10.1007/s13238-020-00724-8

A practical guide to amplicon and metagenomic analysis of microbiome data
Cited by: 311
Author(s): Yong‐Xin Liu, Yuan Qin, Tong Chen, Meiping Lu, Xubo Qian, Xiaoxuan Guo, Yang Bai
Software Mentions: 9
Published: over 6 years ago

10.7717/peerj.6746

Deterministic processes dominate soil microbial community assembly in subalpine coniferous forests on the Loess Plateau
Cited by: 19
Author(s): Pengyu Zhao, Jiabing Bao, Xue Wang, Yi Liu, Cui Li, Bo Chai
Software Mentions: 9
Published: over 7 years ago

10.3389/fmolb.2021.686110

Investigating the Role of Root Exudates in Recruiting Streptomyces Bacteria to the Arabidopsis thaliana Microbiome
Cited by: 14
Author(s): Sarah F. Worsley, Michael C. Macey, Samuel M. M. Prudence, Barrie Wilkinson, J. Colin Murrell, Matthew I. Hutchings
Software Mentions: 9
Published: over 5 years ago

10.1186/s12862-015-0296-2

Recurrent camouflaged invasions and dispersal of an Asian freshwater gastropod in tropical Africa
Cited by: 11
Author(s): Bert Van Bocxlaer, Catharina Clewing, Jean-Papy Mongindo Etimosundja, Alidor Busanga Kankonda, Oscar Wembo Ndeo, Christian Albrecht
Software Mentions: 9
Published: over 11 years ago

10.1038/s41396-019-0458-0

Virome heterogeneity and connectivity in waterfowl and shorebird communities
Cited by: 53
Author(s): Michelle Wille, Mǎng Shī, Marcel Klaassen, Aeron C. Hurt, Edward C. Holmes
Software Mentions: 9
Published: over 7 years ago

10.1371/journal.pone.0220770

Characterizing the soil microbiome and quantifying antibiotic resistance gene dynamics in agricultural soil following swine CAFO manure application
Cited by: 40
Author(s): Edward Lopatto, Jinlyung Choi, Alfredo Colina, Lanying Ma, Adina Howe, Shannon M. Hinsa-Leasure
Software Mentions: 9
Published: about 7 years ago

10.1038/s41598-018-38339-z

Spatial distribution of prokaryotic communities in hypersaline soils
Cited by: 26
Author(s): Blanca Vera-Gargallo, Taniya Roy Chowdhury, Joseph Brown, Sarah Fansler, Ana Durán‐Viseras, Cristina Sánchez‐Porro, Vanessa Bailey, Janet Jansson, António Ventosa
Software Mentions: 9
Published: over 7 years ago

10.1186/s40168-021-01054-5

A multi-OMIC characterisation of biodegradation and microbial community succession within the PET plastisphere
Cited by: 39
Author(s): Robyn J. Wright, Rafael Bosch, Morgan G. I. Langille, Matthew I. Gibson, Joseph Alexander Christie-Oleza
Software Mentions: 9
Published: over 5 years ago

10.1186/s12862-019-1406-3

Specificity of resistance and geographic patterns of virulence in a vertebrate host-parasite system
Cited by: 9
Author(s): Agnes Piecyk, Olivia Roth, Martin Kalbe
Software Mentions: 9
Published: over 7 years ago

10.3389/fmicb.2018.02452

Comprehensive Longitudinal Microbiome Analysis of the Chicken Cecum Reveals a Shift From Competitive to Environmental Drivers and a Window of Opportunity for Campylobacter
Cited by: 52
Author(s): Umer Zeeshan Ijaz, Lojika Sivaloganathan, Aaron McKenna, Anne Richmond, Carmel Kelly, Mark Linton, Alexandros Ch. Stratakos, Ursula Lavery, Abdi Elmi, Brendan W. Wren, Nick Dorrell, Nicolae Corcionivoschi, Ozan Gundogdu
Software Mentions: 9
Published: almost 8 years ago

10.1371/journal.pone.0243070

Temporal changes in bird communities in areas with different histories of fire disturbance in highland grasslands of Brazil
Cited by: 3
Author(s): Eduardo Chiarani, Maurício Bettio, Carla Suertegaray Fontana
Software Mentions: 9
Published: almost 6 years ago

10.3389/fmicb.2021.649981

Differential Impacts of Water Table and Temperature on Bacterial Communities in Pore Water From a Subalpine Peatland, Central China
Cited by: 7
Author(s): Wen Tian, Xiang Xiao, Hongmei Wang
Software Mentions: 9
Published: over 5 years ago

10.1038/s41598-020-59068-2

Tritrophic interactions follow phylogenetic escalation and climatic adaptation
Cited by: 5
Author(s): Alan Kergunteuil, Lauréline Humair, Anne-Laure Maire, María Fernanda Moreno‐Aguilar, Adrienne L. Godschalx, Pilar Catalán, Sergio Rasmann
Software Mentions: 9
Published: over 6 years ago

10.3897/mycokeys.81.66249

Soil fungal communities of ectomycorrhizal dominated woodlands across West Africa
Cited by: 6
Author(s): Peter Meidl, Brendan Furneaux, Kassim I. Tchan, Kerri L. Kluting, Martin Ryberg, Marie-Laure Guissou, Bakary Soro, Aïssata Traoré, Gbamon Konomou, Nourou S. Yorou, Anna Rosling
Software Mentions: 9
Published: over 5 years ago

10.1038/s41598-021-89496-7

Erosion of tropical bird diversity over a century is influenced by abundance, diet and subtle climatic tolerances
Cited by: 12
Author(s): Jenna R. Curtis, W. Douglas Robinson, Ghislain Rompré, Randall P. Moore, Bruce McCune
Software Mentions: 9
Published: over 5 years ago

10.1093/bioinformatics/btaa838

<i>MicrobiomeExplorer</i>: an R package for the analysis and visualization of microbial communities
Cited by: 16
Author(s): Janina Reeder, Mo Huang, Joshua S. Kaminker, Joseph N. Paulson
Software Mentions: 9
Published: almost 6 years ago

10.1186/s40168-018-0592-3

Citizen science charts two major “stomatotypes” in the oral microbiome of adolescents and reveals links with habits and drinking water composition
Cited by: 73
Author(s): Jesse R. Willis, Pedro González-Torres, Alexandros A. Pittis, Luis A. Bejarano, Luca Cozzuto, Núria Andreu, Miriam Alloza-Trabado, Antònia Valentín, Ewa Księżopolska, Harris Onywera, Magda Montfort, Antonio Hermoso, Susana Iraola-Guzmán, Ester Saus, Annick Labeeuw, Carlo Carolis, Jochen Hecht, Julia Ponomarenko, Toni Gabaldón
Software Mentions: 9
Published: almost 8 years ago

10.1186/s12866-021-02299-8

Diversity and flexibility of algal symbiont community in globally distributed larger benthic foraminifera of the genus Amphistegina
Cited by: 5
Author(s): Martina Prazeres, Thomas E. Roberts, Shadrina Fildzah Ramadhani, Steve S. Doo, Christiane Schmidt, Marleen Stuhr, Willem Renema
Software Mentions: 9
Published: about 5 years ago

10.3389/fmicb.2021.641643

Temporal Bacterial Community Diversity in the Nicotiana tabacum Rhizosphere Over Years of Continuous Monocropping
Cited by: 10
Author(s): Yan Ling, Wenyou Zhang, Wangjun Duan, Yizheng Zhang, Wen Zheng, Xianjun Lai
Software Mentions: 9
Published: over 5 years ago

10.1371/journal.pone.0229887

Characterization of dairy cow rumen bacterial and archaeal communities associated with grass silage and maize silage based diets
Cited by: 4
Author(s): Jueeli D. Vaidya, S. van Gastelen, Hauke Smidt, Caroline M. Plugge, Joan E. Edwards
Software Mentions: 9
Published: over 6 years ago

10.1002/ece3.2641

Convergent evolution in social swallows (Aves: Hirundinidae)
Cited by: 12
Author(s): Allison E. Johnson, Jonathan S. Mitchell, Mary Bomberger Brown
Software Mentions: 8
Published: almost 10 years ago

10.3389/fmicb.2020.579427

Environmental and Microbial Interactions Shape Methane-Oxidizing Bacterial Communities in a Stratified Lake
Cited by: 12
Author(s): Carole Guggenheim, Remo Freimann, Magdalena Mayr, Karin Beck, Bernhard Wehrli, Helmut Bürgmann
Software Mentions: 8
Published: almost 6 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: over 5 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 6 years ago

10.1186/s40168-019-0716-4

The association between pneumococcal vaccination, ethnicity, and the nasopharyngeal microbiota of children in Fiji
Cited by: 11
Author(s): Laura K. Boelsen, Eileen M. Dunne, Moana Mika, Stefanie Eggers, Cattram Nguyen, Felisita Tupou Ratu, Fiona M. Russell, E. Kim Mulholland, Markus Hilty, Catherine Satzke
Software Mentions: 8
Published: about 7 years ago

10.3390/jof6040372

Monitoring and Surveillance of Aerial Mycobiota of Rice Paddy through DNA Metabarcoding and qPCR
Cited by: 11
Author(s): S. Franco Ortega, Ilario Ferrocino, Ian Adams, Simone Silvestri, D. Spadaro, M. L. Gullino, Neil Boonham
Software Mentions: 8
Published: almost 6 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 6 years ago

10.1371/journal.pone.0250629

Epiphytic diatom community structure and richness is determined by macroalgal host and location in the South Shetland Islands (Antarctica)
Cited by: 3
Author(s): Andrea M. Burfeid-Castellanos, Rafael P. Martín–Martín, Michael Kloster, Carlos Angulo‐Preckler, Conxita Àvila, Bánk Beszteri
Software Mentions: 8
Published: over 5 years ago

10.1186/s40168-019-0748-9

Microbial communities of the house fly Musca domestica vary with geographical location and habitat
Cited by: 58
Author(s): Rahel Park, Maria C. Dzialo, Stijn Spaepen, Donat Nsabimana, Kim Gielens, Herman Devriese, Sam Crauwels, Raúl Y. Tito, Jeroen Raes, Bart Lievens, Kevin J. Verstrepen
Software Mentions: 8
Published: almost 7 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 6 years ago

10.1186/s40168-018-0593-2

Gut microbiome composition is associated with spatial structuring and social interactions in semi-feral Welsh Mountain ponies
Cited by: 61
Author(s): Rachael E. Antwis, Jessica M. D. Lea, Bryony Unwin, Susanne Shultz
Software Mentions: 8
Published: almost 8 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: over 5 years ago

10.1002/ece3.971

Local adaptations to frost in marginal and central populations of the dominant forest tree<i><scp>F</scp>agus sylvatica</i><scp>L</scp>. as affected by temperature and extreme drought in common garden experiments
Cited by: 82
Author(s): Jüergen Kreyling, Constanze Buhk, Sabrina Backhaus, Martin Hallinger, Gerhard Huber, Lukas A. Huber, Anke Jentsch, Monika Konnert, Daniel Thiel, Martin Wilmking, Carl Beierkuhnlein
Software Mentions: 8
Published: over 12 years ago

10.1371/journal.pone.0015734

Cross-Scale Analysis of the Region Effect on Vascular Plant Species Diversity in Southern and Northern European Mountain Ranges
Cited by: 57
Author(s): Jonathan Lenoir, Jean‐Claude Gégout, Antoine Guisan, Pascal Vittoz, Thomas Wohlgemuth, Niklaus E. Zimmermann, Stefan Dullinger, Harald Pauli, Wolfgang Willner, John‐Arvid Grytnes, Risto Virtanen, Jens‐Christian Svenning
Software Mentions: 8
Published: almost 16 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: almost 5 years ago

10.1038/s41598-021-92658-2

Profiling temporal dynamics of acetogenic communities in anaerobic digesters using next-generation sequencing and T-RFLP
Cited by: 10
Author(s): Abhijeet Singh, Bettina Müller, Anna Schnürer
Software Mentions: 8
Published: over 5 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 5 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 5 years ago

10.1186/s13104-016-2171-7

The effect of DNA extraction methodology on gut microbiota research applications
Cited by: 54
Author(s): Konstantinos Gerasimidis, Martin Bertz, Christopher Quince, K. T. Brunner, Alanna E. Bruce, Emilie Combet, Szymon T. Calus, Nicholas J. Loman, Umer Zeeshan Ijaz
Software Mentions: 8
Published: about 10 years ago

10.1128/AEM.02755-17

Microbial Diversity and Putative Opportunistic Pathogens in Dishwasher Biofilm Communities
Cited by: 45
Author(s): Prem K. Raghupathi, Jerneja Zupančič, Asker Brejnrod, Samuel Jacquiod, Kurt Houf, Mette Burmølle, Nina Gunde‐Cimerman, Søren J. Sørensen
Software Mentions: 8
Published: over 8 years ago

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: about 6 years ago

10.1038/s41598-020-69374-4

Against all odds: a tale of marine range expansion with maintenance of extremely high genetic diversity
Cited by: 8
Author(s): Joana Isabel Robalo, Sara Martins Francisco, Catarina Vendrell, Cristina S. Lima, Ana Pereira, Benedikt Brunner, Mamadou Dia, Leonel Serrano Gordo, Rita Castilho
Software Mentions: 8
Published: about 6 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 5 years ago

10.1038/s41598-020-59524-z

Cryptic species in the parasitic Amoebophrya species complex revealed by a polyphasic approach
Cited by: 16
Author(s): Ruibo Cai, Ehsan Kayal, Catharina Alves‐de‐Souza, Estelle Bigeard, Erwan Corre, Christian Jeanthon, Dominique Marie, Betina M. Porcel, Raffaele Siano, Jeremy Szymczak, Matthias Wolf, Laure Guillou
Software Mentions: 8
Published: over 6 years ago

10.1186/s40168-019-0630-9

Environmental filtering drives distinct continental atlases of soil archaea between dryland and wetland agricultural ecosystems
Cited by: 103
Author(s): Shuo Jiao, Ye Xu, Jie Zhang, Yahai Lu
Software Mentions: 8
Published: over 7 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: about 5 years ago

10.1002/ece3.4387

Toward an ecoregion scale evaluation of <scp>eDNA</scp> metabarcoding primers: A case study for the freshwater fish biodiversity of the Murray–Darling Basin (Australia)
Cited by: 69
Author(s): Jonas Bylemans, Dianne Gleeson, Christopher M. Hardy, Elise M. Furlan
Software Mentions: 8
Published: about 8 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: almost 8 years ago

10.1038/s41598-018-34921-7

Terminal restriction fragment length polymorphism is an “old school” reliable technique for swift microbial community screening in anaerobic digestion
Cited by: 37
Author(s): Jo De Vrieze, Umer Zeeshan Ijaz, Aaron Marc Saunders, Susanne Theuerl
Software Mentions: 8
Published: almost 8 years ago

10.1002/ece3.6390

Can ancestry and morphology be used as surrogates for species niche relationships?
Cited by: 5
Author(s): Friedrich W. Keppeler, Kirk O. Winemiller
Software Mentions: 8
Published: over 6 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 8 years ago

10.1002/ece3.6305

Effects of diet, habitat, and phylogeny on the fecal microbiome of wild African savanna (<i>Loxodonta africana</i>) and forest elephants (<i>L. cyclotis</i>)
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 6 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: about 5 years ago

10.1038/s42003-021-02509-z

Species diversity and food web structure jointly shape natural biological control in agricultural landscapes
Cited by: 10
Author(s): Fan Yang, Bing Liu, Zhao Yu, Kris A.G. Wyckhuys, Wopke Van der Werf, Yanhui Lu
Software Mentions: 8
Published: about 5 years ago

10.1002/ece3.6172

Habitat transitions alter the adaptive landscape and shape phenotypic evolution in needlefishes (Belonidae)
Cited by: 10
Author(s): Matthew A. Kolmann, Michael D. Burns, Justin Y. K. Ng, Nathan R. Lovejoy, Devin D. Bloom
Software Mentions: 8
Published: over 6 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: over 7 years ago

10.7717/peerj.4746

Exotic lagomorph may influence eagle abundances and breeding spatial aggregations: a field study and meta-analysis on the nearest neighbor distance
Cited by: 11
Author(s): Facundo Barbar, Gonzalo Oscar Ignazi, Fernando Hiraldo, Sergio A. Lambertucci
Software Mentions: 8
Published: over 8 years ago

10.1007/s11571-020-09645-y

Construction of embedded fMRI resting-state functional connectivity networks using manifold learning
Cited by: 12
Author(s): Ioannis Gallos, Evangelos Galaris, Constantinos Siettos
Software Mentions: 8
Published: almost 6 years ago

10.1186/s40168-017-0371-6

Multi-level comparisons of cloacal, skin, feather and nest-associated microbiota suggest considerable influence of horizontal acquisition on the microbiota assembly of sympatric woodlarks and skylarks
Cited by: 55
Author(s): H. Pieter J. van Veelen, Joana Falcão Salles, B. Irene Tieleman
Software Mentions: 8
Published: almost 9 years ago

10.1186/s40168-016-0213-y

Evolution of gut microbiota composition from birth to 24 weeks in the INFANTMET Cohort
Cited by: 361
Author(s): Colin Hill, Denise B. Lynch, Kiera Murphy, Marynka Ulaszewska, Ian B. Jeffery, Carol Anne O’Shea, Claire Watkins, Eugene M. Dempsey, Fulvio Mattivi, Kieran Tuohy, R. Paul Ross, C. Anthony Ryan, Paul W. O’Toole, Catherine Stanton
Software Mentions: 8
Published: over 9 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: about 6 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: over 5 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 5 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 6 years ago

10.1016/j.gpb.2019.09.007

Antidiabetic Effects of Gegen Qinlian Decoction via the Gut Microbiota Are Attributable to Its Key Ingredient Berberine
Cited by: 59
Author(s): Xizhan Xu, Zezheng Gao, Fuchao Yang, Yingying Yang, Liang Chen, Han Chieh Lin, Na Zhao, Jiayue Xu, Xinmiao Wang, Yue Ma, Lian Shu, Xueyou Hu, Na Lyu, Yuanlong Pan, Baoli Zhu, Linhua Zhao, Xiaolin Tong, Jun Wang
Software Mentions: 8
Published: almost 6 years ago

10.1186/s12866-021-02222-1

Patterns of yeast diversity distribution and its drivers in rhizosphere soil of Hami melon orchards in different regions of Xinjiang
Cited by: 7
Author(s): Shanshan Zhu, Yonghui Lei, Chong Wang, Yu‐Mei Wei, Chuncheng Wang, Yanfei Sun
Software Mentions: 8
Published: over 5 years ago

10.1098/rspb.2018.0519

Intercontinental karyotype–environment parallelism supports a role for a chromosomal inversion in local adaptation in a seaweed fly
Cited by: 33
Author(s): Claire Mérot, Emma L. Berdan, Charles Babin, Éric Normandeau, Maren Wellenreuther, Louis Bernatchez
Software Mentions: 8
Published: over 8 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 9 years ago

10.1038/s41598-019-39638-9

Gut microbiota of the European Brown Hare (Lepus europaeus)
Cited by: 14
Author(s): Gabrielle Stalder, Beate Pinior, Benjamin Zwirzitz, Igor Loncaric, Dennis Jakupović, Sebastian Vetter, Steve Smith, Annika Posautz, Franz Hoelzl, Martin Wagner, Daniel Hoffmann, Anna Kübber‐Heiss, Evelyne Mann
Software Mentions: 8
Published: over 7 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 8 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 8 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: almost 7 years ago

10.7717/peerj.6263

Variation in wild pea (<i>Pisum sativum</i>subsp.<i>elatius</i>) seed dormancy and its relationship to the environment and seed coat traits
Cited by: 32
Author(s): Iveta Hradilová, Martin Duchoslav, Jan Brus, Vilém Pechanec, Miroslav Hýbl, Pavel Kopecký, Lucie Smržová, Nikola Štefelová, Tadeáš Vaclávek, Michael Bariotakis, Jitka Machalová, Karel Hron, Stergios Pirintsos, Petr Smýkal
Software Mentions: 8
Published: over 7 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: about 11 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 6 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: almost 11 years ago

10.1093/aobpla/plab018

Alpine speciation and morphological innovations: revelations from a species-rich genus in the northern hemisphere
Cited by: 5
Author(s): Yazhou Zhang, Jianguo Chen, Hang Sun
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0151940

In-Hospital Disease Burden of Sarcoidosis in Switzerland from 2002 to 2012
Cited by: 30
Author(s): Susanne Pohle, Florent Baty, Martin Brutsche
Software Mentions: 8
Published: over 10 years ago

10.3389/fmicb.2019.02736

Habitat Heterogeneity and Connectivity: Effects on the Planktonic Protist Community Structure at Two Adjacent Coastal Sites (the Lagoon and the Gulf of Venice, Northern Adriatic Sea, Italy) Revealed by Metabarcoding
Cited by: 14
Author(s): Simona Armeli Minicante, Roberta Piredda, Grazia Marina Quero, Stefania Finotto, Fabrizio Bernardi Aubry, Mauro Bastianini, Alessandra Pugnetti, Adriana Zingone
Software Mentions: 8
Published: almost 7 years ago

10.3389/fmicb.2016.00517

Spatio-Temporal Interdependence of Bacteria and Phytoplankton during a Baltic Sea Spring Bloom
Cited by: 57
Author(s): Carina Bunse, Mireia Bertos‐Fortis, Ingrid Sassenhagen, Sirje Sildever, Conny Sjöqvist, Anna Godhe, Susanna Gross, Anke Kremp, Inga Lips, Nina Lundholm, Karin Rengefors, Josefin Sefbom, Jarone Pinhassi, Catherine Legrand
Software Mentions: 8
Published: over 10 years ago

10.3390/biom11050695

Variations in Gut Microbiome are Associated with Prognosis of Hypertriglyceridemia-Associated Acute Pancreatitis
Cited by: 10
Author(s): Xiaomin Hu, Liang Gong, Ronggang Zhou, Ziying Han, Ji Li, Yan Zhang, Shuyang Zhang, Dong Wu
Software Mentions: 8
Published: over 5 years ago

10.3390/biom10081179

Dietary Supplementation with Sugar Beet Fructooligosaccharides and Garlic Residues Promotes Growth of Beneficial Bacteria and Increases Weight Gain in Neonatal Lambs
Cited by: 2
Author(s): Narciso M. Quijada, Raúl Bodas, José M. Lorenzo, Stephan Schmitz‐Esser, David Rodrı́guez-Làzaro, Marta Hernández
Software Mentions: 8
Published: about 6 years ago

10.3389/fmicb.2019.02872

Soil Bacterial and Fungal Communities Exhibit Distinct Long-Term Responses to Disturbance in Temperate Forests
Cited by: 33
Author(s): Ernest D. Osburn, Steven G. McBride, Frank O. Aylward, Brian D. Badgley, Brian D. Strahm, Jennifer D. Knoepp, John E. Barrett
Software Mentions: 8
Published: almost 7 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: almost 8 years ago

10.3389/fmicb.2020.01780

Response of Soil Bacterial Community Diversity and Composition to Time, Fertilization, and Plant Species in a Sub-Boreal Climate
Cited by: 5
Author(s): Honghong Li, Petri Penttinen, Anu Mikkonen, Frederick L. Stoddard, Kristina Lindström
Software Mentions: 8
Published: about 6 years ago

10.3389/fmicb.2018.01868

Exposure to Yeast Shapes the Intestinal Bacterial Community Assembly in Zebrafish Larvae
Cited by: 29
Author(s): Prabhugouda Siriyappagouder, Jorge Galindo-Villegas, Jep Lokesh, Victoriano Mulero, Jorge M. O. Fernandes, Viswanath Kiron
Software Mentions: 8
Published: about 8 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 7 years ago

10.1371/journal.pone.0257471

Deciphering the low abundance microbiota of presumed aseptic hip and knee implants
Cited by: 2
Author(s): Charles Carr, Hannah Wilcox, Jeremy P. Burton, Sharanya Menon, Kait F. Al, David B. O’Gorman, Brent A. Lanting, Edward M. Vasarhelyi, Michael E. Neufeld, Matthew G. Teeter
Software Mentions: 8
Published: about 5 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: almost 7 years ago

10.3389/fmicb.2021.584676

Microbial Community Characteristics Largely Unaffected by X-Ray Computed Tomography of Sediment Cores
Cited by: 0
Author(s): Erica Ewton, Scott Klasek, Erin K. Peck, J. Wiest, Frederick S. Colwell
Software Mentions: 8
Published: over 5 years ago

10.1007/s00248-019-01414-7

Tropical Rainforest Restoration Plantations Are Slow to Restore the Soil Biological and Organic Carbon Characteristics of Old Growth Rainforest
Cited by: 7
Author(s): Mark Bonner, Diane E. Allen, Richard Brackin, Timothy Smith, Tom Lewis, Luke P. Shoo, Susanne Schmidt
Software Mentions: 8
Published: about 7 years ago

10.1038/s41598-020-66865-2

Reproductive hormones mediate changes in the gut microbiome during pregnancy and lactation in Phayre’s leaf monkeys
Cited by: 37
Author(s): Elizabeth K. Mallott, Carola Borries, Andreas Koenig, Katherine R. Amato, Amy Lu
Software Mentions: 8
Published: over 6 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: over 7 years ago

10.3389/fmicb.2015.01269

Prokaryotes in Subsoil—Evidence for a Strong Spatial Separation of Different Phyla by Analysing Co-occurrence Networks
Cited by: 39
Author(s): Marie Uksa, Michael Schloter, David Endesfelder, Susanne Kublik, Marion Engel, Timo Kautz, Ulrich Köpke, Doreen Fischer
Software Mentions: 8
Published: almost 11 years ago

10.1371/journal.pone.0208370

Measuring popularity of ecological topics in a temporal dynamical knowledge network
Cited by: 3
Author(s): Tian-Yuan Huang, Bin Zhao
Software Mentions: 8
Published: over 7 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 6 years ago

10.3389/fmicb.2020.610269

Zebra Mussel Holobionts Fix and Recycle Nitrogen in Lagoon Sediments
Cited by: 15
Author(s): Ugo Marzocchi, Stefano Bonaglia, Anastasija Zaiko, Grazia Marina Quero, Irma Vybernaite‐Lubiene, Tobia Politi, Aurelija Samuilovienė, Mindaugas Žilius, Marco Bartoli, Ulisse Cardini
Software Mentions: 8
Published: over 5 years ago

10.1186/s40168-018-0434-3

Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing
Cited by: 20
Author(s): Ellen L. Young, Manus Carey, Andrew A. Meharg, Caroline Meharg
Software Mentions: 8
Published: over 8 years ago

10.3390/biology10040314

Connectivity of Edaphic and Endolithic Microbial Niches in Cold Mountain Desert of Eastern Pamir (Tajikistan)
Cited by: 6
Author(s): Nataliia Khomutovska, Asunción de los Rı́os, Marcin Syczewski, Iwona Jasser
Software Mentions: 8
Published: over 5 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: over 6 years ago