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 6 years ago

10.3390/microorganisms8122022

Comparative Microbiome and Metabolome Analyses of the Marine Tunicate Ciona intestinalis from Native and Invaded Habitats
Cited by: 15
Author(s): Caroline Utermann, Martina Blümel, Kathrin Busch, Larissa Buedenbender, Ya‐Ping Lin, Brad Haltli, Russell G. Kerr, Elizabeta Briski, Ute Hentschel, Deniz Taşdemir
Software Mentions: 3
Published: almost 6 years ago

10.3390/microorganisms7060160

The Biodiversity and Geochemistry of Cryoconite Holes in Queen Maud Land, East Antarctica
Cited by: 17
Author(s): Stefanie Lutz, Lori A. Ziolkowski, Liane G. Benning
Software Mentions: 3
Published: over 7 years ago

10.3390/microorganisms9081704

The Sisal Virome: Uncovering the Viral Diversity of Agave Varieties Reveals New and Organ-Specific Viruses
Cited by: 3
Author(s): Gabriel Quintanilha-Peixoto, Paula Luize Camargos Fonseca, Fábio Trigo Raya, Marina Püpke Marone, Dener Eduardo Bortolini, Piotr A. Mieczkowski, Roenick Proveti Olmo, Marcelo Falsarella Carazzolle, Christian A. Voigt, Ana Cristina Fermino Soares, Gonçalo Amarante Guimarães Pereira, Aristóteles Goés-Neto, Eric Roberto Guimarães Rocha Aguiar
Software Mentions: 3
Published: about 5 years ago

10.3390/microorganisms8101481

Environmental Influences of High-Density Agricultural Animal Operation on Human Forearm Skin Microflora
Cited by: 11
Author(s): Mengfei Peng, Debabrata Biswas
Software Mentions: 3
Published: almost 6 years ago

10.3390/microorganisms8101482

Seasonal Variations in Soil Microbiota Profile of Termite (Syntermes wheeleri) Mounds in the Brazilian Tropical Savanna
Cited by: 9
Author(s): Helena Ipe Pinheiro Guimaraes, Renata Henrique Santana, Rafaella Silveira Sousa, Otávio Henrique Bezerra Pinto, Betânia Ferraz Quirino, Cristine Chaves Barreto, Mercedes Maria da Cunha Bustamante
Software Mentions: 3
Published: almost 6 years ago

10.3390/microorganisms9030657

Bacterial Dimethylsulfoniopropionate Biosynthesis in the East China Sea
Cited by: 9
Author(s): Ji Liu, Yunhui Zhang, Jingli Liu, Haohui Zhong, Beth T. Williams, Yanfen Zheng, Andrew R. J. Curson, Chuang Sun, Hao Sun, Delei Song, Brett Wagner Mackenzie, Ana Bermejo Martínez, Jonathan D. Todd, Xiaohua Zhang
Software Mentions: 3
Published: over 5 years ago

10.3390/microorganisms9030589

Relative Abundances of Species or Sequence Variants Can Be Misleading: Soil Fungal Communities as an Example
Cited by: 15
Author(s): Lukas Beule, Markus Arndt, Petr Karlovský
Software Mentions: 3
Published: over 5 years ago

10.3390/microorganisms8121854

The Duration of Increased Grain Feeding Affects the Microbiota throughout the Digestive Tract of Yearling Holstein Steers
Cited by: 5
Author(s): J.C. Plaizier, Paula Azevedo, B. L. Schurmann, P. Górka, G. B. Penner, Ehsan Khafipour
Software Mentions: 3
Published: almost 6 years ago

10.3390/microorganisms8060806

Bacterial Tomato Pathogen Ralstonia solanacearum Invasion Modulates Rhizosphere Compounds and Facilitates the Cascade Effect of Fungal Pathogen Fusarium solani
Cited by: 11
Author(s): Lv Su, Lifan Zhang, Duoqian Nie, Eiko E. Kuramae, Biao Shen, Qirong Shen
Software Mentions: 3
Published: over 6 years ago

10.3390/microorganisms8071003

Untargeted Metagenomic Investigation of the Airway Microbiome of Cystic Fibrosis Patients with Moderate-Severe Lung Disease
Cited by: 17
Author(s): Giovanni Bacci, Giovanni Taccetti, Daniela Dolce, Federica Armanini, Nicola Segata, Francesca Di Cesare, Vincenzina Lucidi, Ersilia Fiscarelli, Patrizia Morelli, R. Casciaro, Anna Negroni, Alessio Mengoni, Annamaria Bevivino
Software Mentions: 3
Published: about 6 years ago

10.3390/microorganisms8101577

Legacy Effects Overshadow Tree Diversity Effects on Soil Fungal Communities in Oil Palm-Enrichment Plantations
Cited by: 7
Author(s): Johannes Ballauff, Delphine Clara Zemp, Dominik Schneider, Bambang Irawan, Rolf Daniel, Andrea Polle
Software Mentions: 3
Published: almost 6 years ago

10.3390/microorganisms8101579

The Core and Distinction of the Gut Microbiota in Chinese Populations across Geography and Ethnicity
Cited by: 16
Author(s): Dong‐Tsamn Lin, Ran Wang, Junjie Luo, Fazheng Ren, Zhenglong Gu, Yiqiang Zhao, Liang Zhao
Software Mentions: 3
Published: almost 6 years ago

10.3390/microorganisms9030647

Dynamics of Gut Microbiota Recovery after Antibiotic Exposure in Young and Old Mice (A Pilot Study)
Cited by: 12
Author(s): Daniel Laubitz, Katri V. Typpo, Monica T. Midura-Kiela, Clairessa M. Brown, Albert Barberán, Fayez K. Ghishan, Pawel R. Kiela
Software Mentions: 3
Published: over 5 years ago

10.1111/mec.15009

Genetic association with high‐resolution climate data reveals selection footprints in the genomes of barley landraces across the Iberian Peninsula
Cited by: 19
Author(s): Bruno Contreras‐Moreira, Roberto Serrano‐Notivoli, Naheif E. Mohammed, Carlos Pérez Cantalapiedra, Santiago Beguerı́a, Ana M. Casas, Ernesto Igartua
Software Mentions: 3
Published: over 7 years ago

10.1111/mec.15546

Potential adaptive divergence between subspecies and populations of snapdragon plants inferred from<i>Q</i>_ST–<i>F</i>_STcomparisons
Cited by: 9
Author(s): Sara Marin, Anaïs Gibert, Juliette Archambeau, Vincent Bonhomme, Mylène Lascoste, Benoît Pujol
Software Mentions: 3
Published: about 6 years ago

10.1111/mec.12823

Fine‐scale spatial genetic structure of common and declining bumble bees across an agricultural landscape
Cited by: 43
Author(s): Stephanie Dreier, John W. Redhead, Ian A. Warren, Andrew F. G. Bourke, Matthew S. Heard, William Chester Jordan, Seirian Sumner, Jinliang Wang, Claire Carvell
Software Mentions: 3
Published: about 12 years ago

10.1111/mec.14459

The effects of pastoral intensification on the feeding interactions of generalist predators in streams
Cited by: 6
Author(s): Caitlin E. Pearson, William Oliver Christian Symondson, Elizabeth L. Clare, Stephen James Ormerod, Esther Iparraguirre Bolaños, Ian P. Vaughan
Software Mentions: 3
Published: over 8 years ago

10.1111/mec.14895

Biodiversity–function relationships in methanogenic communities
Cited by: 25
Author(s): Pawel Sierocinski, Florian Bayer, Gabriel Yvon‐Durocher, Melia Burdon, Tobias Großkopf, Mark Alston, David Swarbreck, P. J. Hobbs, Orkun S. Soyer, Angus Buckling
Software Mentions: 3
Published: almost 8 years ago

10.1111/mec.13746

The ecology of an adaptive radiation of three-spined stickleback from North Uist, Scotland
Cited by: 31
Author(s): Isabel S. Magalhaes, Daniele D’Agostino, Paul A. Hohenlohe, Andrew D. C. MacColl
Software Mentions: 3
Published: about 10 years ago

10.1111/mec.12638

Bacterial profiling of <scp>W</scp> hite <scp>P</scp> lague Disease across corals and oceans indicates a conserved and distinct disease microbiome
Cited by: 74
Author(s): Cornelia Roder, Chatchanit Arif, Camille Daniels, Ernesto Weil, Christian R. Voolstra
Software Mentions: 3
Published: over 12 years ago

10.1111/mec.14886

<scp>DNA</scp>metabarcoding unveils multiscale trophic variation in a widespread coastal opportunist
Cited by: 33
Author(s): Andjin Siegenthaler, Owen S. Wangensteen, Chiara Benvenuto, Joana Campos, Stefano Mariani
Software Mentions: 3
Published: almost 8 years ago

10.1111/1755-0998.13215

Evaluation of primer pairs for microbiome profiling from soils to humans within the One Health framework
Cited by: 52
Author(s): . Wasimuddin, Klaus Schlaeppi, Francesca Ronchi, Stephen L. Leib, Matthias Erb, Alban Ramette
Software Mentions: 3
Published: about 6 years ago

10.3390/molecules22101734

Analysis of Genetic Diversity and Structure Pattern of Indigofera Pseudotinctoria in Karst Habitats of the Wushan Mountains Using AFLP Markers
Cited by: 6
Author(s): Yanting Fan, Chenglin Zhang, Wen Bing Wu, Wei He, Li Zhang, Xiao Ma
Software Mentions: 3
Published: almost 9 years ago

10.7717/peerj.5596

Local-scale determinants of arboreal spider beta diversity in a temperate forest: roles of tree architecture, spatial distance, and dispersal capacity
Cited by: 7
Author(s): Zhang Qiongdao, Dong He, Hua Wu, Wei Shi, Cong Chen
Software Mentions: 3
Published: about 8 years ago

10.7717/peerj.1435

Biogeographic variation in the microbiome of the ecologically important sponge,<i>Carteriospongia foliascens</i>
Cited by: 41
Author(s): Heidi M. Luter, Stefanie Widder, Emmanuelle S. Botté, Muhammad Abdul Wahab, Steve W Whalan, Lucas Moitinho‐Silva, Torsten Thomas, Nicole S. Webster
Software Mentions: 3
Published: almost 11 years ago

10.7717/peerj.3689

Diversity of compounds in femoral secretions of Galápagos iguanas (genera:<i>Amblyrhynchus</i>and<i>Conolophus</i>), and their potential role in sexual communication in lek-mating marine iguanas (<i>Amblyrhynchus cristatus</i>)
Cited by: 10
Author(s): Alejandro Ibáñez, Markus Menke, Galo Quezada, Gustavo Jiménez-Uzcátegui, Stefan Schulz, Sebastian Steinfartz
Software Mentions: 3
Published: about 9 years ago

10.7717/peerj.6775

Distribution of crabs along a habitat gradient on the Yellow Sea coast after <i>Spartina alterniflora</i> invasion
Cited by: 3
Author(s): Pan Chen, Yan Zhang, Xingyu Zhu, Changhu Lu
Software Mentions: 3
Published: over 7 years ago

10.7717/peerj.81

Benthic communities at two remote Pacific coral reefs: effects of reef habitat, depth, and wave energy gradients on spatial patterns
Cited by: 100
Author(s): Gareth J. Williams, Jennifer E. Smith, Eric Conklin, Jamison M. Gove, Enric Sala, Stuart A. Sandin
Software Mentions: 3
Published: over 13 years ago

10.7717/peerj.9538

A comparison of lodgepole and spruce needle chemistry impacts on terrestrial biogeochemical processes during isolated decomposition
Cited by: 5
Author(s): Laura Leonard, Kristin M. Mikkelson, Zhao Hao, Eoin L. Brodie, Kenneth H. Williams, Jonathan O. Sharp
Software Mentions: 3
Published: about 6 years ago

10.7717/peerj.3532

Fungi associated with mesophotic macroalgae from the ‘Au‘au Channel, west Maui are differentiated by host and overlap terrestrial communities
Cited by: 23
Author(s): Benjamin J. Wainwright, Geoffrey Zahn, Heather L. Spalding, Alison R. Sherwood, Celia M. Smith, Anthony S. Amend
Software Mentions: 3
Published: about 9 years ago

10.7717/peerj.8147

Accumulation of di-2-ethylhexyl phthalate from polyvinyl chloride flooring into settled house dust and the effect on the bacterial community
Cited by: 6
Author(s): Samantha Velazquez, Chenyang Bi, Jeff Kline, Susie Nunez, Rich Corsi, Ying Xu, Suzanne L. Ishaq
Software Mentions: 3
Published: almost 7 years ago

10.7717/peerj.5014

Comparison of cryptobenthic reef fish communities among microhabitats in the Red Sea
Cited by: 14
Author(s): Emily Troyer, Darren J. Coker, Michael L. Berumen
Software Mentions: 3
Published: over 8 years ago

10.7717/peerj.8869

A halo of reduced dinoflagellate abundances in and around eelgrass beds
Cited by: 8
Author(s): Emily Jacobs-Palmer, Ramón Gallego, Ana Ramón‐Laca, Emily Kunselman, Kelly Cribari, Micah Horwith, Ryan P. Kelly
Software Mentions: 3
Published: over 6 years ago

10.7717/peerj.2048

Temporal changes in the structure of a plant-frugivore network are influenced by bird migration and fruit availability
Cited by: 42
Author(s): Michelle Ramos‐Robles, Ellen Andresen, Cecilia Díaz‐Castelazo
Software Mentions: 3
Published: over 10 years ago

10.7717/peerj.6570

PCR effects of melting temperature adjustment of individual primers in degenerate primer pools
Cited by: 3
Author(s): Ankur Naqib, Trisha Jeon, Kevin Kunstman, Weihua Wang, Yiding Shen, Dagmar Sweeney, Marieta Hyde, Stefan J. Green
Software Mentions: 3
Published: over 7 years ago

10.7717/peerj.8424

Airborne microbial biodiversity and seasonality in Northern and Southern Sweden
Cited by: 20
Author(s): Edvin Karlsson, Anna-Mia Johansson, Jon Ahlinder, Moa J. Lundkvist, Navinder J. Singh, Tomas Brodin, Mats Forsman, Per Stenberg
Software Mentions: 3
Published: over 6 years ago

10.7717/peerj.4135

Multi-scale and multi-site resampling of a study area in spatial genetics: implications for flying insect species
Cited by: 5
Author(s): Julien Haran, Jean‐Pierre Rossi, J. A. Pajares, Luís Bonifácio, Pedro Naves, Alain Roques, Géraldine Roux
Software Mentions: 3
Published: almost 9 years ago

10.7717/peerj.1491

Metagenomic and satellite analyses of red snow in the Russian Arctic
Cited by: 27
Author(s): Nao Hisakawa, Steven D. Quistad, Eric R. Hester, Daria Martynova, Heather Maughan, Enric Sala, Maria Gavrilo, Forest Rohwer
Software Mentions: 3
Published: almost 11 years ago

10.7717/peerj.5329

Genetic diversity of Microsporidia in the circulatory system of endemic amphipods from different locations and depths of ancient Lake Baikal
Cited by: 11
Author(s): Mariya Dimova, Ekaterina Madyarova, Anton Gurkov, Polina Drozdova, Yulia Lubyaga, Elizaveta Kondrateva, R. V. Adelshin, Maxim A. Timofeyev
Software Mentions: 3
Published: about 8 years ago

10.7717/peerj.6471

A simulation framework for evaluating multi-stage sampling designs in populations with spatially structured traits
Cited by: 4
Author(s): Patricia Puerta, Lorenzo Ciannelli, Becky Johnson
Software Mentions: 3
Published: over 7 years ago

10.7717/peerj.306

Degree of adaptive response in urban tolerant birds shows influence of habitat-of-origin
Cited by: 4
Author(s): Lawrence E Conole
Software Mentions: 3
Published: over 12 years ago

10.7717/peerj.8571

Gynodioecy in the common spindle tree (<i>Euonymus europaeus</i>L.) involves differences in the asymmetry of corolla shapes between sexually differentiated flowers
Cited by: 3
Author(s): Jiří Neustupa
Software Mentions: 3
Published: over 6 years ago

10.7717/peerj.10131

Chemical patterns of colony membership and mother-offspring similarity in Antarctic fur seals are reproducible
Cited by: 0
Author(s): Jonas Tebbe, Emily Humble, Martin Stoffel, Lisa Johanna Tewes, Caroline Müller, Jaume Forcada, Barbara A. Caspers, Joseph I. Hoffman
Software Mentions: 3
Published: almost 6 years ago

10.7717/peerj.5269

Climate-induced phenological shift of apple trees has diverse effects on pollinators, herbivores and natural enemies
Cited by: 8
Author(s): Ádám Kőrösi, Viktor Markó, Anikó Kovács‐Hostyánszki, László Somay, Ákos Varga, Zoltán Elek, Virginie Boreux, Alexandra‐Maria Klein, Rita Földesi, András Báldi
Software Mentions: 3
Published: about 8 years ago

10.7717/peerj.3687

Sediment microbial taxonomic and functional diversity in a natural salinity gradient challenge Remane’s “species minimum” concept
Cited by: 31
Author(s): Christina Pavloudi, Jon Bent Kristoffersen, Anastasis Oulas, Marleen De Troch, Christos Arvanitidis
Software Mentions: 3
Published: almost 9 years ago

10.7717/peerj.6609

Phytobiomes are compositionally nested from the ground up
Cited by: 30
Author(s): Anthony S. Amend, Gerald M. Cobian, Áki J. Láruson, Kristina Remple, Sarah J. Tucker, Kirsten E Poff, Carmen Antaky, André Boraks, Casey A Jones, Donna Lee Kuehu, Becca R Lensing, Mersedeh Pejhanmehr, Daniel T Richardson, Paul P Riley
Software Mentions: 3
Published: over 7 years ago

10.7717/peerj.9732

Belowground fungal community diversity, composition and ecological functionality associated with winter wheat in conventional and organic agricultural systems
Cited by: 5
Author(s): Sigisfredo Garnica, Ronja Rosenstein, Max Emil Schön
Software Mentions: 3
Published: almost 6 years ago

10.7717/peerj.6895

Large-scale insect outbreak homogenizes the spatial structure of ectomycorrhizal fungal communities
Cited by: 2
Author(s): Gregory J. Pec, James Cahill
Software Mentions: 3
Published: over 7 years ago

10.1098/rstb.2019.0009

Using social network analysis of mixed-species groups in African savannah herbivores to assess how community structure responds to environmental change
Cited by: 18
Author(s): Kristine Meise, Daniel W. Franks, Jakob Bro‐Jørgensen
Software Mentions: 3
Published: about 7 years ago

10.1098/rstb.2020.0038

Juvenile Dungeness crabs (<i>Metacarcinus magister</i>) selectively integrate and modify the fatty acids of their experimental diets
Cited by: 6
Author(s): Michael Thomas, Julie B. Schram, Zade F Clark-Henry, Bree K. Yednock, Alan L. Shanks, Aaron W. E. Galloway
Software Mentions: 3
Published: over 6 years ago

10.1098/rstb.2015.0227

Towards a morphological metric of assemblage dynamics in the fossil record: a test case using planktonic foraminifera
Cited by: 21
Author(s): Allison Y. Hsiang, Leanne E. Elder, Pincelli M. Hull
Software Mentions: 3
Published: over 10 years ago

10.1152/physiolgenomics.00039.2020

Sleep fragmentation increases blood pressure and is associated with alterations in the gut microbiome and fecal metabolome in rats
Cited by: 49
Author(s): Katherine A. Maki, Larisa A. Burke, Michael W. Calik, Miki Watanabe-Chailland, Dagmar Sweeney, Lindsey E. Romick-Rosendale, Stefan J. Green, Anne Fink
Software Mentions: 3
Published: about 6 years ago

10.14814/phy2.14523

Age‐ and duration‐dependent effects of whey protein on high‐fat diet‐induced changes in body weight, lipid metabolism, and gut microbiota in mice
Cited by: 17
Author(s): Serena Boscaini, Raúl Cabrera‐Rubio, Oleksandr Nychyk, John R. Speakman, John F. Cryan, Paul D. Cotter, Kanishka N. Nilaweera
Software Mentions: 3
Published: about 6 years ago

10.1007/s00425-021-03569-5

Induced secretion system mutation alters rhizosphere bacterial composition in Sorghum bicolor (L.) Moench
Cited by: 3
Author(s): Vimal Kumar Balasubramanian, Lavanya Dampanaboina, Christopher J. Cobos, Nannan Yuan, Zhanguo Xin, Venugopal Mendu
Software Mentions: 3
Published: over 5 years ago

10.3390/plants9070919

Effects of Two Invasive Weeds on Arthropod Community Structure on the Central Plateau of New Zealand
Cited by: 6
Author(s): Evans Effah, D. Paul Barrett, Paul G. Peterson, Murray A. Potter, Jarmo K. Holopainen, Andrea Clavijo McCormick
Software Mentions: 3
Published: about 6 years ago

10.3390/plants8090346

Early Detection of Sage (Salvia officinalis L.) Responses to Ozone Using Reflectance Spectroscopy
Cited by: 24
Author(s): Alessandra Marchica, Silvia Loré, Lorenzo Cotrozzi, Giacomo Lorenzini, Cristina Nali, Elisa Pellegrini, Damiano Remorini
Software Mentions: 3
Published: about 7 years ago

10.3390/plants9060777

The Presence of Plant-Associated Bacteria Alters Responses to N-acyl Homoserine Lactone Quorum Sensing Signals that Modulate Nodulation in Medicago Truncatula
Cited by: 10
Author(s): Debora F. Veliz-Vallejos, Akitomo Kawasaki, Ulrike Mathesius
Software Mentions: 3
Published: about 6 years ago

10.3390/plants9050592

From Genome to Field—Observation of the Multimodal Nematicidal and Plant Growth-Promoting Effects of Bacillus firmus I-1582 on Tomatoes Using Hyperspectral Remote Sensing
Cited by: 16
Author(s): Nik Susič, Uroš Žibrat, Lovro Sinkovič, Andrej Vončina, Jaka Razinger, M. Knapič, Aleš Sedlar, Saša Širca, Barbara Gerič Stare
Software Mentions: 3
Published: over 6 years ago

10.3390/plants10010040

The Hydrological-Hydrochemical Factors that Control the Invasion of the Black Locust (Robinia pseudoacacia L.) in Succession in Areas with Opencast Mines
Cited by: 2
Author(s): Joanna Kidawa, Damian Chmura, Tadeusz Molenda
Software Mentions: 3
Published: over 5 years ago

10.3390/plants8100426

Do No Harm: Efficacy of a Single Herbicide Application to Control an Invasive Shrub While Minimizing Collateral Damage to Native Species
Cited by: 10
Author(s): David J. Gibson, Lindsay A. Shupert, Xian Liu
Software Mentions: 3
Published: almost 7 years ago

10.3390/plants9010066

The Effect of Organic Mulching and Irrigation on the Weed Species Composition and the Soil Weed Seed Bank of Tomato
Cited by: 12
Author(s): Renáta Petrikovszki, Mihály Zalai, Franciska Tóthné Bogdányi, Ferenc Tóth
Software Mentions: 3
Published: over 6 years ago

10.3390/plants10030596

Non-Native Eragrostis curvula Impacts Diversity of Pastures in South-Eastern Australia Even When Native Themeda triandra Remains Co-Dominant
Cited by: 0
Author(s): Corinne Schlierenzauer, Anita C. Risch, Martin Schütz, Jennifer Firn
Software Mentions: 3
Published: over 5 years ago

10.1007/s11104-018-3825-0

Potential for synergy in soil inoculation for nature restoration by mixing inocula from different successional stages
Cited by: 13
Author(s): E.R.J. Wubs, Pauline D. Melchers, T. Martijn Bezemer
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pbio.2000689

The enteric nervous system promotes intestinal health by constraining microbiota composition
Cited by: 118
Author(s): Annah S. Rolig, Erika Mittge, Julia Ganz, Josh V. Troll, Ellie Melançon, Travis J. Wiles, Kristin Alligood, W. Zac Stephens, Judith S Eisen, Karen Guillemin
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pgen.1009170

Culture-free genome-wide locus sequence typing (GLST) provides new perspectives on Trypanosoma cruzi dispersal and infection complexity
Cited by: 5
Author(s): Philipp Schwabl, Jalil Maiguashca Sánchez, Jaime A. Costales, Sofía Ocaña-Mayorga, Maikell Segovia, Hernán J. Carrasco, Carolina Hernández, Juan David Ramírez, Michael D. Lewis, Mario J. Grijalva, Martin S. Llewellyn
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pgen.1005413

A Year of Infection in the Intensive Care Unit: Prospective Whole Genome Sequencing of Bacterial Clinical Isolates Reveals Cryptic Transmissions and Novel Microbiota
Cited by: 163
Author(s): David J. Roach, Joshua N. Burton, Choli Lee, Bethany Stackhouse, Susan M. Butler-Wu, Brad T. Cookson, Jay Shendure, Stephen J. Salipante
Software Mentions: 3
Published: about 11 years ago

10.1371/journal.pgen.1007796

Evolution at two time frames: Polymorphisms from an ancient singular divergence event fuel contemporary parallel evolution
Cited by: 74
Author(s): Steven M. Van Belleghem, Carl Vangestel, Katrien De Wolf, Zoë De Corte, Markus Möst, Pasi Rastas, Luc De Meester, Frederik Hendrickx
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pgen.1005658

Variation in Rural African Gut Microbiota Is Strongly Correlated with Colonization by Entamoeba and Subsistence
Cited by: 163
Author(s): Elise R. Morton, Joshua Lynch, Alain Froment, Sophie Lafosse, Évelyne Heyer, Molly Przeworski, Ran Blekhman, Laure Ségurel
Software Mentions: 3
Published: almost 11 years ago

10.1371/journal.pone.0210321

Population genetic structure of the Mediterranean horseshoe bat Rhinolophus euryale in the central Balkans
Cited by: 10
Author(s): İvana Budinski, Jelena Blagojević, Vladimir Jovanović, Branka Pejić, Tanja Adnađević, Milan Paunović, Mladen Vujošević
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0149564

Characterization of the Gut Microbial Community of Obese Patients Following a Weight-Loss Intervention Using Whole Metagenome Shotgun Sequencing
Cited by: 197
Author(s): Sandrine Louis, Rewati-Mukund Tappu, Antje Damms-Machado, Daniel H. Huson, Stephan C. Bischoff
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0078248

Sharing of Diverse Mycorrhizal and Root-Endophytic Fungi among Plant Species in an Oak-Dominated Cool–Temperate Forest
Cited by: 63
Author(s): Hirokazu Toju, Satoshi Yamamoto, Hirotoshi Sato, Akifumi S. Tanabe
Software Mentions: 3
Published: almost 13 years ago

10.1371/journal.pone.0079035

Microbial Community Functional Change during Vertebrate Carrion Decomposition
Cited by: 132
Author(s): Jennifer L. Pechal, Tawni L. Crippen, Aaron M. Tarone, A. J. Lewis, Jeffery K. Tomberlin, M. Eric Benbow
Software Mentions: 3
Published: almost 13 years ago

10.1371/journal.pone.0150884

The Switch from Low-Pressure Sodium to Light Emitting Diodes Does Not Affect Bat Activity at Street Lights
Cited by: 29
Author(s): Elizabeth G. Rowse, Stephen Harris, Gareth Jones
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0022972

Watershed Urbanization Alters the Composition and Function of Stream Bacterial Communities
Cited by: 53
Author(s): Si-Yi Wang, Elizabeth B. Sudduth, Matthew D. Wallenstein, Justin P. Wright, Emily S. Bernhardt
Software Mentions: 3
Published: about 15 years ago

10.1371/journal.pone.0199093

Spatial distribution patterns of soil mite communities and their relationships with edaphic factors in a 30-year tillage cornfield in northeast China
Cited by: 5
Author(s): Jie Liu, Meixiang Gao, Yuxi Guo, Dong Liu, Xinyu Zhu, Donghui Wu
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0026556

Differences among Major Taxa in the Extent of Ecological Knowledge across Four Major Ecosystems
Cited by: 23
Author(s): Rebecca Fisher, Nancy­ Knowlton­, Russell E. Brainard, M. Julian Caley
Software Mentions: 3
Published: almost 15 years ago

10.1371/journal.pone.0248806

Soil bacterial communities and their associated functions for forest restoration on a limestone mine in northern Thailand
Cited by: 11
Author(s): Chakriya Sansupa, Witoon Purahong, Tesfaye Wubet, Pimonrat Tiansawat, Wasu Pathom-aree, Neung Teaumroong, Panuwan Chantawannakul, François Buscot, Stephen Elliott, Terd Disayathanoowat
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0245221

Pastoralism in the highest peaks: Role of the traditional grazing systems in maintaining biodiversity and ecosystem function in the alpine Himalaya
Cited by: 26
Author(s): Tenzing Ingty
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0235223

History of breastfeeding but not mode of delivery shapes the gut microbiome in childhood
Cited by: 13
Author(s): Camille C. Cioffi, Hannah F. Tavalire, Jenaè M. Neiderhiser, B. J. M. Bohannan, Leslie D. Leve
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0209102

Effects of macroconsumers on benthic communities: Rapid increases in dry-season accrual of calcium in a tropical karst stream
Cited by: 3
Author(s): Elaine Cristina Corrêa, Fábio de Oliveira Roque, Ryan M. Utz, Jonas de Sousa Correa, Franco L. Souza, Alan P. Covich
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0204445

Temporal dynamics in animal community assembly during post-logging succession in boreal forest
Cited by: 13
Author(s): Hélène Le Borgne, Christian Hébert, Angélique Dupuch, Orphé Bichet, David Pinaud, Daniel Fortin
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0132538

Optimising Regionalisation Techniques: Identifying Centres of Endemism in the Extraordinarily Endemic-Rich Cape Floristic Region
Cited by: 19
Author(s): P. Bradshaw, Jonathan F. Colville, H. Peter Linder
Software Mentions: 3
Published: about 11 years ago

10.1371/journal.pone.0107534

Application of Ion Torrent Sequencing to the Assessment of the Effect of Alkali Ballast Water Treatment on Microbial Community Diversity
Cited by: 22
Author(s): Masanori Fujimoto, Gregory A Moyerbrailean, Sifat Noman, Jason P. Gizicki, Michal L. Ram, Phyllis A. Green, Jeffrey L. Ram
Software Mentions: 3
Published: about 12 years ago

10.1371/journal.pone.0019288

Outcomes of Brood Parasite–Host Interactions Mediated by Egg Matching: Common Cuckoos Cuculus canorus versus Fringilla Finches
Cited by: 17
Author(s): Johan Reinert Vikan, Frode Fossøy, Esa Huhta, Arne Moksnes, Eivin Røskaft, Bård G. Stokke
Software Mentions: 3
Published: over 15 years ago

10.1371/journal.pone.0206366

Distinct mucosal microbial communities in infants with surgical necrotizing enterocolitis correlate with age and antibiotic exposure
Cited by: 13
Author(s): Joann Romano-Keeler, Meghan H. Shilts, Andrey Tovchigrechko, Chunlin Wang, Robert M. Brucker, Daniel J. Moore, Christopher Fonnesbeck, Shumei Meng, Hernán Correa, Harold N. Lovvorn, Yi Tang, Lora V. Hooper, Seth R. Bordenstein, Suman Das, Jörn-Hendrik Weitkamp
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0186766

Mapping and predictive variations of soil bacterial richness across France
Cited by: 72
Author(s): Sébastien Terrat, Walid Horrigue, Samuel Dequietd, Nicolas Saby, Mélanie Lelièvre, Virginie Nowak, Julie Tripied, Tiffanie Régnier, Claudy Jolivet, Dominique Arrouays, Patrick Wincker, Corinne Cruaud, Battle Karimi, Antonio Bispo, Pierre Alain Maron, Nicolas Chemidlin Prévost-Bouré, Lionel Ranjard
Software Mentions: 3
Published: almost 9 years ago

10.1371/journal.pone.0139633

Deep-Sea, Deep-Sequencing: Metabarcoding Extracellular DNA from Sediments of Marine Canyons
Cited by: 133
Author(s): Magdalena Guardiola, María Jesús Uriz, Pierre Taberlet, Éric Coissac, Owen S. Wangensteen, Xavier Turon
Software Mentions: 3
Published: almost 11 years ago

10.1371/journal.pone.0189349

Multifactorial genetic divergence processes drive the onset of speciation in an Amazonian fish
Cited by: 11
Author(s): Luiz Jardim de Queiroz, Gislene Torrente‐Vilara, Claudio S. Quilodrán, Carolina Rodrigues da Costa Doria, Juan I. Montoya‐Burgos
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0093445

Bioinformatic Approaches Reveal Metagenomic Characterization of Soil Microbial Community
Cited by: 54
Author(s): Xu Zhao, Mette Sif Hansen, Lars Hansen, Samuel Jacquiod, Søren J. Sørensen
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pone.0043866

Functional Biogeography of Ocean Microbes Revealed through Non-Negative Matrix Factorization
Cited by: 41
Author(s): Xingpeng Jiang, Morgan G. I. Langille, Russell Y. Neches, Marie A. Elliot, Simon A. Levin, Jonathan A. Eisen, Joshua S. Weitz, Jonathan Dushoff
Software Mentions: 3
Published: about 14 years ago

10.1371/journal.pone.0163148

Evaluation of Lysis Methods for the Extraction of Bacterial DNA for Analysis of the Vaginal Microbiota
Cited by: 64
Author(s): A. Christina Gill, Janneke van de Wijgert, Frances Blow, Alistair C. Darby
Software Mentions: 3
Published: almost 10 years ago

10.1371/journal.pone.0161196

Expanding the UniFrac Toolbox
Cited by: 51
Author(s): Ruth G. Wong, Jia Rong Wu, Gregory B. Gloor
Software Mentions: 3
Published: about 10 years ago

10.1371/journal.pone.0182533

A survey of the mycobiota associated with larvae of the black soldier fly (Hermetia illucens) reared for feed production
Cited by: 73
Author(s): Ilaria Varotto-Boccazzi, M. Ottoboni, Elena Martín, Francesco Comandatore, L. Vallone, Thomas Spranghers, Mia Eeckhout, Valeria Mereghetti, L. Pinotti, Sara Epis
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.pone.0221361

Arsenic bioaccumulation in subarctic fishes of a mine-impacted bay on Great Slave Lake, Northwest Territories, Canada
Cited by: 14
Author(s): John Chételat, Peter A. Cott, Maikel Rosabal, Adam J. Houben, Christine McClelland, Elise Belle Rose, Marc Amyot
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0099400

Gene Flow within and between Catchments in the Threatened Riparian Plant Myricaria germanica
Cited by: 18
Author(s): Silke Werth, Christoph Scheidegger
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pone.0169753

Bacterial Communities Associated with Houseflies (Musca domestica L.) Sampled within and between Farms
Cited by: 65
Author(s): Simon Bahrndorff, Nadieh de Jonge, Henrik Skovgård, Jeppe Lund Nielsen
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0250423

Millet-based supplement restored gut microbial diversity of acute malnourished pigs
Cited by: 3
Author(s): Xuejing Li, Yan Hui, Bingfeng Leng, Jinhan Ren, Yanni Song, Lianqiang Che, Xi Peng, Baojia Huang, Songling Liu, Lin Li, Dennis Sandris Nielsen, Yong Li, Xiaoshuang Dai, Shancen Zhao
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0110676

Modeling Pollinator Community Response to Contrasting Bioenergy Scenarios
Cited by: 22
Author(s): Ashley B. Bennett, Timothy D. Meehan, Claudio Gratton, Rufus Isaacs
Software Mentions: 3
Published: almost 12 years ago

10.1371/journal.pone.0159813

Ordinary and Extraordinary Movement Behaviour of Small Resident Fish within a Mediterranean Marine Protected Area
Cited by: 32
Author(s): Eneko Aspillaga, Frederic Bartumeus, Cristina Linares, Richard M. Starr, Àngel López‐Sanz, David Díaz, Míkel Zabala, Bernat Hereu
Software Mentions: 3
Published: about 10 years ago