cran: RDP | Projects | Ecosyste.ms: Papers

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: almost 6 years ago

10.3389/fmicb.2018.01989

Metabolic Syndrome During Perinatal Period in Sows and the Link With Gut Microbiota and Metabolites
Cited by: 63
Author(s): Chuanshang Cheng, Hong Wei, Huichao Yu, Chong Xu, Siwen Jiang
Software Mentions: 2
Published: about 6 years ago

10.3389/fmicb.2020.00961

Diversity and Evolutionary Dynamics of Antiphage Defense Systems in Ralstonia solanacearum Species Complex
Cited by: 11
Author(s): José A. García del Castillo, Henry Secaira-Morocho, Stephanie Maldonado, Katlheen N. Sarmiento
Software Mentions: 2
Published: over 4 years ago

10.3389/fmicb.2016.00824

Size Matters: Assessing Optimum Soil Sample Size for Fungal and Bacterial Community Structure Analyses Using High Throughput Sequencing of rRNA Gene Amplicons
Cited by: 53
Author(s): C. Ryan Penton, Vadakattu V. S. R. Gupta, Julian Yu, James M. Tiedje
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2021.665999

Selective DNA and Protein Isolation From Marine Macrophyte Surfaces
Cited by: 3
Author(s): Marino Korlević, Marsej Markovski, Zihao Zhao, Gerhard J. Herndl, Mirjana Najdek
Software Mentions: 2
Published: over 3 years ago

10.3389/fmicb.2014.00473

Biogeographic congruency among bacterial communities from terrestrial sulfidic springs
Cited by: 23
Author(s): Brendan Headd, Annette Summers Engel
Software Mentions: 2
Published: about 10 years ago

10.3389/fmicb.2017.01587

High-Resolution Microbiome Profiling for Detection and Tracking of Salmonella enterica
Cited by: 23
Author(s): Christopher J. Grim, Ninalynn Daquigan, Tina S. Lusk Pfefer, Andrea Ottesen, James R. White, Karen G. Jarvis
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2105-9-215

Binning sequences using very sparse labels within a metagenome
Cited by: 77
Author(s): Chon‐Kit Kenneth Chan, Arthur Hsu, Saman K. Halgamuge, Sen‐Lin Tang
Software Mentions: 2
Published: over 16 years ago

10.1007/s00227-013-2223-7

Molecular population genetics of male and female mitochondrial genomes in subarctic Mytilus trossulus
Cited by: 38
Author(s): Beata Śmietanka, Małgorzata Zbawicka, Tomasz Janusz Sanko, Roman Wenne, Artur Burzyński
Software Mentions: 2
Published: over 11 years ago

10.3389/fmicb.2017.00621

Delineation of Taxonomic Species within Complex of Species: Aeromonas media and Related Species as a Test Case
Cited by: 22
Author(s): Émilie Talagrand-Reboul, Frédéric Roger, Jean-Luc Kimper, Sophie M. Colston, Joerg Graf, Fadua Latif-Eugenín, María José Figueras, Fabienne Petit, Hélène Marchandin, Estelle Jumas‐Bilak, Brigitte Lamy
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2015.01540

Recombination Does Not Hinder Formation or Detection of Ecological Species of Synechococcus Inhabiting a Hot Spring Cyanobacterial Mat
Cited by: 14
Author(s): Melanie C. Melendrez, Eric D. Becraft, Jason M. Wood, Millie T. Olsen, Donald A. Bryant, John F. Heidelberg, Douglas B. Rusch, Frederick M. Cohan, David M. Ward
Software Mentions: 2
Published: almost 9 years ago

10.3389/fmicb.2015.01362

The Metabolically Active Bacterial Microbiome of Tonsils and Mandibular Lymph Nodes of Slaughter Pigs
Cited by: 12
Author(s): Evelyne Mann, Beate Pinior, Stefanie U. Wetzels, Barbara U. Metzler‐Zebeli, Martin Wagner, Stephan Schmitz‐Esser
Software Mentions: 2
Published: almost 9 years ago

10.3389/fmicb.2020.571104

Recirculation of Giardia lamblia Assemblage A After Metronidazole Treatment in an Area With Assemblages A, B, and E Sympatric Circulation
Cited by: 7
Author(s): Maria Fantinatti, Luiz Antonio Pimentel Lopes-Oliveira, Tiara Cascais-Figueredo, Phelipe Austriaco-Teixeira, Erika Verissimo, Alexandre Ribeiro Bello, Alda Maria Da‐Cruz
Software Mentions: 2
Published: about 4 years ago

10.3389/fmicb.2014.00529

Biogeography rather than association with cyanobacteria structures symbiotic microbial communities in the marine sponge Petrosia ficiformis
Cited by: 53
Author(s): Ilia Burgsdorf, Patrick M. Erwin, Susanna López‐Legentil, Carlo Cerrano, Markus Haber, Sammy Frenk, Laura Steindler
Software Mentions: 2
Published: about 10 years ago

10.3389/fmicb.2019.00201

Fungal Species Diversity in French Bread Sourdoughs Made of Organic Wheat Flour
Cited by: 35
Author(s): Charlotte Urien, Judith Legrand, Pierre Montalent, Serge Casarégola, Delphine Sicard
Software Mentions: 2
Published: almost 6 years ago

10.3389/fmicb.2016.02103

Early Recovery of Salmonella from Food Using a 6-Hour Non-selective Pre-enrichment and Reformulation of Tetrathionate Broth
Cited by: 19
Author(s): Ninalynn Daquigan, Christopher J. Grim, James R. White, Darcy E. Hanes, Karen G. Jarvis
Software Mentions: 2
Published: almost 8 years ago

10.1155/2017/6707868

Genetic Analysis of Two Chicken Infectious Anemia Virus Variants-RelatedGyrovirusin Stray Mice and Dogs: The First Report in China, 2015
Cited by: 17
Author(s): Lichun Fang, Li Yang, Yixin Wang, Jiayuan Fu, Shuai Cui, Xiaohan Li, Shuang Chang, Peng Zhao
Software Mentions: 2
Published: almost 8 years ago

10.3389/fmicb.2016.00419

Microbial Communities in a High Arctic Polar Desert Landscape
Cited by: 26
Author(s): Clare M. McCann, Matthew J. Wade, Neil Gray, J. A. Fraser Roberts, Claude Hubert, David W. Graham
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2016.00593

Intestinal Microbiota of Broiler Chickens As Affected by Litter Management Regimens
Cited by: 87
Author(s): Lingling Wang, M. S. Lilburn, Zhongtang Yu
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2020.512957

Biology and Interaction of the Natural Occurrence of Distinct Monopartite Begomoviruses Associated With Satellites in Capsicum annum From India
Cited by: 15
Author(s): Megha Mishra, Rakesh Kumar Verma, Avinash Marwal, Pradeep Sharma, Rajeeva Gaur
Software Mentions: 2
Published: about 4 years ago

10.3390/v13020198

Phylodynamics and Codon Usage Pattern Analysis of Broad Bean Wilt Virus 2
Cited by: 10
Author(s): Zhen He, Zhuozhuo Dong, Lang Qin, Haifeng Gan
Software Mentions: 2
Published: almost 4 years ago

10.3389/fmicb.2019.01262

Single Cell Genomics-Based Analysis of Gene Content and Expression of Prophages in a Diffuse-Flow Deep-Sea Hydrothermal System
Cited by: 14
Author(s): Jessica M. Labonté, Maria Pachiadaki, Elizabeth A. Fergusson, Jesse McNichol, Ashley Grosche, Lara K. Gulmann, Costantino Vetriani, Stefan M. Sievert, Ramunas Stepanauskas
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2015.00597

Anaerobic digestion of the microalga Spirulina at extreme alkaline conditions: biogas production, metagenome, and metatranscriptome
Cited by: 53
Author(s): Vímac Nolla-Ardèvol, Marc Strous, Halina E. Tegetmeyer
Software Mentions: 2
Published: over 9 years ago

10.1186/s13062-015-0092-3

Highly divergent ancient gene families in metagenomic samples are compatible with additional divisions of life
Cited by: 14
Author(s): Philippe Lopez, Sébastien Halary, Éric Bapteste
Software Mentions: 2
Published: about 9 years ago

10.3389/fmicb.2018.01365

Evaluating Established Methods for Rumen 16S rRNA Amplicon Sequencing With Mock Microbial Populations
Cited by: 34
Author(s): Emily McGovern, Sinéad M. Waters, Gordon Blackshields, Matthew S. McCabe
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2021.679246

Genetic Characteristics of Human Parainfluenza Virus Types 1–4 From Patients With Clinical Respiratory Tract Infection in China
Cited by: 8
Author(s): Nan Shao, Bo Liu, Yan Xiao, Xinming Wang, Lili Ren, Jie Dong, Lu Sun, Yafang Zhu, Ting Zhang, Fan Yang
Software Mentions: 2
Published: over 3 years ago

10.3390/v12050508

Genomic Analyses of Potential Novel Recombinant Human Adenovirus C in Brazil
Cited by: 6
Author(s): Roozbeh Tahmasebi, Antônio Charlys da Costa, Kaelan Tardy, Rory J Tinker, Flávio Augusto de Pádua Milagres, Rafael Brustulin, Maria da Aparecida Rodrigues Teles, Rogério Togisaki das Chagas, Cássia Vitória de Deus Alves Soares, Aripuanã Sakurada Aranha Watanabe, Cecília Salete Alencar, Fabiola Villanova, Xutao Deng, Eric Delwart, Adriana Luchs, Élcio Leal, Éster Cerdeira Sabino
Software Mentions: 2
Published: over 4 years ago

10.3389/fmicb.2020.00126

Differential Colonization and Succession of Microbial Communities in Rock and Soil Substrates on a Maritime Antarctic Glacier Forefield
Cited by: 57
Author(s): Isaac Garrido‐Benavent, Sergiо Pérez-Ortega, Jorge Durán, Carmen Ascaso, Stephen B. Pointing, Ricardo Rodríguez-Cielos, Francisco Navarro, Asunción de los Rı́os
Software Mentions: 2
Published: almost 5 years ago

10.3389/fmicb.2015.01206

Survival of free-living Acholeplasma in aerated pig manure slurry revealed by 13C-labeled bacterial biomass probing
Cited by: 16
Author(s): Dai Hanajima, Tomo Aoyagi, Tomoyuki Hori
Software Mentions: 2
Published: about 9 years ago

10.1093/gbe/evz165

Intraspecific Diversity of Fission Yeast Mitochondrial Genomes
Cited by: 21
Author(s): Yu‐Tian Tao, Fang Suo, Sergio Tusso, Yankai Wang, Song Huang, Jochen B. W. Wolf, Li-Lin Du
Software Mentions: 2
Published: over 5 years ago

10.3389/fcvm.2017.00017

Changes in Composition of the Gut Bacterial Microbiome after Fecal Microbiota Transplantation for Recurrent Clostridium difficile Infection in a Pediatric Heart Transplant Patient
Cited by: 25
Author(s): Kyle L. Flannigan, Taylor Rajbar, Andrew Moffat, L McKenzie, Frank Dicke, Kevin P. Rioux, Matthew L. Workentine, Thomas Louie, Simon A. Hirota, Steven C. Greenway
Software Mentions: 2
Published: over 7 years ago

10.3390/v12040398

A Novel Divergent Geminivirus Identified in Asymptomatic New World Cactaceae Plants
Cited by: 10
Author(s): Rafaela S. Fontenele, Andrew M. Salywon, Lucas C. Majure, Ilaria N. Cobb, Amulya Bhaskara, Jesús Aarón Ávalos-Calleros, Gerardo R. Argüello‐Astorga, Kara Schmidlin, Anthony Khalifeh, Kendal Smith, Joshua Schreck, Michael C. Lund, Matias Köhler, Martin F. Wojciechowski, Wendy C. Hodgson, Raúl Puente‐Martínez, Koenraad Van Doorslaer, Safaa G. Kumari, Christian Vernière, Denis Filloux, Pierre Lefeuvre, S. G. Ribeiro, Simona Kraberger, Darren P. Martin, Arvind Varsani
Software Mentions: 2
Published: over 4 years ago

10.1093/femsec/fiv166

Comparisons of diazotrophic communities in native and agricultural desert ecosystems reveal plants as important drivers in diversity
Cited by: 25
Author(s): Martina Köberl, Armin Erlacher, Elshahat M. Ramadan, Tarek F. El-Arabi, Henry Müller, Anastasia Bragina, Gabriele Berg
Software Mentions: 2
Published: almost 9 years ago

10.3390/v12020132

The Potyviruses: An Evolutionary Synthesis Is Emerging
Cited by: 67
Author(s): Adrian J. Gibbs, Mohammad Reza Hajizadeh, Kazusato Ohshima, R. A. C. Jones
Software Mentions: 2
Published: almost 5 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: over 9 years ago

10.3389/fcimb.2021.732613

Effects of Helicobacter pylori Infection on the Oral Microbiota of Reflux Esophagitis Patients
Cited by: 6
Author(s): Tian Liang, Fang Liu, Lijun Liu, Zhiying Zhang, Wenxue Dong, Su Bai, Lifeng Ma, Longli Kang
Software Mentions: 2
Published: about 3 years ago

10.1186/s12917-019-2161-9

Bioinformatics analysis of capsid protein of different subtypes rabbit hemorrhagic disease virus
Cited by: 1
Author(s): Ruibin Qi, Jie Zhu, Qiuhong Miao, Aoxing Tang, De-Li Dong, Xiaoxue Wang, Guangqing Liu
Software Mentions: 2
Published: almost 5 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: almost 8 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: about 7 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: over 11 years ago

10.3389/fgene.2015.00329

riboFrame: An Improved Method for Microbial Taxonomy Profiling from Non-Targeted Metagenomics
Cited by: 15
Author(s): Matteo Ramazzotti, Luisa Berná, Claudio Donati, Duccio Cavalieri
Software Mentions: 2
Published: about 9 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: over 5 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: over 11 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: over 5 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: almost 6 years ago

10.1186/1471-2148-14-57

Multilocus coalescent analyses reveal the demographic history and speciation patterns of mouse lemur sister species
Cited by: 24
Author(s): Christopher Blair, Kellie L. Heckman, Amy L. Russell, Anne D. Yoder
Software Mentions: 2
Published: almost 11 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: over 10 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: almost 4 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: over 12 years ago

10.1371/journal.pone.0028088

Comparing the Bacterial Diversity of Acute and Chronic Dental Root Canal Infections
Cited by: 116
Author(s): Adriana Lopes dos Santos, José F. Siqueira, Isabela N. Rôças, Ederson C Jesus, Alexandre Soares Rosado, James M. Tiedje
Software Mentions: 2
Published: about 13 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: over 11 years ago

10.3390/v4091548

Genomic Sequences of Two Novel Levivirus Single-Stranded RNA Coliphages (Family Leviviridae): Evidence for Recombination in Environmental Strains
Cited by: 6
Author(s): Stephanie D. Friedman, Wyatt C. Snellgrove, Fred J. Genthner
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0015220

Robust Computational Analysis of rRNA Hypervariable Tag Datasets
Cited by: 16
Author(s): Maksim Sipos, Patricio Jeraldo, Nicholas Chia, Ani Qu, A. S. Dhillon, Michael E. Konkel, Karen E. Nelson, Bryan A. White, Nigel Goldenfeld
Software Mentions: 2
Published: almost 14 years ago

10.1371/journal.pone.0062580

Characterisation of the Bacterial and Fungal Communities Associated with Different Lesion Sizes of Dark Spot Syndrome Occurring in the Coral Stephanocoenia intersepta
Cited by: 38
Author(s): Michael Sweet, Deborah Burn, Aldo Cróquer, P. M. Leary
Software Mentions: 2
Published: over 11 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: almost 5 years ago

10.1371/journal.pone.0186273

Further insight into genetic variation and haplotype diversity of Cherry virus A from China
Cited by: 9
Author(s): Rui Gao, Yunxiao Xu, Thierry Candresse, Zhen He, Shifang Li, Yuxin Ma, Meiguang Lu
Software Mentions: 2
Published: about 7 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: over 9 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: about 10 years ago

10.1371/journal.pone.0035294

Novel Bacterial Taxa in the Human Microbiome
Cited by: 85
Author(s): Kristine M. Wylie, Rebecca Truty, Thomas J. Sharpton, Kathie A. Mihindukulasuriya, Yanjiao Zhou, Hongyu Gao, Erica Sodergren, George M. Weinstock, Katherine S. Pollard
Software Mentions: 2
Published: over 12 years ago

10.1093/ve/veab061

Adaptation of the endemic coronaviruses HCoV-OC43 and HCoV-229E to the human host
Cited by: 10
Author(s): Diego Forni, Rachele Cagliani, Federica Arrigoni, Martino Benvenuti, Alessandra Mozzi, Diego Forni, Mario Clerici, Luca De Gioia, Manuela Sironi
Software Mentions: 2
Published: over 3 years ago

10.1186/1756-0500-4-227

CANGS DB: a stand-alone web-based database tool for processing, managing and analyzing 454 data in biodiversity studies
Cited by: 5
Author(s): Ram Vinay Pandey, Viola Nolte, Jens Boenigk, Christian Schlötterer
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pone.0085904

Microbiota of Cow’s Milk; Distinguishing Healthy, Sub-Clinically and Clinically Diseased Quarters
Cited by: 153
Author(s): Georgios Oikonomou, M.L.S. Bicalho, E.B.S. Meira, Rubiana Falopa Rossi, Carla Foditsch, Vinicius Machado, A.G.V. Teixeira, Carlos Santisteban, Y.H. Schukken, R.C. Bicalho
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0223847

Bacterial communities in the rhizosphere, phyllosphere and endosphere of tomato plants
Cited by: 121
Author(s): C.Y. Dong, Lingling Wang, Qian Li, Qingmao Shang
Software Mentions: 2
Published: about 5 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: about 13 years ago

10.1186/s12917-015-0491-9

Phylodynamic analysis of the canine distemper virus hemagglutinin gene
Cited by: 55
Author(s): Guan Ming Ke, Chin Hsiang Ho, Meng Jung Chiang, Bintou Sanno-Duanda, Cheng Shu Chung, Ming‐Hsien Lin, Yong Ying Shi, Ming Hui Yang, Yu‐Chang Tyan, Pao Chi Liao, Pei Yu Chu
Software Mentions: 2
Published: over 9 years ago

10.3390/v10030107

Recombinant Goose Circoviruses Circulating in Domesticated and Wild Geese in Poland
Cited by: 13
Author(s): Tomasz Stenzel, Daria Dziewulska, Brejnev Muhire, Penelope Hartnady, Simona Kraberger, Darren P. Martin, Arvind Varsani
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0090115

Microbial Successions and Metabolite Changes during Fermentation of Salted Shrimp (Saeu-Jeot) with Different Salt Concentrations
Cited by: 31
Author(s): Se Hee Lee, Ji Young Jung, Che Ok Jeon
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0255425

Canine bocavirus-2 infection and its possible association with encephalopathy in domestic dogs
Cited by: 6
Author(s): Chutchai Piewbang, Sabrina Wahyu Wardhani, Wichan Dankaona, Sitthichok Lacharoje, Poowadon Chai‐in, Jakarwan Yostawonkul, Jira Chanseanroj, Suwimon Boonrungsiman, Tanit Kasantikul, Yong Poovorawan, Somporn Techangamsuwan
Software Mentions: 2
Published: over 3 years ago

10.3390/v11090814

Evolutionary Dynamics of the Lineage 2 West Nile Virus That Caused the Largest European Epidemic: Italy 2011–2018
Cited by: 27
Author(s): Carla Veo, Carla Della Ventura, Ana Moreno, Francesca Rovida, Elena Percivalle, Sabrina Canziani, Deborah Torri, Mattia Calzolari, Fausto Baldanti, Massimo Galli, Gianguglielmo Zehender
Software Mentions: 2
Published: about 5 years ago

10.1186/1756-0500-3-257

A direct comparison of the KB™ Basecaller and phred for identifying the bases from DNA sequencing using chain termination chemistry
Cited by: 10
Author(s): Richard W. Hyman, Hui Jiang, Marilyn Fukushima, Ronald W. Davis
Software Mentions: 2
Published: about 14 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: over 3 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: almost 8 years ago

10.1371/journal.pone.0051075

Bacterial Indicator of Agricultural Management for Soil under No-Till Crop Production
Cited by: 75
Author(s): Eva Lucía Margarita Figuerola, Leandro D. Guerrero, Silvina Mariana Rosa, Leandro Simonetti, Matías Ezequiel Duval, Juán Alberto Galantini, José Camilo Bedano, Luis Gabriel Wall, Leonardo Erijman
Software Mentions: 2
Published: almost 12 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: almost 4 years ago

10.1371/journal.pone.0113253

Progressive Degradation of Crude Oil n-Alkanes Coupled to Methane Production under Mesophilic and Thermophilic Conditions
Cited by: 56
Author(s): Lei Cheng, Shengbao Shi, Qiang Li, Jianfa Chen, Hui Zhang, Yahai Lu
Software Mentions: 2
Published: about 10 years ago

10.1186/1753-6561-7-S7-S4

Better primer design for metagenomics applications by increasing taxonomic distinguishability
Cited by: 20
Author(s): Melita Jaric, Jonathan Segal, Eugenia Silva-Herzog, Lisa Schneper, Kalai Mathee, Giri Narasimhan
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0181427

Habitat and indigenous gut microbes contribute to the plasticity of gut microbiome in oriental river prawn during rapid environmental change
Cited by: 51
Author(s): Cheng-Yu Chen, Po‐Cheng Chen, Francis Cheng-Hsuan Weng, Grace Tzun-Wen Shaw, Daryi Wang
Software Mentions: 2
Published: over 7 years ago

10.1093/ve/vev009

The global distribution ofBanana bunchy top virusreveals little evidence for frequent recent, human-mediated long distance dispersal events
Cited by: 48
Author(s): Daisy Stainton, Darren P. Martin, Brejnev Muhire, Samiuela Lolohea, Mana’ia Halafihi, P. Lepoint, Guy Blomme, Kathleen S. Crew, Murray Sharman, Simona Kraberger, Anisha Dayaram, Matthew Walters, David A. Collings, Batsirai Mabvakure, Phillipe Lemey, Gordon William Harkins, J. E. Thomas, Arvind Varsani
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pone.0085301

Responses of Bacterial Communities in Arable Soils in a Rice-Wheat Cropping System to Different Fertilizer Regimes and Sampling Times
Cited by: 182
Author(s): Jun Zhao, Tian Ni, Yong Li, Wu Xiong, Ran Wei, Biao Shen, Qirong Shen, Ruifu Zhang
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0054326

Sediment Bacterial Communities Reflect the History of a Sea Basin
Cited by: 20
Author(s): Christina Lyra, Hanna Sinkko, Matias Rantanen, Lars Paulín, Aarno Kotilainen
Software Mentions: 2
Published: almost 12 years ago

10.1111/j.1574-6968.2008.01336.x

Evidence for recombination between a sialidase (nanH) ofActinomyces naeslundiiandActinomyces oris, previously named âActinomyces naeslundiigenospecies 1 and 2â
Cited by: 15
Author(s): Thuy Do, Uta Henßge, Steven C. Gilbert, Douglas Clark, David Beighton
Software Mentions: 2
Published: about 16 years ago

10.3389/fbioe.2019.00010

Soil Bacterial Communities From the Chilean Andean Highlands: Taxonomic Composition and Culturability
Cited by: 28
Author(s): Felipe Rodríguez Maza, Jonathan Maldonado, Javiera Vásquez-Dean, Dinka Mandaković, Alexis Gaete, Verónica Cambiazo, Maurício González
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12867-017-0081-4

Positive selection and functional divergence of farnesyl pyrophosphate synthase genes in plants
Cited by: 8
Author(s): Jiang Qian, Yong Liu, Naixia Chao, Chunyan Ma, Qicong Chen, Jian Sun, Yaosheng Wu
Software Mentions: 2
Published: almost 8 years ago

10.1186/s12985-020-01466-z

Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya
Cited by: 2
Author(s): Edith Khamonya Avedi, Adedapo Olutola Adediji, Dora Kilalo, Florence Olubayo, Isaac Macharia, Elijah Ateka, Eunice Machuka, J. Musembi Mutuku
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pone.0123365

Distinctive Patterns of Evolution of the δ-Globin Gene (HBD) in Primates
Cited by: 5
Author(s): Ana Moleirinho, Alexandra M. Lopes, Susana Seixas, Ramiro Morales‐Hojas, Maria João Prata, António Amorim
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0038108

Coordinating Environmental Genomics and Geochemistry Reveals Metabolic Transitions in a Hot Spring Ecosystem
Cited by: 72
Author(s): Wesley D. Swingley, D. R. Meyer-Dombard, Everett L. Shock, Eric Alsop, Heinz Dieter Falenski, J. R. Havig, Jason Raymond
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0025617

Population Structure of Pseudomonas aeruginosa from Five Mediterranean Countries: Evidence for Frequent Recombination and Epidemic Occurrence of CC235
Cited by: 120
Author(s): Makaoui Maâtallah, Jihane Cheriaa, Amina Backhrouf, Aina Iversen, Hajo Grundmann, Thuy Do, Philippe Lanotte, Maha Mastouri, Mohamed Salem Elghmati, Fernando Rojo, Mejdi Snoussi, Christian G. Giske
Software Mentions: 2
Published: about 13 years ago

10.1186/s12985-019-1243-4

Intra-species recombination among strains of the ampelovirus Grapevine leafroll-associated virus 4
Cited by: 7
Author(s): Jati Adiputra, Sridhar Jarugula, Rayapati A. Naidu
Software Mentions: 2
Published: about 5 years ago

10.1128/AEM.02015-20

Pairing of Parental Noroviruses with Unequal Competitiveness Provides a Clear Advantage for Emergence of Progeny Recombinants
Cited by: 1
Author(s): Eung Seo Koo, Yong Seok Jeong
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pone.0081977

Both Positive and Negative Selection Pressures Contribute to the Polymorphism Pattern of the Duplicated Human CYP21A2 Gene
Cited by: 9
Author(s): J. Szabó, Ágnes Szilágyi, Zoltán Doleschall, Attila Patócs, Henriette Farkas, Zoltán Prohászka, Kristóf Rácz, George Füst, Márton Doleschall
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0039242

Non-Invasive Mapping of the Gastrointestinal Microbiota Identifies Children with Inflammatory Bowel Disease
Cited by: 237
Author(s): Eliseo Papa, Michael Docktor, Christopher Smillie, Sarah Weber, Sarah P. Preheim, Dirk Gevers, Georgia Giannoukos, Dawn Ciulla, Diana Tabbaa, Jay Ingram, David B. Schauer, Doyle V. Ward, Joshua R. Korzenik, Ramnik J. Xavier, Athos Bousvaros, Eric J. Alm
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0039089

Coalescent Simulations Reveal Hybridization and Incomplete Lineage Sorting in Mediterranean Linaria
Cited by: 98
Author(s): José Luis Blanco‐Pastor, Pablo Vargas, Bernard E. Pfeil
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0237975

A multi-omics approach to solving problems in plant disease ecology
Cited by: 43
Author(s): Sharifa G. Crandall, Kaitlin M. Gold, María del Mar Jiménez-Gasco, Camila C. Filgueiras, Denis S. Willett
Software Mentions: 2
Published: about 4 years ago

10.3390/v13020235

The First Whole Genome Sequence and Characterisation of Avian Nephritis Virus Genotype 3
Cited by: 7
Author(s): Paula Lagan, Ryan Devaney, Victoria Smyth
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pone.0063157

Fecal Microbial Diversity in Pre-Weaned Dairy Calves as Described by Pyrosequencing of Metagenomic 16S rDNA. Associations of Faecalibacterium Species with Health and Growth
Cited by: 205
Author(s): Georgios Oikonomou, A.G.V. Teixeira, Carla Foditsch, M.L.S. Bicalho, Vinicius Machado, R.C. Bicalho
Software Mentions: 2
Published: over 11 years ago

10.1186/s12862-017-0899-x

Digging up the roots of an insular hotspot of genetic diversity: decoupled mito-nuclear histories in the evolution of the Corsican-Sardinian endemic lizard Podarcis tiliguerta
Cited by: 22
Author(s): Daniele Salvi, Catarina Pinho, D. James Harris
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2021.649091

Multi-Omics Analysis Reveals Disturbance of Nanosecond Pulsed Electric Field in the Serum Metabolic Spectrum and Gut Microbiota
Cited by: 1
Author(s): Yeping Dong, Jiahua Lu, Ting Wang, Zhiliang Huang, Xinhua Chen, Zhigang Ren, Hong Ling, Ang Li, Dezhi Yang, Haiyang Xie, Zengwen Wu
Software Mentions: 2
Published: over 3 years ago

10.3390/v13040595

High Heterogeneity of Echoviruses in Brazilian Children with Acute Gastroenteritis
Cited by: 4
Author(s): Endrya do Socorro Fôro Ramos, Ulisses Alves Rosa, Geovani de Oliveira Ribeiro, Fabiola Villanova, Flávio Augusto de Pádua Milagres, Rafael Brustulin, Vanessa dos Santos Morais, Mayara Bertanhe, Roberta Marcatti, Emerson Luiz Lima Araújo, Steven S. Witkin, Eric Delwart, Adriana Luchs, Antônio Charlys da Costa, Élcio Leal
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0055817

Alterations in the Colonic Microbiota in Response to Osmotic Diarrhea
Cited by: 105
Author(s): Gregor Gorkiewicz, Gerhard G. Thallinger, Slave Trajanoski, Sonja Lackner, Gernot Stocker, Thomas Hinterleitner, Christian Gülly, Christoph Högenauer
Software Mentions: 2
Published: almost 12 years ago

10.3390/v12020143

Virus Discovery in Desert Tortoise Fecal Samples: Novel Circular Single-Stranded DNA Viruses
Cited by: 24
Author(s): Joseph P. Orton, Matheo Morales, Rafaela S. Fontenele, Kara Schmidlin, Simona Kraberger, Daniel J. Leavitt, Timothy H. Webster, Melissa A. Wilson, Kenro Kusumi, Greer A. Dolby, Arvind Varsani
Software Mentions: 2
Published: almost 5 years ago

Projects: cran: RDP

Papers Mentioning RDP 1,243