pypi: PhyloPhlAn | Projects | Ecosyste.ms: Papers

10.3390/microorganisms8101590

Microbiota of the Therapeutic Euganean Thermal Muds with a Focus on the Main Cyanobacteria Species
Cited by: 17
Author(s): Barbara Gris, Laura Treu, Raffaella Margherita Zampieri, Fabrizio Caldara, Chiara Romualdi, Stefano Campanaro, Nicoletta La Rocca
Software Mentions: 1
Published: about 4 years ago

10.3390/microorganisms9061299

Diversity and Adaptations of Escherichia coli Strains: Exploring the Intestinal Community in Crohn’s Disease Patients and Healthy Individuals
Cited by: 6
Author(s): Maria Siniagina, Maria Markelova, Eugenia A. Boulygina, Alexander Laikov, Dilyara Khusnutdinova, С. Р. Абдулхаков, Natalia Danilova, Alfiya Odintsova, Р. А. Абдулхаков, Tatiana V. Grigoryeva
Software Mentions: 1
Published: over 3 years ago

10.3390/microorganisms9020407

Pangenomics of the Symbiotic Rhizobiales. Core and Accessory Functions Across a Group Endowed with High Levels of Genomic Plasticity
Cited by: 5
Author(s): Riccardo Rosselli, Nicola La Porta, Rosella Muresu, Piergiorgio Stevanato, Giuseppe Concheri, Andrea Squartini
Software Mentions: 1
Published: over 3 years ago

10.1186/s40168-015-0121-6

Phenotypic differentiation of gastrointestinal microbes is reflected in their encoded metabolic repertoires
Cited by: 40
Author(s): Eugen Bauer, Cédric Christian Laczny, Stefanía Magnúsdóttir, Paul Wilmes, Ines Thiele
Software Mentions: 1
Published: almost 9 years ago

10.1186/s40168-019-0773-8

Impacts of florfenicol on the microbiota landscape and resistome as revealed by metagenomic analysis
Cited by: 40
Author(s): Qifan Zeng, Chao Liao, Jeffery S. Terhune, Luxin Wang
Software Mentions: 1
Published: almost 5 years ago

10.1099/acmi.0.000199

Bacterial gastroenteritis caused by the putative zoonotic pathogen Campylobacter lanienae: First reported case in Germany
Cited by: 7
Author(s): Juliane Fornefett, Anne Busch, Sandra Döpping, Helmut Hotzel, Dagmar Rimek
Software Mentions: 1
Published: over 3 years ago

10.7150/jgen.39039

Whole Genome Sequence of Marinobacter salarius Strain SMR5, Shown to Promote Growth in its Diatom Host
Cited by: 6
Author(s): Mats Töpel, Matthew I. M. Pinder, Ola Johansson, Olga Kourtchenko, Anna Godhe, Adrian K. Clarke
Software Mentions: 1
Published: almost 6 years ago

10.1186/s40168-020-00877-y

A genomic view of trophic and metabolic diversity in clade-specific Lamellodysidea sponge microbiomes
Cited by: 34
Author(s): Sheila Podell, Jessica M. Blanton, Aaron Oliver, Michelle A. Schorn, Vinayak Agarwal, Jason S. Biggs, Bradley S. Moore, Eric E. Allen
Software Mentions: 1
Published: over 4 years ago

10.1186/s40168-019-0652-3

Proliferation of hydrocarbon-degrading microbes at the bottom of the Mariana Trench
Cited by: 110
Author(s): Jiwen Liu, Yanfen Zheng, Heyu Lin, Xuchen Wang, Meng Li, Yang Liu, Yu Meng, Meixun Zhao, Nikolai Pedentchouk, David J. Lea‐Smith, Jonathan D. Todd, Clayton R. Magill, Weijia Zhang, Shun Zhou, Delei Song, Haohui Zhong, Yu Xin, Min Yu, Jie Tian, Xiaohua Zhang
Software Mentions: 1
Published: over 5 years ago

10.1155/2019/7586430

Complete Genome Sequence of the Plant Growth-Promoting BacteriumHartmannibacter diazotrophicusStrain E19T
Cited by: 15
Author(s): Christian Suarez, Stefan Ratering, Torsten Hain, Moritz Fritzenwanker, Alexander Goesmann, Jochen Blom, Trinad Chakraborty, Boyke Bunk, Cathrin Spröer, Jörg Overmann, Sylvia Schnell
Software Mentions: 1
Published: about 5 years ago

10.1186/s40168-019-0637-2

Sequence and cultivation study of Muribaculaceae reveals novel species, host preference, and functional potential of this yet undescribed family
Cited by: 402
Author(s): Ilias Lagkouvardos, Till Robin Lesker, Thomas C. A. Hitch, Eric Galvez, Nathiana Smit, Klaus Neuhaus, Jun Wang, John F. Baines, Birte Abt, Bärbel Stecher, Jörg Overmann, Till Strowig, Thomas Clavel
Software Mentions: 1
Published: over 5 years ago

10.1128/MRA.00482-19

Complete Genome Sequence of the Diatom-Associated Bacterium Sphingorhabdus sp. Strain SMR4y
Cited by: 1
Author(s): Mats Töpel, Matthew I. M. Pinder, Ola Johansson, Olga Kourtchenko, Anna Godhe, Adrian K. Clarke
Software Mentions: 1
Published: over 5 years ago

10.1128/mBio.01033-18

Ongoing Transposon-Mediated Genome Reduction in the Luminous Bacterial Symbionts of Deep-Sea Ceratioid Anglerfishes
Cited by: 44
Author(s): Tory A. Hendry, Lindsay L Freed, Dana Fader, Danté B. Fenolio, Tracey Sutton, Jose V. Lopez
Software Mentions: 1
Published: over 6 years ago

10.1128/MRA.01461-18

Genome Sequence of Arenibacter algicola Strain SMS7, Found in Association with the Marine Diatom Skeletonema marinoi
Cited by: 2
Author(s): Mats Töpel, Matthew I. M. Pinder, Ola Johansson, Olga Kourtchenko, Anna Godhe, Adrian K. Clarke
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms21218128

Cooperative Interaction of Janthinobacterium sp. SLB01 and Flavobacterium sp. SLB02 in the Diseased Sponge Lubomirskia baicalensis
Cited by: 5
Author(s): Ivan S. Petrushin, С. И. Беликов, Lubov Chernogor
Software Mentions: 1
Published: about 4 years ago

10.1128/mSphere.00202-18

Model Communities Hint at Promiscuous Metabolic Linkages between Ubiquitous Free-Living Freshwater Bacteria
Cited by: 19
Author(s): Sarahi L. Garcia, Moritz Buck, Joshua J. Hamilton, Christian Wurzbacher, Hans‐Peter Grossart, Katherine D. McMahon, Alexander Eiler
Software Mentions: 1
Published: over 6 years ago

10.1128/mSphere.00087-20

Phylogenomic Insights into Diversity and Evolution of Nonpathogenic Xanthomonas Strains Associated with Citrus
Cited by: 16
Author(s): Kanika Bansal, Sanjeet Kumar, Prabhu B. Patil
Software Mentions: 1
Published: over 4 years ago

10.1128/MRA.00972-18

Draft Genome Sequence of Bacillus anthracis Strain Sterne 09RA8929
Cited by: 1
Author(s): Anne Busch, Mandy C. Elschner, Daniela Jacob, Roland Grunow, Herbert Tomaso
Software Mentions: 1
Published: about 6 years ago

10.1128/mSystems.00190-17

On the Road to Strain-Resolved Comparative Metagenomics
Cited by: 97
Author(s): Nicola Segata
Software Mentions: 1
Published: over 6 years ago

10.1128/MRA.00107-21

Complete Genome Sequence of Rhodococcus qingshengii Strain VKM Ac-2784D, Isolated from Elytrigia repens Rhizosphere
Cited by: 4
Author(s): Ivan S. Petrushin, Yu. A. Markova, Marina S. Karepova, Yulia V. Zaytseva, Л. А. Беловежец
Software Mentions: 1
Published: over 3 years ago

10.1128/MRA.01584-18

Genome Sequence of Rhizobium jaguaris CCGE525 T , a Strain Isolated from Calliandra grandiflora Nodules from a Rain Forest in Mexico
Cited by: 3
Author(s): Luis E. Servín-Garcidueñas, Gabriela Guerrero, Marco Antonio Rogel-Hernández, Esperanza Martı́nez-Romero
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-015-1980-8

Adherence and invasive properties of Corynebacterium diphtheriae strains correlates with the predicted membrane-associated and secreted proteome
Cited by: 34
Author(s): Vartul Sangal, Jochen Blom, Iain C. Sutcliffe, Christina von Hunolstein, Andreas Burkovski, Paul A. Hoskisson
Software Mentions: 1
Published: about 9 years ago

10.1099/mgen.0.000592

Improved molecular characterization of the Klebsiella oxytoca complex reveals the prevalence of the kleboxymycin biosynthetic gene cluster
Cited by: 9
Author(s): Preetha Shibu, Frazer McCuaig, Anne L. McCartney, Magdalena Kujawska, Lindsay J. Hall, Lesley Hoyles
Software Mentions: 1
Published: over 3 years ago

10.1186/s12864-021-07632-z

Comparative genomics and physiological investigation supported safety, cold adaptation, efficient hydrolytic and plant growth-promoting potential of psychrotrophic Glutamicibacter arilaitensis LJH19, isolated from night-soil compost
Cited by: 15
Author(s): Shruti Sinai Borker, Abhishek Thakur, Sanjeet Kumar, Sareeka Kumari, Rakshak Kumar, Sanjay Kumar
Software Mentions: 1
Published: over 3 years ago

10.1186/s13068-018-1121-0

Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion
Cited by: 26
Author(s): Yangyang Jia, Siu-Kin Ng, Hsu Feng Lu, Mingwei Cai, Patrick K. H. Lee
Software Mentions: 1
Published: over 6 years ago

10.3390/biology10090924

Microorganisms of Two Thermal Pools on Kunashir Island, Russia
Cited by: 2
Author(s): А. С. Розанов, Anton V. Korzhuk, Sergei V. Shekhovtsov, Gennady V. Vasiliev, S. E. Peltek
Software Mentions: 1
Published: about 3 years ago

10.1093/bioinformatics/btz848

GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database
Cited by: 1,815
Author(s): Pierre-Alain Chaumeil, Aaron J. Mussig, Philip Hugenholtz, Donovan H. Parks
Software Mentions: 1
Published: almost 5 years ago

10.1186/s13104-021-05589-6

Genomic characterization of bacteria from the ultra-oligotrophic Madison aquifer: insight into the archetypical LuxI/LuxR and identification of novel LuxR solos
Cited by: 3
Author(s): Peter C. Wengert, Narayan H. Wong, Hazel A. Barton, Han Ming Gan, André O. Hudson, Michael A. Savka
Software Mentions: 1
Published: over 3 years ago

10.1186/s13104-019-4704-3

Genome sequence of a pathogenic Corynebacterium ulcerans strain isolated from a wild boar with necrotizing lymphadenitis
Cited by: 4
Author(s): Anne Busch, Jens Möller, Andreas Burkovski, Helmut Hotzel
Software Mentions: 1
Published: about 5 years ago

10.3389/fmicb.2016.01090

Comparison of Nitrogen Oxide Metabolism among Diverse Ammonia-Oxidizing Bacteria
Cited by: 72
Author(s): Jessica A. Kozlowski, K. Dimitri Kits, Lisa Y. Stein
Software Mentions: 1
Published: over 8 years ago

10.1038/s41396-018-0098-9

Genomic expansion of magnetotactic bacteria reveals an early common origin of magnetotaxis with lineage-specific evolution
Cited by: 85
Author(s): Wei Lin, Wensi Zhang, Xiang Zhao, Andrew P. Roberts, Greig A. Paterson, Dennis A. Bazylinski, Yongxin Pan
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2020.00688

Genotypic and Phenotypic Characterization of Fecal Staphylococcus epidermidis Isolates Suggests Plasticity to Adapt to Different Human Body Sites
Cited by: 17
Author(s): Enriqueta García-Gutiérrez, Calum J. Walsh, Lizbeth Sayavedra, Teresa Diaz-Calvo, Dinesh Thapa, Patricia Ruas‐Madiedo, Melinda J. Mayer, Paul D. Cotter, Arjan Narbad
Software Mentions: 1
Published: over 4 years ago

10.3389/fmicb.2019.01828

Friends With Benefits: Exploring the Phycosphere of the Marine Diatom Skeletonema marinoi
Cited by: 35
Author(s): Ola Johansson, Matthew I. M. Pinder, Fredrik Ohlsson, Jenny Egardt, Mats Töpel, Adrian K. Clarke
Software Mentions: 1
Published: over 5 years ago

10.3389/fmicb.2019.02926

Prokaryotic Population Dynamics and Viral Predation in a Marine Succession Experiment Using Metagenomics
Cited by: 15
Author(s): Jose M. Haro‐Moreno, Francisco Rodrı́guez-Valera, Mario López‐Pérez
Software Mentions: 1
Published: almost 5 years ago

10.3389/fmicb.2016.01990

Comprehensive Phylogenetic Analysis of Bovine Non-aureus Staphylococci Species Based on Whole-Genome Sequencing
Cited by: 42
Author(s): Sohail Naushad, Herman W. Barkema, Christopher D. Luby, Larissa Anuska Zeni Condas, Diego Nobrega, Domonique A. Carson, Jeroen De Buck
Software Mentions: 1
Published: almost 8 years ago

10.3389/fmicb.2017.01584

Comparative Genomic Analysis of Neutrophilic Iron(II) Oxidizer Genomes for Candidate Genes in Extracellular Electron Transfer
Cited by: 93
Author(s): Shaomei He, Roman A. Barco, David Emerson, Eric E. Roden
Software Mentions: 1
Published: about 7 years ago

10.1038/s41396-019-0378-z

The mesopelagic anoxic Black Sea as an unexpected habitat for Synechococcus challenges our understanding of global “deep red fluorescence”
Cited by: 33
Author(s): Cristiana Callieri, Violeta Slabakova, Nina Dzhembekova, Nataliya Slabakova, Elisaveta Peneva, Pedro J. Cabello‐Yeves, Andrea Di Cesare, Ester M. Eckert, Roberto Bertoni, Gianluca Corno, Michaela M. Salcher, Lyudmila Kamburska, Filippo Bertoni, Snejana Moncheva
Software Mentions: 1
Published: over 5 years ago

10.3389/fmicb.2018.03187

Genome Sequencing and Pan-Genome Analysis of 23 Corallococcus spp. Strains Reveal Unexpected Diversity, With Particular Plasticity of Predatory Gene Sets
Cited by: 59
Author(s): Paul Livingstone, Russell M. Morphew, David E. Whitworth
Software Mentions: 1
Published: almost 6 years ago

10.3389/fmicb.2018.00834

Phylogeny Trumps Chemotaxonomy: A Case Study Involving Turicella otitidis
Cited by: 37
Author(s): Inwoo Baek, Min‐Cheol Kim, Imchang Lee, Seong-In Na, Michael Goodfellow, Jongsik Chun
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-019-6206-z

Comparative genomics reveals a novel genetic organization of the sad cluster in the sulfonamide-degrader ‘Candidatus Leucobacter sulfamidivorax’ strain GP
Cited by: 12
Author(s): Ana C. Reis, Boris A. Kolvenbach, Mohamed Chami, Luı́s Gales, Conceição Egas, Philippe F.-X. Corvini, Olga C. Nunes
Software Mentions: 1
Published: almost 5 years ago

10.3389/fcimb.2014.00188

Whole genome sequencing and analysis reveal insights into the genetic structure, diversity and evolutionary relatedness of luxI and luxR homologs in bacteria belonging to the Sphingomonadaceae family
Cited by: 29
Author(s): Han Ming Gan, Huan You Gan, Nurul Hawa Ahmad, Nazrin A. Aziz, André O. Hudson, Michael A. Savka
Software Mentions: 1
Published: almost 10 years ago

10.3389/fmicb.2018.01079

Hydrogen-Fueled Microbial Pathways in Biogas Upgrading Systems Revealed by Genome-Centric Metagenomics
Cited by: 52
Author(s): Laura Treu, Stefano Campanaro, Panagiotis Kougias, Cristina Sartori, Ilaria Bassani, Irini Angelidaki
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2020.595066

Characterization of Metagenome-Assembled Genomes and Carbohydrate-Degrading Genes in the Gut Microbiota of Tibetan Pig
Cited by: 27
Author(s): Saisai Zhou, Runbo Luo, Ga Gong, Yifei Wang, Zhuoma Gesang, Kai Wang, Xu Zhao, Suolang Sizhu
Software Mentions: 1
Published: almost 4 years ago

10.3389/fmicb.2018.02458

A Novel Alkaliphilic Streptomyces Inhibits ESKAPE Pathogens
Cited by: 27
Author(s): Luciana Terra, Paul Dyson, Matthew D. Hitchings, Lloyd E. Thomas, Alyaa Abdelhameed, İbrahim M. Banat, Salvatore A. Gazzè, Dušica Vujaklija, Paul D. Facey, Lewis Francis, Gerry A. Quinn
Software Mentions: 1
Published: about 6 years ago

Projects: pypi: PhyloPhlAn

Papers Mentioning PhyloPhlAn 144