy Schwinghamer, Edouard Timsit
Software Mentions: 3
Published: over 4 years ago

10.1128/mSystems.00635-19

Metabolome-Informed Microbiome Analysis Refines Metadata Classifications and Reveals Unexpected Medication Transfer in Captive Cheetahs
Cited by: 12
Author(s): Julia M. Gauglitz, James T. Morton, Anupriya Tripathi, Shalisa Hansen, Michele Gaffney, Carolina S. Carpenter, Kelly C. Weldon, Riya Shah, Amy Parampil, Andrea Fidgett, Austin D. Swafford, Rob Knight, Pieter C. Dorrestein
Software Mentions: 3
Published: over 4 years ago

10.1128/mSystems.00412-20

Shifts in the Bacterial Population and Ecosystem Functions in Response to Vegetation in the Yellow River Delta Wetlands
Cited by: 17
Author(s): Jia‐Ning Wang, Jingjing Wang, Zhaoke Zheng, Zhifeng Li, Zhiguo Zhang, Decun Zhao, Lidong Wang, Lu Feng, Yuezhong Li
Software Mentions: 3
Published: over 4 years ago

10.1128/mSystems.00864-19

Interindividual Variation in Dietary Carbohydrate Metabolism by Gut Bacteria Revealed with Droplet Microfluidic Culture
Cited by: 31
Author(s): Max M. Villa, Rachael J. Bloom, Justin D. Silverman, Heather K. Durand, Sharon Jiang, Anchi Wu, Eric P. Dallow, Shuqiang Huang, You Li, Lawrence A. David
Software Mentions: 3
Published: over 4 years ago

10.1128/mSystems.00317-20

Consumption of a Western-Style Diet Modulates the Response of the Murine Gut Microbiome to Ciprofloxacin
Cited by: 21
Author(s): Damien J. Cabral, Jenna I. Wurster, Benjamin J. Korry, Swathi Penumutchu, Peter Belenky
Software Mentions: 3
Published: over 4 years ago

10.1128/mSystems.00367-20

Microbiome and Metagenome Analyses of a Closed Habitat during Human Occupation
Cited by: 3
Author(s): Ganesh Babu Malli Mohan, Ceth W. Parker, Camilla Urbaniak, Nitin Kumar Singh, A. D. Hood, Jeremiah J. Minich, Rob Knight, Michelle A. Rucker, Kasthuri Venkateswaran
Software Mentions: 3
Published: over 4 years ago

10.1128/mSystems.00438-19

Association of Flavonifractor plautii, a Flavonoid-Degrading Bacterium, with the Gut Microbiome of Colorectal Cancer Patients in India
Cited by: 93
Author(s): Ankit Gupta, Darshan B. Dhakan, Abhijit Maji, Rituja Saxena, P K Vishnu Prasoodanan, Shruti Mahajan, Joby Pulikkan, Jacob Kurian, Andrés Gómez, Joy Scaria, Katherine R. Amato, Ashok Sharma, Vineet K. Sharma
Software Mentions: 3
Published: almost 5 years ago

10.1128/mSystems.00511-19

Ecology and Host Identity Outweigh Evolutionary History in Shaping the Bat Microbiome
Cited by: 48
Author(s): Holly L. Lutz, Elliot W. Jackson, Paul W. Webala, Waswa S. Babyesiza, Julian C. Kerbis Peterhans, Terrence C. Demos, Bruce D. Patterson, Jack A. Gilbert
Software Mentions: 3
Published: almost 5 years ago

10.1128/mSystems.00452-20

Microbe-Metabolite Associations Linked to the Rebounding Murine Gut Microbiome Postcolonization with Vancomycin-Resistant Enterococcus faecium
Cited by: 2
Author(s): Andre Mu, Glen P. Carter, Lucy Li, Nicole Isles, Alison Vrbanac, James T. Morton, Alan K. Jarmusch, David P. De Souza, Vinod K. Narayana, Komal Kanojia, Brunda Nijagal, Malcolm J. McConville, Rob Knight, Benjamin P Howden, Timothy P. Stinear
Software Mentions: 3
Published: over 4 years ago

10.1128/mSystems.00561-20

Gut Microbiota and Metabolome Alterations Associated with Parkinson’s Disease
Cited by: 138
Author(s): Sarah Vascellari, Vanessa Palmas, Marta Melis, Silvia Pisanu, Roberto Cusano, Paolo Uva, Daniela Perra, Veronica Madau, Marianna Sarchioto, Valentina Oppo, Nicola Simola, Micaela Morelli, Maria Laura Santoru, Luigi Atzori, Maurizio Melis, Giovanni Cossu, Aldo Manzin
Software Mentions: 3
Published: about 4 years ago

10.1128/mSystems.00721-20

Rice SST Variation Shapes the Rhizosphere Bacterial Community, Conferring Tolerance to Salt Stress through Regulating Soil Metabolites
Cited by: 28
Author(s): Tengxiang Lian, Yingyong Huang, Xianan Xie, Xing Huo, Muhammad Qasim Shahid, Lei Tian, Tao Lan, Jing Jin
Software Mentions: 3
Published: almost 4 years ago

10.1128/mSystems.01322-20

Longitudinal Profiling of the Macaque Vaginal Microbiome Reveals Similarities to Diverse Human Vaginal Communities
Cited by: 11
Author(s): Nicholas S Rhoades, Sara M Hendrickson, Danielle R. Gerken, Kassandra Martinez, Ov D. Slayden, Mark K. Slifka, Ilhem Messaoudi
Software Mentions: 3
Published: over 3 years ago

10.1128/mSystems.00358-21

Integrated Multi-omics Investigations Reveal the Key Role of Synergistic Microbial Networks in Removing Plasticizer Di-(2-Ethylhexyl) Phthalate from Estuarine Sediments
Cited by: 16
Author(s): Sean Ting-Shyang Wei, Yi Lung Chen, Yu Wei Wu, Tien Yu Wu, Yi Li Lai, Po Hsiang Wang, Wael Ismail, Tzong‐Huei Lee, Yin-Ru Chiang
Software Mentions: 3
Published: over 3 years ago

10.1128/mSystems.01056-20

Microbiome Aggregated Traits and Assembly Are More Sensitive to Soil Management than Diversity
Cited by: 14
Author(s): Andrew L. Neal, David Hughes, Ian M. Clark, Janet K. Jansson, P. R. Hirsch
Software Mentions: 3
Published: over 3 years ago

10.1128/mSystems.00137-21

Metagenome-Wide Analysis of Rural and Urban Surface Waters and Sediments in Bangladesh Identifies Human Waste as a Driver of Antibiotic Resistance
Cited by: 10
Author(s): Ross Stuart McInnes, Hassan Uz-Zaman, Imam Taskin Alam, Siu Fung Stanley Ho, Robert A. Moran, John D. Clemens, Soriful Islam, Willem van Schaik
Software Mentions: 3
Published: about 3 years ago

10.1128/mSystems.00179-21

Gut Microbiome Structure and Association with Host Factors in a Korean Population
Cited by: 10
Author(s): Mi Young Lim, Seungpyo Hong, So-Jung Bang, Won‐Hyong Chung, Ji-Hee Shin, Jung-Ha Kim
Software Mentions: 3
Published: about 3 years ago

10.1128/mSystems.00708-21

Identification and Quantification of Bovine Digital Dermatitis-Associated Microbiota across Lesion Stages in Feedlot Beef Cattle
Cited by: 13
Author(s): Ben Caddey, Karin Orsel, Sohail Naushad, Hooman Derakhshani, Jeroen De Buck
Software Mentions: 3
Published: about 3 years ago

10.1038/s41396-020-00875-w

The amphibian microbiome exhibits poor resilience following pathogen-induced disturbance
Cited by: 27
Author(s): Andrea J. Jani, Jessie Bushell, Cédric Arisdakessian, Mahdi Belcaid, Daniel M. Boiano, Cathy Brown, Roland A. Knapp
Software Mentions: 3
Published: almost 4 years ago

10.1038/ismej.2015.53

Marked seasonal variation in the wild mouse gut microbiota
Cited by: 244
Author(s): Corinne F. Maurice, Sarah C. L. Knowles, Joshua Ladau, Katherine S. Pollard, Andy Fenton, Amy B. Pedersen, Peter J. Turnbaugh
Software Mentions: 3
Published: over 9 years ago

10.1038/s41396-020-00883-w

Zooplankton carcasses stimulate microbial turnover of allochthonous particulate organic matter
Cited by: 5
Author(s): Darshan Neubauer, О. В. Колмакова, Jason N. Woodhouse, Robert Taube, Kai Mangelsdorf, Michail I. Gladyshev, Katrin Premke, Hans‐Peter Grossart
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41396-018-0259-x

Diverse diazotrophs are present on sinking particles in the North Pacific Subtropical Gyre
Cited by: 75
Author(s): Hanna Farnelid, Kendra A. Turk‐Kubo, Helle Ploug, Justin E. Ossolinski, James R. Collins, Benjamin A. S. Van Mooy, Jonathan P. Zehr
Software Mentions: 3
Published: over 6 years ago

10.1038/s41396-021-00906-0

Soil microbial diversity–biomass relationships are driven by soil carbon content across global biomes
Cited by: 137
Author(s): Felipe Bastida, David J. Eldridge, Carlos Garcı́a, G. Kenny Png, Richard D. Bardgett, Manuel Delgado‐Baquerizo
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41396-020-00874-x

Specificity of assemblage, not fungal partner species, explains mycorrhizal partnerships of mycoheterotrophic Burmannia plants
Cited by: 8
Author(s): Zhongtao Zhao, Xiaojuan Li, Ming Fai Liu, Vincent Merckx, Richard M. Saunders, Dianxiang Zhang
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41396-019-0468-y

Halophilic microbial community compositional shift after a rare rainfall in the Atacama Desert
Cited by: 50
Author(s): Gherman Uritskiy, Samantha Getsin, Adam Munn, Benito Gómez-Silva, Alfonso F. Dávila, B. Glass, James Taylor, Jocelyne DiRuggiero
Software Mentions: 3
Published: over 5 years ago

10.3390/nu12020290

Long-Term Blackcurrant Supplementation Modified Gut Microbiome Profiles in Mice in an Age-Dependent Manner: An Exploratory Study
Cited by: 13
Author(s): Lei Cao, Sang Gil Lee, Melissa M. Melough, Junichi Sakaki, Kendra Maas, Sung I. Koo
Software Mentions: 3
Published: almost 5 years ago

10.3390/nu13051682

A Combined Analysis of Gut and Skin Microbiota in Infants with Food Allergy and Atopic Dermatitis: A Pilot Study
Cited by: 20
Author(s): Ewa Łoś-Rycharska, Marcin Gołębiewski, Marcin Sikora, Tomasz Grzybowski, Marta Gorzkiewicz, Maria Popielarz, Julia Gawryjołek, Aneta Krogulska
Software Mentions: 3
Published: over 3 years ago

10.3390/nu11020418

Gut Mucosal Proteins and Bacteriome Are Shaped by the Saturation Index of Dietary Lipids
Cited by: 40
Author(s): Nijiati Abulizi, Candice Quin, Kirsty Brown, Yee Kwan Chan, S K Gill, Deanna L. Gibson
Software Mentions: 3
Published: almost 6 years ago

10.3390/nu10081069

Ultraviolet Irradiation of Skin Alters the Faecal Microbiome Independently of Vitamin D in Mice
Cited by: 28
Author(s): Simon Ghaly, Nadeem O. Kaakoush, Frances Lloyd, Lavinia Gordon, Cynthia Forest, Ian C. Lawrance, Prue H. Hart
Software Mentions: 3
Published: over 6 years ago

10.3390/nu13030820

Microbiota Changes in Fathers Consuming a High Prebiotic Fiber Diet Have Minimal Effects on Male and Female Offspring in Rats
Cited by: 3
Author(s): Faye Chleilat, Alana Schick, Raylene A. Reimer
Software Mentions: 3
Published: over 3 years ago

10.3390/nu13010162

Application of Ligilactobacillus salivarius CECT5713 to Achieve Term Pregnancies in Women with Repetitive Abortion or Infertility of Unknown Origin by Microbiological and Immunological Modulation of the Vaginal Ecosystem
Cited by: 14
Author(s): Leónides Fernández, Irma Castro, Rebeca Arroyo, Claudio Alba, David Beltrán, Juan M. Rodríguez
Software Mentions: 3
Published: almost 4 years ago

10.3390/microorganisms9030659

New Insights on the Zeugodacus cucurbitae (Coquillett) Bacteriome
Cited by: 4
Author(s): Elias Asimakis, Panagiota Stathopoulou, Apostolis Sapounas, Kanjana Khaeso, Costas Batargias, Mahfuza Khan, George Tsiamis
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-020-80732-0

Application of wood ash leads to strong vertical gradients in soil pH changing prokaryotic community structure in forest top soil
Cited by: 11
Author(s): Toke Bang‐Andreasen, Mette Peltre, Lea Ellegaard-Jensen, Lars Hestbjerg Hansen, Morten Ingerslev, Regin Rønn, Carsten Suhr Jacobsen, Rasmus Kjøller
Software Mentions: 3
Published: almost 4 years ago

10.1002/advs.202100536

Decreased Abundance of Akkermansia muciniphila Leads to the Impairment of Insulin Secretion and Glucose Homeostasis in Lean Type 2 Diabetes
Cited by: 63
Author(s): Jing Zhang, Yueqiong Ni, Lingling Qian, Qichen Fang, Tingting Zheng, Mingliang Zhang, Qiongmei Gao, Ying Zhang, Jingwei Ni, Xuhong Hou, Yuqian Bao, Petia Kovatcheva‐Datchary, Aimin Xu, Huating Li, Gianni Panagiotou, Weiping Jia
Software Mentions: 3
Published: over 3 years ago

10.3390/microorganisms8040609

Incidental Prophylactic Appendectomy Is Associated with a Profound Microbial Dysbiosis in the Long-Term
Cited by: 13
Author(s): Lidia Sánchez-Alcoholado, José Carlos Fernández‐García, Carolina Gutiérrez-Repiso, María Rosa Bernal-López, Luis Ocaña-Wilhelmi, Eduardo Garcı́a-Fuentes, Isabel Moreno-Indias, Francisco J. Tinahones
Software Mentions: 3
Published: over 4 years ago

10.3390/microorganisms8121984

Temporal Resistome and Microbial Community Dynamics in an Intensive Aquaculture Facility with Prophylactic Antimicrobial Treatment
Cited by: 15
Author(s): Hemant J. Patil, Joao Gatica, Avihai Zolti, Ayana Benet-Perelberg, Alon Naor, Barak Dror, Ashraf Al-Ashhab, Sophi Marman, Nur A. Hasan, Rita R. Colwell, Daniel Sher, Dror Minz, Eddie Cytryn
Software Mentions: 3
Published: almost 4 years ago

10.1264/jsme2.ME17163

Diarrhea-Associated Intestinal Microbiota in Captive Sichuan Golden Snub-Nosed Monkeys (Rhinopithecus roxellana)
Cited by: 13
Author(s): Hongxiang Zhu, Dong Zeng, Qiang Wang, Ning Wang, Bo Zeng, Lili Niu, Xueqin Ni
Software Mentions: 3
Published: almost 7 years ago

10.1007/s00248-020-01667-7

Root-Associated Mycobiomes of Common Temperate Plants (Calluna vulgaris and Holcus lanatus) Are Strongly Affected by Winter Climate Conditions
Cited by: 3
Author(s): Mathilde Borg Dahl, Derek Peršoh, Anke Jentsch, Jüergen Kreyling
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41598-017-06675-1

Richer gut microbiota with distinct metabolic profile in HIV infected Elite Controllers
Cited by: 70
Author(s): Jan Vesterbacka, Javier Rivera, Kajsa Noyan, Mariona Parera, Ujjwal Neogi, M. Luz Calle, Roger Paredes, Anders Sönnerborg, Marc Noguera-Julián, Piotr Nowak
Software Mentions: 3
Published: over 7 years ago

Projects: cran: PERMANOVA

Papers Mentioning PERMANOVA 6,292