cran: RDP | Projects | Ecosyste.ms: Papers

10.1038/s41598-017-02206-0

Insight into the global evolution of Rodentia associated Morbilli-related paramyxoviruses
Cited by: 10
Author(s): Wissem Ghawar, Hervé Pascalis, Jihène Bettaieb, Julien Mélade, Alya Gharbi, Mohamed Ali Snoussi, Dhafer Laouini, Steven M. Goodman, Afif Ben Salah, Koussay Dellagi
Software Mentions: 3
Published: about 7 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: almost 6 years ago

10.1038/srep12872

Geochemical influences and mercury methylation of a dental wastewater microbiome
Cited by: 17
Author(s): Asha Rani, Karl J. Rockne, James L. Drummond, Muntasar Al-Hinai, Ravi Ranjan
Software Mentions: 3
Published: almost 9 years ago

10.1186/s12859-021-04316-z

Ribovore: ribosomal RNA sequence analysis for GenBank submissions and database curation
Cited by: 2
Author(s): Alejandro A. Schäffer, Richard McVeigh, Barbara Robbertse, Conrad L. Schoch, Anjanette Johnston, Beverly A. Underwood, Ilene Karsch‐Mizrachi, Eric P. Nawrocki
Software Mentions: 3
Published: almost 3 years ago

10.1371/journal.pone.0224676

Molecular epidemiological characteristics of dengue virus carried by 34 patients in Guangzhou in 2018
Cited by: 2
Author(s): Feng Liao, Huini Chen, Jieliang Xie, Shaofeng Zhan, Pan Pan, Zizhao Lao, Yaohua Fan, L. C.-C. Lin, Yunfeng Lai, Shuangfeng Lin, Jianguo Wu, Xiaohong Liu, Geng Li
Software Mentions: 3
Published: over 4 years ago

10.1038/srep26752

Weight gain in anorexia nervosa does not ameliorate the faecal microbiota, branched chain fatty acid profiles and gastrointestinal complaints
Cited by: 212
Author(s): Isabelle Mack, Ulrich Cuntz, Claudia Grämer, Sabrina Niedermaier, Charlotte Pohl, Andreas Schwiertz, Kurt Zimmermann, Stephan Zipfel, Paul Enck, John Penders
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.ppat.1000125

Diversification of Rice Yellow Mottle Virus and Related Viruses Spans the History of Agriculture from the Neolithic to the Present
Cited by: 55
Author(s): Denis Fargette, Agnès Pinel‐Galzi, Drissa Sérémé, Séverine Lacombe, Eugénie Hébrard, Oumar Traoré, G. Konaté
Software Mentions: 3
Published: almost 16 years ago

10.1186/1471-2180-12-S1-S13

Diversity and recombination in Wolbachia and Cardinium from Bryobia spider mites
Cited by: 49
Author(s): V.I.D. Ros, Vicki M. Fleming, Edward J. Feil, Johannes A. J. Breeuwer
Software Mentions: 3
Published: over 12 years ago

10.1128/mBio.00373-17

Further Evidence for Bats as the Evolutionary Source of Middle East Respiratory Syndrome Coronavirus
Cited by: 243
Author(s): Simon J. Anthony, Kirsten Gilardi, Vineet D. Menachery, Tracey Goldstein, Benard Ssebide, R. Mbabazi, Isamara Navarrete-Macias, Eliza Liang, Heather L. Wells, Alan C. Hicks, Alexandra Petrosov, Denis K. Byarugaba, Kari Debbink, Kenneth H. Dinnon, Trevor Scobey, Scott H. Randell, Boyd Yount, Michael R. Cranfield, Christine K. Johnson, Ralph S. Baric, W. Ian Lipkin, Jonna A. K. Mazet
Software Mentions: 3
Published: about 7 years ago

10.1016/j.jcpa.2018.09.004

A Fatal Case of Louping-ill in a Dog: Immunolocalization and Full Genome Sequencing of the Virus
Cited by: 7
Author(s): Mark P. Dagleish, Jordan J. Clark, Caroline D. Robson, M. R. Tucker, Richard Orton, Mara Rocchi
Software Mentions: 3
Published: over 5 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: about 10 years ago

10.1111/jam.13590

16S rRNA gene sequencing on a benchtop sequencer: accuracy for identification of clinically important bacteria
Cited by: 41
Author(s): George S. Watts, Ken Youens‐Clark, Marvin J. Slepian, Donna M. Wolk, Marc M. Oshiro, Gregory S. Metzger, Dalia Dhingra, Lee D. Cranmer, Bonnie Hurwitz
Software Mentions: 3
Published: over 6 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: almost 7 years ago

10.3164/jcbn.17-78

The influence of long-term use of proton pump inhibitors on the gut microbiota: an age-sex-matched case-control study
Cited by: 90
Author(s): Tomohisa Takagi, Yuji Naito, Ryo Inoüe, Saori Kashiwagi, Kazuhiko Uchiyama, Katsura Mizushima, Saeko Tsuchiya, Tetsuya Okayama, Osamu Dohi, Naohisa Yoshida, Kazuhiro Kamada, Takeshi Ishikawa, Osamu Handa, Hideyuki Konishi, Kayo Okuda, Yoshimasa Tsujimoto, Hiromu Ohnogi, Yoshito Itoh
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-017-07018-w

Soil nutritional status and biogeography influence rhizosphere microbial communities associated with the invasive tree Acacia dealbata
Cited by: 49
Author(s): Casper N. Kamutando, Surendra Vikram, Gilbert Kamgan-Nkuekam, Thulani P. Makhalanyane, Michelle Greve, Johannes J. Le Roux, David M. Richardson, Don A. Cowan, Ángel Valverde
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0153353

Specific Microbial Communities Associate with the Rhizosphere of Welwitschia mirabilis, a Living Fossil
Cited by: 40
Author(s): Ángel Valverde, Pieter De Maayer, Tanzelle Oberholster, Joh R. Henschel, M. Kilbourn Louw, Don A. Cowan
Software Mentions: 3
Published: about 8 years ago

10.1111/1751-7915.13695

Identification of the gut microbiota biomarkers associated with heat cycle and failure to enter oestrus in gilts
Cited by: 9
Author(s): Zhong Wang, Hao Fu, Yunyan Zhou, Min Yan, Dong Chen, Ming Yang, Shijun Xiao, Congying Chen, Lusheng Huang
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-019-40564-z

Decline of transmissible gastroenteritis virus and its complex evolutionary relationship with porcine respiratory coronavirus in the United States
Cited by: 38
Author(s): Fangzhou Chen, Todd P. Knutson, Stephanie Rossow, Linda J. Saif, Douglas Marthaler
Software Mentions: 3
Published: about 5 years ago

10.3389/fvets.2020.00176

Animal Disease Surveillance in the 21st Century: Applications and Robustness of Phylodynamic Methods in Recent U.S. Human-Like H3 Swine Influenza Outbreaks
Cited by: 1
Author(s): Moh A. Alkhamis, Chong Li, Montserrat Torremorell
Software Mentions: 3
Published: about 4 years ago

10.3390/genes12091450

Variation and Selection in the Putative Sperm-Binding Region of ZP3 in Muroid Rodents: A Comparison between Cricetids and Murines
Cited by: 0
Author(s): M. Teresa Duarte, Carlos Fernandes, Gerald Heckel, Maria da Luz Mathias, Cristiane Bastos-Silveira
Software Mentions: 3
Published: over 2 years ago

10.1371/journal.pone.0228338

Effect of Lactobacillus acidophilus D2/CSL (CECT 4529) supplementation in drinking water on chicken crop and caeca microbiome
Cited by: 24
Author(s): Alessandra De Cesare, Claudia Sala, Gastone Castellani, Annalisa Astolfi, Valentina Indio, A. Giardini, Gerardo Manfreda
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0093945

Uncoupling of Bacterial and Terrigenous Dissolved Organic Matter Dynamics in Decomposition Experiments
Cited by: 52
Author(s): Daniel P. R. Herlemann, Marcus Manecki, Christian Meeske, Falk Pollehne, Matthias Labrenz, Detlef E. Schulz‐Bull, Thorsten Dittmar, Klaus Jürgens
Software Mentions: 3
Published: about 10 years ago

10.1371/journal.pone.0080589

Phylogenetic Relatedness of Circulating HIV-1C Variants in Mochudi, Botswana
Cited by: 31
Author(s): Vladimir Novitsky, Hermann Bussmann, Andrew Logan, Sikhulile Moyo, Erik van Widenfelt, Lillian Okui, Mompati Mmalane, Jeannie Baca, Linda B. Buck, Eleanor Phillips, David Todem, Mary Fran McLane, Quanhong Lei, Rui Wang, Joseph Makhema, Shahin Lockman, Victor DeGruttola, Max Essex
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pntd.0005048

Full Genome Sequence and sfRNA Interferon Antagonist Activity of Zika Virus from Recife, Brazil
Cited by: 181
Author(s): Claire L. Donald, Benjamin Brennan, Stephanie L. Cumberworth, Veronica V. Rezelj, Jordan J. Clark, Marli Tenório Cordeiro, Rafael Freitas de Oliveira França, Lindomar Pena, Gavin S. Wilkie, Ana da Silva Filipe, Chris Davis, Joseph Hughes, Margus Varjak, Martin Selinger, Luíza Zuvanov, Ania M. Owsianka, Arvind H. Patel, John McLauchlan, Brett D. Lindenbach, Gamou Fall, Amadou Alpha Sall, Roman Biek, Jan Rehwinkel, Esther Schnettler, Alain Kohl
Software Mentions: 3
Published: over 7 years ago

10.1186/1471-2164-15-779

Mammalian keratin associated proteins (KRTAPs) subgenomes: disentangling hair diversity and adaptation to terrestrial and aquatic environments
Cited by: 59
Author(s): Imran Khan, Emanuel Maldonado, Vı́tor Vasconcelos, Stephen J. O’Brien, Warren E. Johnson, Agostinho Antunes
Software Mentions: 3
Published: over 9 years ago

10.1186/s13099-020-00351-y

Gut microbiome of native Arab Kuwaitis
Cited by: 6
Author(s): Erica L Plummer, Dieter Bulach, Glen P. Carter, M. John Albert
Software Mentions: 3
Published: about 4 years ago

10.3389/fmicb.2018.01499

Genome Variation in the Model Halophilic Bacterium Salinibacter ruber
Cited by: 11
Author(s): Pedro González-Torres, Toni Gabaldón
Software Mentions: 3
Published: almost 6 years ago

10.1371/journal.pntd.0001910

Phylogeographic Reconstruction of African Yellow Fever Virus Isolates Indicates Recent Simultaneous Dispersal into East and West Africa
Cited by: 24
Author(s): Andrew S. Beck, Hilda Guzmán, Li Li, Brett R. Ellis, Robert B. Tesh, Alan D.T. Barrett
Software Mentions: 3
Published: about 11 years ago

10.1371/journal.pntd.0003336

The Plasmodium vivax Merozoite Surface Protein 3β Sequence Reveals Contrasting Parasite Populations in Southern and Northwestern Thailand
Cited by: 16
Author(s): Chaturong Putaporntip, Jun Miao, Napaporn Kuamsab, Jetsumon Sattabongkot, Jeeraphat Sirichaisinthop, Somchai Jongwutiwes, Liwang Cui
Software Mentions: 3
Published: over 9 years ago

10.1186/1743-422X-6-208

Genetic diversity and phylogeography of Seewis virus in the Eurasian common shrew in Finland and Hungary
Cited by: 46
Author(s): Hae Ji Kang, Satoru Arai, Andrew G. Hope, Jin Won Song, Joseph A. Cook, Richard Yanagihara
Software Mentions: 3
Published: over 14 years ago

10.1186/s12866-021-02237-8

Ecological strategies of biological and chemical control agents on wildfire disease of tobacco (Nicotiana tabacum L.)
Cited by: 5
Author(s): Tianbo Liu, Yanling Gu, Zhi Zhou, Zhenghua Liu, Huaqun Yin, Chong Qin, Tuyong Yi, Jiemeng Tao
Software Mentions: 3
Published: almost 3 years ago

10.1371/journal.pntd.0002411

Phylogeography of Japanese Encephalitis Virus: Genotype Is Associated with Climate
Cited by: 95
Author(s): Amy J. Schuh, Melissa J. Ward, Andrew J. Leigh Brown, Alan D.T. Barrett
Software Mentions: 3
Published: over 10 years ago

10.3389/fmicb.2018.01272

Comparison of Database Search Methods for the Detection of Legionella pneumophila in Water Samples Using Metagenomic Analysis
Cited by: 8
Author(s): Jednipit Borthong, Ryosuke Omori, Chihiro Sugimoto, Orasa Suthienkul, Ryo Nakao, Kimihito Ito
Software Mentions: 3
Published: almost 6 years ago

10.7717/peerj.12000

Virulence effector SidJ evolution in Legionella pneumophila is driven by positive selection and intragenic recombination
Cited by: 1
Author(s): Xiao-Yong Zhan, Jin-Lei Yang, Xuefu Zhou, Yichao Qian, Ke Huang, Hongyan Sun, Huacheng Wang, Yang Leng, Bihui Huang, Yulong He
Software Mentions: 3
Published: almost 3 years ago

10.3389/fmicb.2017.00056

Geological and Geochemical Controls on Subsurface Microbial Life in the Samail Ophiolite, Oman
Cited by: 97
Author(s): K. R. Rempfert, Hannah M. Miller, Nicolas Bompard, Daniel Nothaft, Juerg M. Matter, P. B. Kelemen, Noah Fierer, Alexis S. Templeton
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pone.0105707

Changes in Cecal Microbiota and Mucosal Gene Expression Revealed New Aspects of Epizootic Rabbit Enteropathy
Cited by: 50
Author(s): Christine Bäuerl, María Carmen Collado, Manuel Zúñiga, E. Blas, Gaspar Pérez‐Martínez
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pbio.3001115

Natural selection in the evolution of SARS-CoV-2 in bats created a generalist virus and highly capable human pathogen
Cited by: 165
Author(s): Oscar A MacLean, Spyros Lytras, Steven Weaver, Joshua B. Singer, Maciej F. Boni, Philippe Lemey, Sergei L. Kosakovsky Pond, David L. Robertson
Software Mentions: 3
Published: about 3 years ago

10.3389/fmicb.2018.03336

iVikodak—A Platform and Standard Workflow for Inferring, Analyzing, Comparing, and Visualizing the Functional Potential of Microbial Communities
Cited by: 45
Author(s): Sunil Nagpal, Mohammed Monzoorul Haque, Rashmi Singh, Sharmila S. Mande
Software Mentions: 3
Published: over 5 years ago

10.1007/s00251-017-1051-1

Signatures of historical selection on MHC reveal different selection patterns in the moor frog (Rana arvalis)
Cited by: 15
Author(s): Maria Cortázar‐Chinarro, Yvonne Meyer‐Lucht, Anssi Laurila, Jacob Höglund
Software Mentions: 3
Published: over 6 years ago

10.3389/fmicb.2021.601253

Starvation Alters Gut Microbiome in Black Soldier Fly (Diptera: Stratiomyidae) Larvae
Cited by: 18
Author(s): Feng-Chun Yang, Jeffery K. Tomberlin, Heather R. Jordan
Software Mentions: 3
Published: over 3 years ago

10.3390/v13071412

Phylogenetic Analysis of Massilia phlebovirus in Portugal
Cited by: 8
Author(s): Fátima Amaro, Líbia Zé-Zé, José Lourenço, Marta Giovanetti, Stefanie Becker, Maria João Alves
Software Mentions: 3
Published: almost 3 years ago

10.3389/fmicb.2021.639995

Interplay of Various Evolutionary Modes in Genome Diversification and Adaptive Evolution of the Family Sulfolobaceae
Cited by: 2
Author(s): Rachana Banerjee, Narendrakumar M. Chaudhari, Abhishake Lahiri, Anupam Gautam, Debaleena Bhowmik, Chitra Dutta, Sujay Chattopadhyay, Daniel H. Huson, Sandip Paul
Software Mentions: 3
Published: almost 3 years ago

10.3389/fmicb.2016.00161

Effects of Temperature Stress and Aquarium Conditions on the Red Macroalga Delisea pulchra and its Associated Microbial Community
Cited by: 16
Author(s): Enrique Zozaya‐Valdés, Alexandra J. Roth‐Schulze, Torsten Thomas
Software Mentions: 3
Published: about 8 years ago

10.3390/vaccines9091019

The Importance of Quality Control of LSDV Live Attenuated Vaccines for Its Safe Application in the Field
Cited by: 16
Author(s): Andy Haegeman, Ilse De Leeuw, Meruyert A. Saduakassova, Willem Van Campe, Laetitia Aerts, Wannes Philips, Akhmetzhan A. Sultanov, Laurent Mostin, Kris De Clercq
Software Mentions: 3
Published: over 2 years ago

10.3389/fmicb.2018.02045

Design of Primers for Evaluation of Lactic Acid Bacteria Populations in Complex Biological Samples
Cited by: 37
Author(s): Qiangchuan Hou, Xiaoye Bai, Weicheng Li, Xu Gao, Faming Zhang, Zhihong Sun, Heping Zhang
Software Mentions: 3
Published: over 5 years ago

10.3390/v12101080

Atypical Porcine Pestivirus Circulation and Molecular Evolution within an Affected Swine Herd
Cited by: 10
Author(s): Alba Folgueiras-González, Robin van den Braak, Bartjan Simmelink, Martin Deijs, Lia van der Hoek, Ad de Groof
Software Mentions: 3
Published: over 3 years ago

10.3389/fmicb.2019.02408

Reconstruction of the Functional Ecosystem in the High Light, Low Temperature Union Glacier Region, Antarctica
Cited by: 14
Author(s): Yang Li, Qian‐Qian Cha, Yan-Ru Dang, Xiu-Lan Chen, Min Wang, Andrew McMinn, Giannina Espina, Yuzhong Zhang, Jenny M. Blamey, Qi‐Long Qin
Software Mentions: 3
Published: over 4 years ago

10.3389/fmicb.2021.690091

Gut and Vagina Microbiota Associated With Estrus Return of Weaning Sows and Its Correlation With the Changes in Serum Metabolites
Cited by: 5
Author(s): Jia Zhong, Min Liu, Shanlin Ke, Xiaowan Huang, Shouguo Fang, Maozhang He, Hao Fu, Congying Chen, Lusheng Huang
Software Mentions: 3
Published: almost 3 years ago

10.3389/fmicb.2019.02258

Composition and Drivers of Gut Microbial Communities in Arctic-Breeding Shorebirds
Cited by: 44
Author(s): Kirsten Grond, Jorge W. Santo Domingo, Richard B. Lanctot, Ari Jumpponen, Rebecca L. Bentzen, Megan L. Boldenow, Stephen C. Brown, Bruce Casler, Jenny A. Cunningham, Andrew C. Doll, Scott Freeman, Brooke L. Hill, Steven J. Kendall, Eunbi Kwon, Joseph R. Liebezeit, Lisa Pirie‐Dominix, Jennie Rausch, Brett K. Sandercock
Software Mentions: 3
Published: over 4 years ago

10.1186/1759-8753-4-3

Revisiting the evolution of mouse LINE-1 in the genomic era
Cited by: 137
Author(s): Akash Sookdeo, Crystal M. Hepp, Marcella A. McClure, Stéphane Boissinot
Software Mentions: 3
Published: over 11 years ago

10.3389/fmicb.2015.00746

Denitrifying and diazotrophic community responses to artificial warming in permafrost and tallgrass prairie soils
Cited by: 19
Author(s): C. Ryan Penton, Derek St. Louis, Amanda Pham, James R. Cole, Liyou Wu, Yiqi Luo, E. A. G. Schuur, Jizhong Zhou, James M. Tiedje
Software Mentions: 3
Published: almost 9 years ago

10.1093/ve/veab060

Integrating animal movements with phylogeography to model the spread of PRRSV in the USA
Cited by: 13
Author(s): Dennis N. Makau, Moh A. Alkhamis, Igor Adolfo Dexheimer Paploski, Cesar Corzo, Samantha Lycett, Kimberly VanderWaal
Software Mentions: 3
Published: almost 3 years ago

10.3390/microorganisms9081734

Genome-Resolved Metagenomic Analyses Reveal the Presence of a Putative Bacterial Endosymbiont in an Avian Nasal Mite (Rhinonyssidae; Mesostigmata)
Cited by: 1
Author(s): Carolina Osuna‐Mascaró, Jorge Doña, Kevin P. Johnson, Manuel de Rojas
Software Mentions: 3
Published: almost 3 years ago

10.3389/fmicb.2019.01708

Molecular Evolutionary Analysis of Potato Virus Y Infecting Potato Based on the VPg Gene
Cited by: 14
Author(s): Yanzhi Mao, Xuhong Sun, Jianguo Shen, Fangluan Gao, Guangwei Qiu, Teng Wang, Xianzhou Nie, Wei Zhang, Yanling Gao, Yuling Bai
Software Mentions: 3
Published: almost 5 years ago

10.1093/ve/vez020

Evolutionary dynamics and molecular epidemiology of West Nile virus in New York State: 1999–2015
Cited by: 13
Author(s): Sean M. Bialosuknia, Yi Tan, Steven D. Zink, Cheri A. Koetzner, Joseph G. Maffei, Rebecca Halpin, Emmi A Mueller, M. A. Novotny, Meghan H. Shilts, Nadia Fedorova, Paolo Amedeo, Suman Das, Brett E. Pickett, Laura D. Kramer, Alexander T. Ciota
Software Mentions: 3
Published: almost 5 years ago

10.1093/ve/veab020

The evolutionary dynamics of endemic human coronaviruses
Cited by: 37
Author(s): Wendy K Jo, Christian Drosten, Jan Felix Drexler
Software Mentions: 3
Published: over 3 years ago

10.3390/v7031454

Interaction Research on the Antiviral Molecule Dufulin Targeting on Southern Rice Black Streaked Dwarf Virus P9-1 Nonstructural Protein
Cited by: 23
Author(s): Zhenchao Wang, Xiangyang Li, Wenli Wang, Weiying Zhang, Yu Lu, Deyu Hu, Baoan Song
Software Mentions: 3
Published: about 9 years ago

10.3389/fmicb.2014.00034

Classification of pmoA amplicon pyrosequences using BLAST and the lowest common ancestor method in MEGAN
Cited by: 88
Author(s): Marc G. Dumont, Claudia Lüke, Yangfan Deng, Peter Frenzel
Software Mentions: 3
Published: over 10 years ago

10.3389/fgene.2018.00359

Evidence for Introgression Among Three Species of the Anastrepha fraterculus Group, a Radiating Species Complex of Fruit Flies
Cited by: 14
Author(s): Fernando Dı́az, André Luís A. Lima, Aline Minali Nakamura, Felippe Fernandes, Iderval Sobrinho, Reinaldo Alves de Brito
Software Mentions: 3
Published: over 5 years ago

10.1186/1471-2164-15-257

mtDNA haplogroup and single nucleotide polymorphisms structure human microbiome communities
Cited by: 69
Author(s): Jun Ma, Cristian Coarfa, Xiang Qin, Penelope E. Bonnen, Aleksandar Milosavljevic, James Versalovic, Kjersti M. Aagaard
Software Mentions: 3
Published: about 10 years ago

10.3389/fmicb.2020.576738

In silico Screening Unveil the Great Potential of Ruminal Bacteria Synthesizing Lasso Peptides
Cited by: 8
Author(s): Yasmin Neves Vieira Sabino, Katialaine Corrêa de Araújo, Fábia Giovana do Val de Assis, Sofia Magalhães Moreira, Thaynara da Silva Lopes, Tiago Antônio de Oliveira Mendes, Sharon Huws, Hilário Cuquetto Mantovani
Software Mentions: 3
Published: over 3 years ago

10.1186/s12864-016-3037-z

Recombination-driven generation of the largest pathogen repository of antigen variants in the protozoan Trypanosoma cruzi
Cited by: 30
Author(s): D. Brent Weatherly, Duo Peng, Rick L. Tarleton
Software Mentions: 3
Published: over 7 years ago

10.3390/microorganisms9050998

Genomes of Anguillid Herpesvirus 1 Strains Reveal Evolutionary Disparities and Low Genetic Diversity in the Genus Cyprinivirus
Cited by: 9
Author(s): Owen Donohoe, Haiyan Zhang, Natacha Delrez, Yuan Gao, Nicolás M. Suárez, Andrew J. Davison, Alain Vanderplasschen
Software Mentions: 3
Published: about 3 years ago

10.3390/v8060153

Phylogenetic and Molecular Variability Studies Reveal a New Genetic Clade of Citrus leprosis virus C
Cited by: 36
Author(s): Pedro Luis Ramos-González, Camila Chabi-Jesus, Orlene Guerra‐Peraza, Michèle Claire Breton, Gabriella Dias Arena, Maria Andréia Nunes, Elliot Watanabe Kitajima, Marcos Antônio Machado, Juliana Freitas-Astúa
Software Mentions: 3
Published: almost 8 years ago

10.1093/ve/veaa056

The evolutionary history and global spatio-temporal dynamics of potato virus Y
Cited by: 14
Author(s): Fangluan Gao, Shusuke Kawakubo, Simon Y. W. Ho, Kazusato Ohshima
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0167383

Clinical Determinants of HIV-1B Between-Host Evolution and their Association with Drug Resistance in Pediatric Patients
Cited by: 3
Author(s): Israel Pagán, Patricia Rojas, José Tomás Ramos, África Holguín
Software Mentions: 3
Published: over 7 years ago

10.1111/jam.12516

Bacterial community dynamics during the early stages of biofilm formation in a chlorinated experimental drinking water distribution system: implications for drinking water discolouration
Cited by: 78
Author(s): Isabel Douterelo, Rebecca Sharpe, Joby Boxall
Software Mentions: 3
Published: about 10 years ago

10.1038/s41598-019-45490-8

Seasonal development of a coastal microbial mat
Cited by: 22
Author(s): Daniela Clara Cardoso, Mariana Silvia Cretoiu, Lucas J. Stal, Henk Bolhuis
Software Mentions: 3
Published: almost 5 years ago

10.1111/1462-2920.13887

Torix group Rickettsia are widespread in Culicoides biting midges (Diptera: Ceratopogonidae), reach high frequency and carry unique genomic features
Cited by: 38
Author(s): Jack Pilgrim, Mats Ander, Claire Garros, Matthew Baylis, Gregory D. D. Hurst, Stefanos Siozios
Software Mentions: 2
Published: over 6 years ago

10.1186/2049-2618-1-13

Early microbial and metabolomic signatures predict later onset of necrotizing enterocolitis in preterm infants
Cited by: 277
Author(s): Ardythe L. Morrow, Anne J. Lagomarcino, Kurt Schibler, Diana H. Taft, Zhuoteng Yu, Bo Wang, Mekibib Altaye, Michael Wagner, Dirk Gevers, Doyle V. Ward, Michael A. Kennedy, Curtis Huttenhower, David S. Newburg
Software Mentions: 2
Published: about 11 years ago

10.1186/s12859-020-03829-3

BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
Cited by: 12
Author(s): Christophe Djemiel, Samuel Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, Yassin El Djoudi, Patrick Wincker, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost-Bouré, Pierre‐Alain Maron, Lionel Ranjard, Sébastien Terrat
Software Mentions: 2
Published: over 3 years ago

10.1186/s40168-017-0271-9

Uncovering the trimethylamine-producing bacteria of the human gut microbiota
Cited by: 300
Author(s): Silke Rath, B. Heidrich, Dietmar H. Pieper, Marius Vital
Software Mentions: 2
Published: about 7 years ago

10.3390/e23020201

Unsupervised Anomaly Detection with Distillated Teacher-Student Network Ensemble
Cited by: 3
Author(s): Qinfeng Xiao, Jing Wang, Youfang Lin, Wenbo Gongsa, Ganghui Hu, Menggang Li, Fang Wang
Software Mentions: 2
Published: over 3 years ago

10.1017/S0950268815000965

Prevalent high-risk HPV infection and vaginal microbiota in Nigerian women
Cited by: 92
Author(s): Eileen Dareng, Bing Ma, Ayo Famooto, Sally Akarolo-Anthony, Richard Offiong, Olayinka Olaniyan, Patrick Dakum, Cosette M. Wheeler, Doug Fadrosh, Hao Yang, Pawel Gajer, Rebecca M. Brotman, Jacques Ravel, Clement Adebamowo
Software Mentions: 2
Published: almost 9 years ago

10.1186/1471-2164-15-536

Characterization and potential evolutionary impact of transposable elements in the genome of Cochliobolus heterostrophus
Cited by: 27
Author(s): Mateus Ferreira Santana, José Cleydson Ferreira da Silva, Eduardo S. G. Mizubuti, Elza Fernandes de Araújo, Bradford Condon, B. Gillian Turgeon, Marisa Vieira de Queiroz
Software Mentions: 2
Published: almost 10 years ago

10.1002/ece3.7594

Geography, Host Genetics, and Cross‐Domain Microbial Networks Structure the Skin Microbiota of Fragmented Brazilian Atlantic Forest Frog Populations
Cited by: 10
Author(s): Anat M. Belasen, Michael L. Riolo, Molly C. Bletz, Mariana L. Lyra, Luı́s Felipe Toledo, Timothy Y. James
Software Mentions: 2
Published: almost 3 years ago

10.1002/ece3.531

Environmental associations with gene transcription in Babine Lake rainbow trout: evidence for local adaptation
Cited by: 9
Author(s): Kyle Wellband, Daniel D. Heath
Software Mentions: 2
Published: about 11 years ago

10.1038/emi.2017.89

Diversity of Middle East respiratory syndrome coronaviruses in 109 dromedary camels based on full-genome sequencing, Abu Dhabi, United Arab Emirates
Cited by: 31
Author(s): Mohammed F. Yusof, Krista Queen, Yassir Mohammed Eltahir, Clinton R. Paden, Zulaikha Mohamed Abdel Hameed Al Hammadi, Ying Tao, Yán Li, Abdelmalik I. Khalafalla, Mǎng Shī, Jing Zhang, Muzammil Sayed Ahmed Elhaj Mohamed, M. H. Ahmed, Ihsaan Abdulwahab Azeez, Oum Keltoum Bensalah, Ziyada Swar Eldahab, Farida Ismail Al Hosani, Susan I. Gerber, Aron J. Hall, Suxiang Tong, Salama Suhail Al Muhairi
Software Mentions: 2
Published: over 7 years ago

10.1128/MRA.01115-19

Complete Genome Sequence of a New Strain of Sida Golden Mosaic Buckup Virus from Florida, USA
Cited by: 1
Author(s): Zafar Iqbal, Salma Arous, Jane E. Polston
Software Mentions: 2
Published: over 4 years ago

10.1099/mic.0.027284-0

Population structure of Streptococcus oralis
Cited by: 56
Author(s): Thuy Do, Keith A. Jolley, Martin C. J. Maiden, Steven C. Gilbert, Douglas Clark, William Wade, David Beighton
Software Mentions: 2
Published: almost 15 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: over 3 years ago

10.1186/s12864-017-3983-0

Characterization of the peripheral blood transcriptome and adaptive evolution of the MHC I and TLR gene families in the wolf (Canis lupus)
Cited by: 20
Author(s): Guangshuai Liu, Honghai Zhang, Guolei Sun, Chao Zhao, Shuai Shang, Xiao‐Dong Gao, Tian Xia, Xiufeng Yang
Software Mentions: 2
Published: almost 7 years ago

10.1038/emi.2016.140

Discovery and genetic analysis of novel coronaviruses in least horseshoe bats in southwestern China
Cited by: 27
Author(s): Lin‐Fa Wang, Shihong Fu, Yanghui Cao, Hailin Zhang, Yue Feng, Wei Yang, Kai Nie, Xuejun Ma, Guodong Liang
Software Mentions: 2
Published: over 7 years ago

10.1186/s12859-015-0858-8

Stochastic neutral modelling of the Gut Microbiota’s relative species abundance from next generation sequencing data
Cited by: 14
Author(s): Claudia Sala, Silvia Vitali, Enrico Giampieri, Ítalo Faria do Valle, Daniel Remondini, Paolo Garagnani, Matteo Bersanelli, Ettore Mosca, Luciano Milanesi, Gastone Castellani
Software Mentions: 2
Published: over 8 years ago

10.3390/cells8040377

Genetic Diversity and Differentiation at Structurally Varying MHC Haplotypes and Microsatellites in Bottlenecked Populations of Endangered Crested Ibis
Cited by: 16
Author(s): Hong Li, Tong Zhou, Qiu‐Hong Wan, Sheng‐Guo Fang
Software Mentions: 2
Published: about 5 years ago

10.1038/s42003-020-01548-2

Host relatedness and landscape connectivity shape pathogen spread in the puma, a large secretive carnivore
Cited by: 17
Author(s): Nicholas M. Fountain-Jones, Simona Kraberger, Roderick B. Gagne, Daryl R. Trumbo, Patricia E. Salerno, W. Chris Funk, Kevin R. Crooks, Roman Biek, Mathew W. Alldredge, Ken Logan, Guy Baele, Simon Dellicour, Holly B. Ernest, Sue VandeWoude, Scott Carver, Meggan E. Craft
Software Mentions: 2
Published: over 3 years ago

10.1186/s12864-015-2310-x

Comparative genomics of 43 strains of Xanthomonas citri pv. citri reveals the evolutionary events giving rise to pathotypes with different host ranges
Cited by: 54
Author(s): Jonathan Gordon, Pierre Lefeuvre, Aline Escalon, Valérie Barbe, Stéphane Cruveiller, Lionel Gagnevin, Olivier Pruvost
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0024785

Impacts of Poultry House Environment on Poultry Litter Bacterial Community Composition
Cited by: 82
Author(s): Michaël Dumas, Shawn W. Polson, Don Ritter, Jacques Ravel, Jack Gelb, Robin Morgan, K. Eric Wommack
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0220298

Prevalence, epidemiology and molecular studies of Tomato chlorosis virus (ToCV) in South Africa
Cited by: 8
Author(s): Vaneson Moodley, Augustine Gubba, Paramu Mafongoya
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0101384

Genetic Dynamic Analysis of the Influenza A H5N1 NS1 Gene in China
Cited by: 8
Author(s): Kaifa Wei, Yanhui Chen, Yi Lin, Yutian Pan
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pone.0207512

Remote access protocols for Desktop-as-a-Service solutions
Cited by: 11
Author(s): Eduardo Magaña, Iris Sesma, D. Morató, Mikel Izal
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0063139

Analyses of the Stability and Core Taxonomic Memberships of the Human Microbiome
Cited by: 169
Author(s): Kelvin Li, Monika Bihan, Barbara A. Methé
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0032942

Deep Sequencing Analyses of Low Density Microbial Communities: Working at the Boundary of Accurate Microbiota Detection
Cited by: 152
Author(s): Giske Biesbroek, Elisabeth A. M. Sanders, Guus Roeselers, Xinhui Wang, Martien P. M. Caspers, Krzysztof Trzciński, Debby Bogaert, Bart J. F. Keijser
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0227705

Regional adaptations and parallel mutations in Feline panleukopenia virus strains from China revealed by nearly-full length genome analysis
Cited by: 7
Author(s): Élcio Leal, Ruiying Liang, Qi Liu, Fabiola Villanova, Lisong Shi, Lin Liang, Jinxiang Li, Steven S. Witkin, Shangjin Cui
Software Mentions: 2
Published: over 4 years ago

10.1002/advs.201800275

Origin, Genetic Diversity, and Evolutionary Dynamics of Novel Porcine Circovirus 3
Cited by: 85
Author(s): Gairu Li, Wanting He, Henan Zhu, Yang Bi, Ruyi Wang, Gang Xing, Cheng Zhang, Jiyong Zhou, Kwok‐Yung Yuen, George F. Gao, Shuo Su
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0126931

Changes in Gut Microbiota in Rats Fed a High Fat Diet Correlate with Obesity-Associated Metabolic Parameters
Cited by: 321
Author(s): Virginie Lecomte, Nadeem O. Kaakoush, Chris Maloney, Mukesh Raipuria, Karina D. Huinao, Hazel M. Mitchell, Margaret J. Morris
Software Mentions: 2
Published: about 9 years ago

10.1264/jsme2.ME16144

Diversity of Ktedonobacteria with Actinomycetes-Like Morphology in Terrestrial Environments
Cited by: 59
Author(s): Shuhei Yabe, Yasuteru Sakai, Keietsu Abe, Akira Yokota
Software Mentions: 2
Published: over 7 years ago

10.1186/s12863-018-0710-z

funbarRF: DNA barcode-based fungal species prediction using multiclass Random Forest supervised learning model
Cited by: 14
Author(s): Prabina Kumar Meher, Tanmaya Kumar Sahu, Shachi Gahoi, Rukam S. Tomar, Atmakuri Ramakrishna Rao
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0106662

Salinity and Bacterial Diversity: To What Extent Does the Concentration of Salt Affect the Bacterial Community in a Saline Soil?
Cited by: 179
Author(s): Loredana Canfora, Giovanni Bacci, Flavia Pinzari, Giuseppe Lo Papa, Carmelo Dazzi, Antonio Benedetti
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0056710

454 Pyrosequencing Analysis on Faecal Samples from a Randomized DBPC Trial of Colicky Infants Treated with Lactobacillus reuteri DSM 17938
Cited by: 90
Author(s): Stefan Roos, Johan Dicksved, Valentina Tarasco, Emanuela Locatelli, Fulvio Ricceri, Ulf Grandin, Francesco Savino
Software Mentions: 2
Published: about 11 years ago

Projects: cran: RDP

Papers Mentioning RDP 1,243