cran: uclust | Projects | Ecosyste.ms: Papers

10.3390/ani9090599

Effects of Land Transport Stress on Variations in Ruminal Microbe Diversity and Immune Functions in Different Breeds of Cattle
Cited by: 20
Author(s): Fengpeng Li, Ali Mujtaba Shah, Zhisheng Wang, Quanhui Peng, Rui Hu, Huawei Zou, Cui Tan, Xiangfei Zhang, Yupeng Liao, Yongjie Wang, Xueying Wang, Lingping Zeng, Bai Xue, Lizhi Wang
Software Mentions: 3
Published: about 5 years ago

10.1186/s12864-017-4003-0

Conclusive evidence for hexasomic inheritance in chrysanthemum based on analysis of a 183 k SNP array
Cited by: 31
Author(s): Geert van Geest, Roeland E. Voorrips, Danny Esselink, Aike Post, Richard G. F. Visser, Paul Arens
Software Mentions: 3
Published: over 7 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: over 7 years ago

10.7717/peerj.53

Significant changes in the skin microbiome mediated by the sport of roller derby
Cited by: 77
Author(s): James F. Meadow, Ashley Bateman, Keith M. Herkert, Timothy K. O’Connor, Jessica L. Green
Software Mentions: 3
Published: over 11 years ago

10.7717/peerj.3717

The microbial biosphere of the coral Acropora cervicornis in Northeastern Puerto Rico
Cited by: 28
Author(s): Filipa Godoy-Vitorino, Claudia Patricia Ruiz-Diaz, Abigail Rivera-Seda, Juan S. Ramírez-Lugo, Carlos Toledo-Hernández
Software Mentions: 3
Published: about 7 years ago

10.7717/peerj.3536

Effect of freshwater mussels on the vertical distribution of anaerobic ammonia oxidizers and other nitrogen-transforming microorganisms in upper Mississippi river sediment
Cited by: 21
Author(s): Ellen M. Black, Michael S. Chimenti, Craig L. Just
Software Mentions: 3
Published: over 7 years ago

10.1186/s13568-016-0284-y

Bacterial and archeal community composition in hot springs from Indo-Burma region, North-east India
Cited by: 51
Author(s): Amrita Kumari Panda, Satpal Singh Bisht, Surajit De Mandal, Nachimuthu Senthil Kumar
Software Mentions: 3
Published: about 8 years ago

10.1371/journal.pone.0208171

Gut microbiota signatures in cystic fibrosis: Loss of host CFTR function drives the microbiota enterophenotype
Cited by: 75
Author(s): Pamela Vernocchi, Federica Del Chierico, Alessandra Russo, Fabio Majo, Martina Rossitto, Mariacristina Valerio, Luca Casadei, Antonietta La Storia, Francesca De Filippis, Cristiano Rizzo, Cesare Manetti, Paola Paci, Federico Marini, Ersilia Fiscarelli, Bruno Dallapiccola, Vincenzina Lucidi, Alfredo Miccheli, Lorenza Putignani
Software Mentions: 3
Published: almost 6 years ago

10.7717/peerj.545

Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences
Cited by: 469
Author(s): Jai Ram Rideout, Yan He, José A. Navas-Molina, William A. Walters, Luke K. Ursell, Sean M. Gibbons, John Chase, Daniel McDonald, Antonio González, Adam Robbins‐Pianka, José C. Clemente, Jack A. Gilbert, Susan M. Huse, Hong Zhou, Rob Knight, J. Gregory Caporaso
Software Mentions: 3
Published: over 10 years ago

10.1186/s42523-021-00091-7

Peripheral blood mononuclear cells (PBMC) microbiome is not affected by colon microbiota in healthy goats
Cited by: 6
Author(s): Ainize Peña‐Cearra, Alejandro Belanche, Monika Gonzalez-Lopez, José Luis Lavín, Miguel Ángel Pascual-Itoiz, Elisabeth Jiménez, Héctor Rodríguez, Ana M. Aransay, Juan Anguíta, D. R. Yáñez-Ruíz, Leticia Abecia
Software Mentions: 3
Published: over 3 years ago

10.7717/peerj.10194

Diversity of the gut microbiome in three grasshopper species using 16S rRNA and determination of cellulose digestibility
Cited by: 11
Author(s): Jianmei Wang, Jing Bai, Fang-Yuan Zheng, Lei Yao, Xiang Li, Jing Wang, Yong-Chao Zhi, Xin-Jiang Li
Software Mentions: 3
Published: about 4 years ago

10.3389/fmicb.2016.01622

Host-Specific Functional Significance of Caenorhabditis Gut Commensals
Cited by: 59
Author(s): Maureen Berg, Xiao Ying Zhou, Michael Y. Shapira
Software Mentions: 3
Published: about 8 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

10.1111/1751-7915.12298

Characterization of microbial community structure during continuous anaerobic digestion of straw and cow manure
Cited by: 181
Author(s): Li Sun, Phillip B. Pope, Vincent G. H. Eijsink, Anna Schnürer
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0145575

Effects of Fertilization and Sampling Time on Composition and Diversity of Entire and Active Bacterial Communities in German Grassland Soils
Cited by: 35
Author(s): Sarah Herzog, Franziska Wemheuer, Bernd Wemheuer, Rolf Daniel
Software Mentions: 3
Published: almost 9 years ago

10.1186/s13568-018-0714-0

Activated sludge bacterial communities of typical wastewater treatment plants: distinct genera identification and metabolic potential differential analysis
Cited by: 38
Author(s): Bo Zhang, Xiangyang Xu, Liang Zhu
Software Mentions: 3
Published: about 6 years ago

10.3390/md10081765

The Transcriptome of Bathymodiolus azoricus Gill Reveals Expression of Genes from Endosymbionts and Free-Living Deep-Sea Bacteria
Cited by: 22
Author(s): Conceição Egas, Miguel Pinheiro, Paula Fernanda Gomes, Cristina Barroso, Raúl Bettencourt
Software Mentions: 3
Published: over 12 years ago

10.1128/mSystems.00022-16

Geography and Location Are the Primary Drivers of Office Microbiome Composition
Cited by: 104
Author(s): John Chase, Jennifer Fouquier, Mahnaz Zare, Derek L. Sonderegger, Rob Knight, Scott T. Kelley, Jeffrey A. Siegel, J. Gregory Caporaso
Software Mentions: 3
Published: over 8 years ago

10.1128/mSphere.00017-18

Air-Dried Brown Seaweed, Ascophyllum nodosum , Alters the Rumen Microbiome in a Manner That Changes Rumen Fermentation Profiles and Lowers the Prevalence of Foodborne Pathogens
Cited by: 30
Author(s): Mi Zhou, Martin Hünerberg, Yanhong Chen, Tim Reuter, Tim A. McAllister, F. D. Evans, Alan T. Critchley, Le Luo Guan
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0200527

Modulation of the honey bee queen microbiota: Effects of early social contact
Cited by: 36
Author(s): J. Elijah Powell, Daren M. Eiri, Nancy A. Moran, Juliana Rangel
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pone.0181964

Regulation of type 1 diabetes development and B-cell activation in nonobese diabetic mice by early life exposure to a diabetogenic environment
Cited by: 15
Author(s): Alessandra Riva, Maja Wållberg, Francesca Ronchi, Richard M. R. Coulson, Andrew P. Sage, Lucy Thorne, Ian Goodfellow, Kathleen McCoy, Miyuki Azuma, Anne Cooke, Robert Busch
Software Mentions: 3
Published: over 7 years ago

10.3389/fmicb.2016.01917

Microbial Community of High Arsenic Groundwater in Agricultural Irrigation Area of Hetao Plain, Inner Mongolia
Cited by: 37
Author(s): Yanhong Wang, Ping Li, Zhou Jiang, Aki Sinkkonen, Wang Shi, Jin Tu, Dazhun Wei, Hailiang Dong, Yanxin Wang
Software Mentions: 3
Published: almost 8 years ago

10.1128/mBio.01833-19

Lotus japonicus Symbiosis Genes Impact Microbial Interactions between Symbionts and Multikingdom Commensal Communities
Cited by: 35
Author(s): Thorsten Thiergart, Rafal Zgadzaj, Zoltán Bozsóki, Ruben Garrido‐Oter, Simona Radutoiu, Paul Schulze‐Lefert
Software Mentions: 3
Published: about 5 years ago

10.1128/mSystems.00095-16

Impact of Sample Type and DNA Isolation Procedure on Genomic Inference of Microbiome Composition
Cited by: 132
Author(s): Berith Elkær Knudsen, Lasse Bergmark, Patrick Munk, Oksana Lukjancenko, Anders Priemé, Frank Møller Aarestrup, Sünje Johanna Pamp
Software Mentions: 3
Published: about 8 years ago

10.3390/ijms18010182

Independent Effects of a Herbivore’s Bacterial Symbionts on Its Performance and Induced Plant Defences
Cited by: 32
Author(s): Heike Staudacher, Bernardus C. J. Schimmel, Mart M. Lamers, Nicky Wybouw, Astrid T. Groot, Merijn R. Kant
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0191913

Metabarcoding analysis of eukaryotic microbiota in the gut of HIV-infected patients
Cited by: 20
Author(s): Ibrahim Hamad, Rita Abou Abdallah, Isabelle Ravaux, Saadia Mokhtari, Hervé Tissot‐Dupont, Caroline Michelle, Andréas Stein, Jean-Christophe Lagier, Didier Raoult, Fadi Bittar
Software Mentions: 3
Published: almost 7 years ago

10.1038/s41598-020-68305-7

Exploring bacteria diversity in commercialized table olive biofilms by metataxonomic and compositional data analysis
Cited by: 20
Author(s): Antonio Benítez-Cabello, Verónica Romero‐Gil, Eduardo Medina, Antonio Garrido‐Fernández, Francisco Noé Arroyo‐López
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-69389-x

A high-quality reference genome for cabbage obtained with SMRT reveals novel genomic features and evolutionary characteristics
Cited by: 22
Author(s): Honghao Lv, Yong Wang, Fengqing Han, Jialei Ji, Zhiyuan Fang, Mu Zhuang, Zhansheng Li, Yangyong Zhang, Limei Yang
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-020-62224-3

Implication of the gut microbiome composition of type 2 diabetic patients from northern China
Cited by: 93
Author(s): Qian Li, Yen-Yu Chang, Ke Zhang, Hao Chen, Tao Shen, Zhi Zhang
Software Mentions: 3
Published: over 4 years ago

10.3389/fimmu.2021.650621

Delayed Gut Colonization Shapes Future Allergic Responses in a Murine Model of Atopic Dermatitis
Cited by: 6
Author(s): Amalie W. Arildsen, Line Fisker Zachariassen, Łukasz Krych, Axel Kornerup Hansen, Camilla Hartmann Friis Hansen
Software Mentions: 3
Published: over 3 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: about 6 years ago

10.1038/s41598-018-24508-7

Tracing of the fecal microbiota of commercial pigs at five growth stages from birth to shipment
Cited by: 72
Author(s): Geon Goo Han, Jun-Yeong Lee, Gwi-Deuk Jin, Jongbin Park, Yo Han Choi, Seoung-Hun Kang, B. J. Chae, Eun Bae Kim, Yun‐Jaie Choi
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-32529-5

Community Structure, Dynamics and Interactions of Bacteria, Archaea and Fungi in Subtropical Coastal Wetland Sediments
Cited by: 60
Author(s): Man Kit Cheung, Carmen Wong, Ka Hou Chu, Hoi Shan Kwan
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0117210

Comparative Analysis of the Intestinal Bacterial and RNA Viral Communities from Sentinel Birds Placed on Selected Broiler Chicken Farms
Cited by: 31
Author(s): J. Michael Day, Brian B. Oakley, Bruce S. Seal, László Zsák
Software Mentions: 3
Published: almost 10 years ago

10.3389/fmicb.2021.715241

Synbiotics Containing Nanoprebiotics: A Novel Therapeutic Strategy to Restore Gut Dysbiosis
Cited by: 2
Author(s): Liang Hong, Sang-Mok Lee, Whee‐Soo Kim, Yun‐Jaie Choi, Seo-Ho Oh, Yuling Li, Sun-Hye Choi, Chung‐Chih Wu, Eunkyoung Jung, Seoung-Hun Kang, Chong‐Su Cho
Software Mentions: 3
Published: over 3 years ago

10.3390/ani10122352

Divergence in Gut Bacterial Community Structure between Male and Female Stag Beetles Odontolabis fallaciosa (Coleoptera, Lucanidae)
Cited by: 4
Author(s): Xia Wan, Yu Jiang, Yiyi Cao, Binghua Sun, Xingjia Xiang
Software Mentions: 3
Published: almost 4 years ago

10.3389/fmicb.2017.00796

Biogeographic Comparison of Lophelia-Associated Bacterial Communities in the Western Atlantic Reveals Conserved Core Microbiome
Cited by: 33
Author(s): Christina A. Kellogg, Dawn B. Goldsmith, Michael A. Gray
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-018-20649-x

In vivo microbiome and associated immune markers: New insights into the pathogenesis of vaginal dysbiosis
Cited by: 39
Author(s): Giuseppina Campisciano, Nunzia Zanotta, Danilo Licastro, Francesco De Seta, Manola Comar
Software Mentions: 3
Published: almost 7 years ago

10.1038/srep21631

Individual Apostichopus japonicus fecal microbiome reveals a link with polyhydroxybutyrate producers in host growth gaps
Cited by: 68
Author(s): Yasushi Yamazaki, Pedro Milet Meirelles, Sayaka Mino, Wataru Suda, Koichiro Oshima, Masahira Hattori, Fabiano L. Thompson, Yuichi Sakai, Toko Sawabe, Tomoo Sawabe
Software Mentions: 3
Published: over 8 years ago

10.1098/rsos.170033

Microbe biogeography tracks water masses in a dynamic oceanic frontal system
Cited by: 26
Author(s): Anni Djurhuus, Philipp H. Boersch‐Supan, Svein‐Ole Mikalsen, Alex D. Rogers
Software Mentions: 3
Published: over 7 years ago

10.3390/jcm8091291

Identification of a Shared Microbiomic and Metabolomic Profile in Systemic Autoimmune Diseases
Cited by: 32
Author(s): Chiara Bellocchi, Álvaro Fernández-Ochoa, Gaia Montanelli, Barbara Vigone, Alessandro Santaniello, Rosa Quirantes-Piné, Isabel Borrás-Linares, Maria Gerosa, Carolina Artusi, Roberta Gualtierotti, Antonio Segura-Carrettero, Marta E. Alarcón‐Riquelme, Lorenzo Beretta
Software Mentions: 3
Published: about 5 years ago

10.1186/s40168-016-0227-5

Host genetic variation in mucosal immunity pathways influences the upper airway microbiome
Cited by: 54
Author(s): Catherine Igartua, Emily Davenport, Yoav Gilad, Dan L. Nicolae, Jayant M. Pinto, Carole Ober
Software Mentions: 3
Published: almost 8 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

10.1038/s41598-017-05454-2

Microbiota composition of the koala (Phascolarctos cinereus) ocular and urogenital sites, and their association with Chlamydia infection and disease
Cited by: 13
Author(s): Miranda E. Vidgen, Jon Hanger, Peter Timms
Software Mentions: 3
Published: over 7 years ago

10.1002/ece3.4949

Shared and unique features of bacterial communities in native forest and vineyard phyllosphere
Cited by: 14
Author(s): Tohru Miura, Roland Sánchez, Luis E. Castañeda, Karina Godoy, Olga Barbosa
Software Mentions: 3
Published: almost 6 years ago

10.1186/s40168-017-0276-4

Symbionts in waiting: the dynamics of incipient endosymbiont complementation and replacement in minimal bacterial communities of psyllids
Cited by: 43
Author(s): Jennifer L. Morrow, Aidan A. G. Hall, Markus Riegler
Software Mentions: 3
Published: over 7 years ago

10.3389/fvets.2016.00011

Spatial and Temporal Changes in the Broiler Chicken Cecal and Fecal Microbiomes and Correlations of Bacterial Taxa with Cytokine Gene Expression
Cited by: 148
Author(s): Brian B. Oakley, Michael H. Kogut
Software Mentions: 3
Published: almost 9 years ago

10.1111/1462-2920.15024

Microbial community development on model particles in the deep sulfidic waters of the Black Sea
Cited by: 9
Author(s): Saara Suominen, Karlijn Doorenspleet, Jaap S. Sinninghe Damsté, Laura Villanueva
Software Mentions: 3
Published: over 4 years ago

10.12688/f1000research.9227.2

NG-Tax, a highly accurate and validated pipeline for analysis of 16S rRNA amplicons from complex biomes
Cited by: 86
Author(s): Javier Ramiro-García, Gerben D. A. Hermes, Christos Giatsis, Detmer Sipkema, Erwin G. Zoetendal, Peter J. Schaap, Hauke Smidt
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

10.3390/genes10050382

Comparison of Bacterial Populations in the Ceca of Swine at Two Different Stages and Their Functional Annotations
Cited by: 12
Author(s): Himansu Kumar, Woncheol Park, Krishnamoorthy Srikanth, Bong-Hwan Choi, Eun Seok Cho, Kyung-Tai Lee, Junmo Kim, Kwangmin Kim, Jun Hyung Park, Dajeong Lim
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-017-05259-3

Polydextrose changes the gut microbiome and attenuates fasting triglyceride and cholesterol levels in Western diet fed mice
Cited by: 57
Author(s): Ghulam Shere Raza, Heli Putaala, Ashley A. Hibberd, Esa Alhoniemi, Kirsti Tiihonen, Kari Mäkelä, Karl‐Heinz Herzig
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0091092

Evidence of a Putative Deep Sea Specific Microbiome in Marine Sponges
Cited by: 55
Author(s): Jonathan Kennedy, Burkhardt Flemer, Stephen A. Jackson, John P. Morrissey, Fergal O’Gara, Alan D. W. Dobson
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0240916

Species-dependent variation of the gut bacterial communities across Trypanosoma cruzi insect vectors
Cited by: 5
Author(s): Luisa M. Arias-Giraldo, Marina Muñoz, Carolina Hernández, Giovanny Herrera, Natalia Velásquez-Ortiz, Omar Cantillo-Barraza, Plutarco Urbano, Juan David Ramírez
Software Mentions: 3
Published: about 4 years ago

10.1371/journal.pone.0182235

Natural and artificial feeding management before weaning promote different rumen microbial colonization but not differences in gene expression levels at the rumen epithelium of newborn goats
Cited by: 33
Author(s): Leticia Abecia, Elisabeth Jiménez, Gonzalo Martínez Fernández, A. I. Martín-García, E. Ramos-Morales, Eric Pinloche, Stuart E. Denman, C. J. Newbold, D. R. Yáñez-Ruíz
Software Mentions: 3
Published: over 7 years ago

10.3389/fmicb.2016.01255

Honey Bee Gut Microbiome Is Altered by In-Hive Pesticide Exposures
Cited by: 149
Author(s): Madhavi L. Kakumanu, Alison M. Reeves, Troy D. Anderson, Richard R. Rodrigues, Mark A. Williams
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0148296

Microbial Community Profile and Water Quality in a Protected Area of the Caatinga Biome
Cited by: 19
Author(s): Fabyano Álvares Cardoso Lopes, Elisa Caldeira Pires Catão, Renata Henrique Santana, Anderson de Souza Cabral, Rodolfo Paranhos, Thiago Pessanha Rangel, Carlos Eduardo de Rezende, Robert A. Edwards, Cristiane C. Thompson, Fabiano L. Thompson, Ricardo Henrique Krüger
Software Mentions: 3
Published: almost 9 years ago

10.3389/fmicb.2017.02465

Microbial Communities Shaped by Treatment Processes in a Drinking Water Treatment Plant and Their Contribution and Threat to Drinking Water Safety
Cited by: 64
Author(s): Qi Li, Shuili Yu, Lei Li, Guicai Liu, Zhengyang Gu, Minmin Liu, Zhiyuan Liu, Yubing Ye, Qing Xia, Lei Ren
Software Mentions: 3
Published: almost 7 years ago

10.3389/fmicb.2016.01533

Coupling Bacterioplankton Populations and Environment to Community Function in Coastal Temperate Waters
Cited by: 13
Author(s): Sachia J. Traving, Mikkel Bentzon-Tilia, Helle Knudsen-Leerbeck, Mustafa Mantikçi, Jørgen L.S. Hansen, Colin A. Stedmon, Helle Sørensen, Stiig Markager, Lasse Riemann
Software Mentions: 3
Published: about 8 years ago

10.12688/f1000research.13841.1

A comparison of computationally predicted functional metagenomes and microarray analysis for microbial P cycle genes in a unique basalt-soil forest
Cited by: 13
Author(s): Erick S. LeBrun, Sanghoon Kang
Software Mentions: 3
Published: almost 7 years ago

10.1128/MRA.00757-19

The Bacterial Community in the Western Region of North Pacific Intermediate Water
Cited by: 0
Author(s): Maki Teramoto, Ayumi Komatsu, Kouhei Ohnishi
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0038283

Molecular Characterization of Podoviral Bacteriophages Virulent for Clostridium perfringens and Their Comparison with Members of the Picovirinae
Cited by: 40
Author(s): Nikolay V. Volozhantsev, Brian B. Oakley, Cesar A. Morales, Vladimir V. Verevkin, Vasily A. Bannov, Valentina M. Krasilnikova, Anastasiya V. Popova, Е. Л. Жиленков, Johnna K. Garrish, Kathleen M. Schegg, Rebekah Woolsey, David R. Quilici, J. Eric Line, Kelli L. Hiett, Gregory R. Siragusa, Э. А. Светоч, Bruce S. Seal
Software Mentions: 3
Published: over 12 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: about 7 years ago

10.1002/mbo3.1115

A preliminary examination of the bacterial, archaeal, and fungal rhizosphere microbiome in healthy and Phellinus noxius ‐infected trees
Cited by: 4
Author(s): Karen Sze Wing Tsang, Man Kit Cheung, Raymond H. W. Lam, Hoi Shan Kwan
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pntd.0007297

Genetic changes associated with the temporal shift in invasive non-typhoidal Salmonella serovars in Bamako Mali
Cited by: 4
Author(s): Kristin Bornstein, Sharon M. Tennant, Tracy H. Hazen, John D. Sorkin, Milagritos D. Tapia, Samba O. Sow, Uma Onwuchekwa, Myron M. Levine, David A. Rasko
Software Mentions: 2
Published: over 5 years ago

10.5713/ajas.19.0221

Effects of the dietary digestible fiber-to-starch ratio on pellet quality, growth and cecal microbiota of Angora rabbits
Cited by: 3
Author(s): Yang Gao, Fei Zhao, Ting He, Jiantao Li, Dan Guo
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pntd.0007383

Hindgut microbiota in laboratory-reared and wild Triatoma infestans
Cited by: 34
Author(s): Andreea Waltmann, Alexandra C Willcox, Sujata Balasubramanian, Katty Borrini Mayorí, Sandra Mendoza Guerrero, R Sánchez, Jeffrey Roach, Carlos Condori Pino, Robert H. Gilman, Caryn Bern, Jonathan J. Juliano, Michael Z. Levy, Steven R. Meshnick, Natalie M. Bowman
Software Mentions: 2
Published: over 5 years ago

10.1002/mbo3.453

The choice of the DNA extraction method may influence the outcome of the soil microbial community structure analysis
Cited by: 42
Author(s): Sylwia Zielińska, Piotr Radkowski, Aleksandra Blendowska, Agnieszka H. Ludwig-Gałęzowska, Jerzy Łoś, Marcin Łoś
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pgen.1004782

ARTIST: High-Resolution Genome-Wide Assessment of Fitness Using Transposon-Insertion Sequencing
Cited by: 132
Author(s): Justin R. Pritchard, Michael C. Chao, Sören Abel, Brigid M. Davis, Catherine Baranowski, Yanjia J. Zhang, Eric J. Rubín, Matthew K. Waldor
Software Mentions: 2
Published: about 10 years ago

10.1186/s13075-014-0486-0

Altered microbiota associated with abnormal humoral immune responses to commensal organisms in enthesitis-related arthritis
Cited by: 165
Author(s): Matthew L. Stoll, Ranjit Kumar, Casey D. Morrow, Elliot J. Lefkowitz, Xiangqin Cui, Anna Genin, Randy Q. Cron, Charles O. Elson
Software Mentions: 2
Published: almost 10 years ago

10.1186/s12866-016-0877-2

High-throughput sequencing technology to reveal the composition and function of cecal microbiota in Dagu chicken
Cited by: 62
Author(s): Yan Xu, Huixin Yang, Lili Zhang, Yuhong Su, Donghui Shi, Haidi Xiao, Yuan Tian
Software Mentions: 2
Published: about 8 years ago

10.3390/plants9111501

Response of Horticultural Soil Microbiota to Different Fertilization Practices
Cited by: 12
Author(s): Iratxe Zarraonaindia, Xabier Simón Martínez‐Goñi, Olaia Liñero, Marta Muñoz-Colmenero, Mikel Aguirre, David Abad, Igor Baroja-Careaga, Alberto de Diego, Jack A. Gilbert, Andone Estonba
Software Mentions: 2
Published: about 4 years ago

10.1098/rstb.2015.0328

Dissecting host-associated communities with DNA barcodes
Cited by: 23
Author(s): Christopher C. M. Baker, Leonora S. Bittleston, Jon G. Sanders, Naomi E. Pierce
Software Mentions: 2
Published: about 8 years ago

10.7717/peerj.7293

A highly diverse fungal community associated with leaves of the mangrove plant Acanthus ilicifolius var. xiamenensis revealed by isolation and metabarcoding analyses
Cited by: 27
Author(s): Wei-Chiung Chi, Weiling Chen, Chih-Chiao He, Sheng−Yu Guo, Hyojung Cha, Ling Ming Tsang, Tsz Wai Ho, Ka−Lai Pang
Software Mentions: 2
Published: over 5 years ago

10.7717/peerj.11103

The autistic-like behaviors development during weaning and sexual maturation in VPA-induced autistic-like rats is accompanied by gut microbiota dysbiosis
Cited by: 10
Author(s): Qingmin Kong, Peijun Tian, Jianxin Zhao, Hao Zhang, Gang Wang
Software Mentions: 2
Published: over 3 years ago

10.1264/jsme2.ME15019

Shifts in the Midgut/Pyloric Microbiota Composition within a Honey Bee Apiary throughout a Season
Cited by: 62
Author(s): Jane Ludvigsen, Anbjørg Rangberg, Ekaterina Avershina, Monika Sekelja, Claus D. Kreibich, Gro V. Amdam, Knut Rudi
Software Mentions: 2
Published: almost 10 years ago

10.1264/jsme2.ME16074

Bacterial Community Structures in Freshwater Polar Environments of Svalbard
Cited by: 32
Author(s): Spyridon Ntougias, Żaneta Polkowska, Sofia Nikolaki, Eva Dionyssopoulou, Panagiota Stathopoulou, Vangelis Doudoumis, Marek Ruman, Katarzyna Kozak, Jacek Namieśnik, George Tsiamis
Software Mentions: 2
Published: almost 9 years ago

10.1186/1471-2180-13-259

Utilizing novel diversity estimators to quantify multiple dimensions of microbial biodiversity across domains
Cited by: 10
Author(s): Hannah M. Doll, David Armitage, Rebecca A. Daly, Joanne B. Emerson, Daniela S. Aliaga Goltsman, Alexis P Yelton, Jennifer Kerekes, Mary K. Firestone, Matthew D. Potts
Software Mentions: 2
Published: almost 12 years ago

10.3389/fmicb.2018.02430

Effects of a Commercial Microbial Agent on the Bacterial Communities in Shrimp Culture System
Cited by: 20
Author(s): Zidan Liu, Linglin Qiuqian, Zhiyuan Yao, Xin Wang, Lei Huang, Jialai Zheng, Kai Wang, Laiguo Li, Demin Zhang
Software Mentions: 2
Published: about 6 years ago

10.3389/fmicb.2019.01258

Presence, Diversity, and Enrichment of Respiratory Reductive Dehalogenase and Non-respiratory Hydrolytic and Oxidative Dehalogenase Genes in Terrestrial Environments
Cited by: 17
Author(s): Hanna R. Temme, Aaron Carlson, Paige J. Novak
Software Mentions: 2
Published: over 5 years ago

10.1264/jsme2.ME16061

Diet-Dependent Modular Dynamic Interactions of the Equine Cecal Microbiota
Cited by: 14
Author(s): Camilla Kristoffersen, Rasmus Bovbjerg Jensen, Ekaterina Avershina, D. Austbø, Anne‐Helene Tauson, Knut Rudi
Software Mentions: 2
Published: almost 9 years ago

10.7717/peerj.237

Succession of the turkey gastrointestinal bacterial microbiome related to weight gain
Cited by: 74
Author(s): Jessica L. Danzeisen, A. Calvert, Sally Noll, Brian McComb, Julie S. Sherwood, Catherine M. Logue, Timothy J. Johnson
Software Mentions: 2
Published: almost 11 years ago

10.7717/peerj.8051

High-throughput sequence analysis reveals variation in the relative abundance of components of the bacterial and fungal microbiota in the rhizosphere ofGinkgo biloba
Cited by: 2
Author(s): Rujue Ruan, Zhifang Jiang, Yuhuan Wu, Meifeng Xu, Jun Ni
Software Mentions: 2
Published: about 5 years ago

10.1264/jsme2.ME13104

Time-Resolved DNA Stable Isotope Probing Links Desulfobacterales- and Coriobacteriaceae-Related Bacteria to Anaerobic Degradation of Benzene under Methanogenic Conditions
Cited by: 39
Author(s): Midori Noguchi, Futoshi Kurisu, Ikuro Kasuga, Hiroaki Furumai
Software Mentions: 2
Published: almost 11 years ago

10.1186/s12866-018-1212-x

Consistent and reproducible long-term in vitro growth of health and disease-associated oral subgingival biofilms
Cited by: 16
Author(s): Irina M. Velsko, Luciana M. Shaddox
Software Mentions: 2
Published: over 6 years ago

10.7717/peerj.6392

Diverse microbial communities hosted by the model carnivorous pitcher plant Sarracenia purpurea: analysis of both bacterial and eukaryotic composition across distinct host plant populations
Cited by: 8
Author(s): Jacob J. Grothjan, Erica B. Young
Software Mentions: 2
Published: almost 6 years ago

10.1007/s00248-016-0846-1

Cultivated Sub-Populations of Soil Microbiomes Retain Early Flowering Plant Trait
Cited by: 49
Author(s): Kevin Panke-Buisse, Stacey Lee, Jenny Kao‐Kniffin
Software Mentions: 2
Published: about 8 years ago

10.1186/s12866-020-01895-4

Characterization of the bacterial communities of psyllids associated with Rutaceae in Bhutan by high throughput sequencing
Cited by: 19
Author(s): Jennifer L. Morrow, Namgay Om, G. A. C. Beattie, Grant Chambers, N. J. Donovan, L. W. Liefting, Markus Riegler, Paul Holford
Software Mentions: 2
Published: over 4 years ago

10.1111/1751-7915.12733

Simultaneous fermentation of cellulose and current production with an enriched mixed culture of thermophilic bacteria in a microbial electrolysis cell
Cited by: 21
Author(s): Bradley G. Lusk, Alexandra Colin, Prathap Parameswaran, Bruce E. Rittmann, César I. Torres
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0106764

Helicobacter hepaticus Infection Promotes Hepatitis and Preneoplastic Foci in Farnesoid X Receptor (FXR) Deficient Mice
Cited by: 12
Author(s): Alton G. Swennes, Alexander Sheh, N. Parry, Sureshkumar Muthupalani, Kvin Lertpiriyapong, Alexis García, James G. Fox
Software Mentions: 2
Published: about 10 years ago

10.1155/2016/5916067

Methanogen Diversity in Indigenous and Introduced Ruminant Species on the Tibetan Plateau
Cited by: 28
Author(s): Xiaowu Huang, Gonzalo Martínez Fernández, Jagadish Padmanabha, Ruijun Long, Stuart E. Denman, Christopher S. McSweeney
Software Mentions: 2
Published: almost 9 years ago

10.7717/peerj.340

The evolutionary history and diagnostic utility of the CRISPR-Cas system withinSalmonella entericassp.enterica
Cited by: 30
Author(s): James B. Pettengill, Ruth Timme, Rodolphe Barrangou, Mauricio Toro, Marc W. Allard, Errol Strain, Steven M. Musser, Eric W. Brown
Software Mentions: 2
Published: over 10 years ago

10.3389/fmicb.2016.01707

A Combination of Extreme Environmental Conditions Favor the Prevalence of Endospore-Forming Firmicutes
Cited by: 92
Author(s): Sevasti Filippidou, Tina Wunderlin, Thomas Junier, Nicole Jeanneret, Cristina Dorador, Verónica Molina, David R. Johnson, Pilar Junier
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0068200

Transcriptome Characterisation of the Ant Formica exsecta with New Insights into the Evolution of Desaturase Genes in Social Hymenoptera
Cited by: 15
Author(s): Hélène Badouin, Khalid Belkhir, Emma Gregson, Juan Galindo, Liselotte Sundström, Stephen J. Martin, Roger K. Butlin, Carole Smadja
Software Mentions: 2
Published: over 11 years ago

10.1111/1751-7915.12164

Characterization of the rumen lipidome and microbiome of steers fed a diet supplemented with flax and echium oil
Cited by: 46
Author(s): Sharon Huws, Eun Joong Kim, Simon Cameron, Susan Elizabeth Girdwood, Lynfa Davies, John K. S. Tweed, Hannah Vallin, Nigel D. Scollan
Software Mentions: 2
Published: about 10 years ago

10.3389/fmicb.2018.00914

Variation in Bat Guano Bacterial Community Composition With Depth
Cited by: 17
Author(s): Molli M. Newman, Laura N. Kloepper, Makenzie B. Duncan, John A. McInroy, Joseph W. Kloepper
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2018.02882

Low-Abundance Members of the Firmicutes Facilitate Bioremediation of Soil Impacted by Highly Acidic Mine Drainage From the Malanjkhand Copper Project, India
Cited by: 67
Author(s): Abhishek Gupta, Avishek Dutta, Jayeeta Sarkar, M. K. Panigrahi, Pinaki Sar
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0036920

Coral-Bacterial Communities before and after a Coral Mass Spawning Event on Ningaloo Reef
Cited by: 57
Author(s): Janja Ceh, Jean-Baptiste Raina, Rochelle M. Soo, M. van Keulen, David G. Bourne
Software Mentions: 2
Published: over 12 years ago

10.3389/fmicb.2017.01200

Thermoplasmatales and Methanogens: Potential Association with the Crenarchaeol Production in Chinese Soils
Cited by: 1
Author(s): Fuyan Li, Fengfeng Zheng, Yongli Wang, Weiguo Liu, Chuanlun L. Zhang
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0208327

Bacterial microbiome of the chigger mite Leptotrombidium imphalum varies by life stage and infection with the scrub typhus pathogen Orientia tsutsugamushi
Cited by: 13
Author(s): Loganathan Ponnusamy, Alexandra C Willcox, R. Michael Roe, Silas A. Davidson, Piyada Linsuwanon, Anthony L. Schuster, Allen L. Richards, Steven R. Meshnick, Charles S. Apperson
Software Mentions: 2
Published: almost 6 years ago

Projects: cran: uclust

Papers Mentioning uclust 454