Cargando…

Profiling microbial strains in urban environments using metagenomic sequencing data

BACKGROUND: The microbial communities populating human and natural environments have been extensively characterized with shotgun metagenomics, which provides an in-depth representation of the microbial diversity within a sample. Microbes thriving in urban environments may be crucially important for...

Descripción completa

Detalles Bibliográficos
Autores principales:	Zolfo, Moreno, Asnicar, Francesco, Manghi, Paolo, Pasolli, Edoardo, Tett, Adrian, Segata, Nicola
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2018
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5944035/ https://www.ncbi.nlm.nih.gov/pubmed/29743119 http://dx.doi.org/10.1186/s13062-018-0211-z

Ejemplares similares

Microbial strain-level population structure and genetic diversity from metagenomes
por: Truong, Duy Tin, et al.
Publicado: (2017)

Genomic and metagenomic insights into the microbial community of a thermal spring
por: Pedron, Renato, et al.
Publicado: (2019)

Draft Genome Sequences of Novel Pseudomonas, Flavobacterium, and Sediminibacterium Species Strains from a Freshwater Ecosystem
por: Pinto, Federica, et al.
Publicado: (2018)

Correction for Pinto et al., “Draft Genome Sequences of Novel Pseudomonas, Flavobacterium, and Sediminibacterium Strains from a Freshwater Ecosystem”
por: Pinto, Federica, et al.
Publicado: (2018)

Studying Vertical Microbiome Transmission from Mothers to Infants by Strain-Level Metagenomic Profiling
por: Asnicar, Francesco, et al.
Publicado: (2017)

Microbial genomes from non-human primate gut metagenomes expand the primate-associated bacterial tree of life with over 1000 novel species
por: Manara, Serena, et al.
Publicado: (2019)

Draft Genome Sequence of the Planktic Cyanobacterium Tychonema bourrellyi, Isolated from Alpine Lentic Freshwater
por: Pinto, Federica, et al.
Publicado: (2017)

MetaMLST: multi-locus strain-level bacterial typing from metagenomic samples
por: Zolfo, Moreno, et al.
Publicado: (2017)

Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle
por: Pasolli, Edoardo, et al.
Publicado: (2019)

Unexplored diversity and strain-level structure of the skin microbiome associated with psoriasis
por: Tett, Adrian, et al.
Publicado: (2017)

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0
por: Asnicar, Francesco, et al.
Publicado: (2020)

Strong oral plaque microbiome signatures for dental implant diseases identified by strain-resolution metagenomics
por: Ghensi, Paolo, et al.
Publicado: (2020)

Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants
por: Ward, Doyle V., et al.
Publicado: (2016)

Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4
por: Blanco-Míguez, Aitor, et al.
Publicado: (2023)

Analysis of 1321 Eubacterium rectale genomes from metagenomes uncovers complex phylogeographic population structure and subspecies functional adaptations
por: Karcher, Nicolai, et al.
Publicado: (2020)

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3
por: Beghini, Francesco, et al.
Publicado: (2021)

Automated identification of sequence-tailored Cas9 proteins using massive metagenomic data
por: Ciciani, Matteo, et al.
Publicado: (2022)

Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights
por: Pasolli, Edoardo, et al.
Publicado: (2016)

Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome
por: Beghini, Francesco, et al.
Publicado: (2017)

Metagenomic analysis of ancient dental calculus reveals unexplored diversity of oral archaeal Methanobrevibacter
por: Granehäll, Lena, et al.
Publicado: (2021)

On the Road to Strain-Resolved Comparative Metagenomics
por: Segata, Nicola
Publicado: (2018)

MetaPhlAn 4 profiling of unknown species-level genome bins improves the characterization of diet-associated microbiome changes in mice
por: Manghi, Paolo, et al.
Publicado: (2023)

The Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations
por: Tett, Adrian, et al.
Publicado: (2019)

Genes Encoding Microbial Acyl Coenzyme A Binding Protein/Diazepam-Binding Inhibitor Orthologs Are Rare in the Human Gut Microbiome and Show No Links to Obesity
por: Thomas, Andrew Maltez, et al.
Publicado: (2021)

Metagenomic microbial community profiling using unique clade-specific marker genes
por: Segata, Nicola, et al.
Publicado: (2012)

Maternal and food microbial sources shape the infant microbiome of a rural Ethiopian population
por: Manara, Serena, et al.
Publicado: (2023)

Whole-genome epidemiology, characterisation, and phylogenetic reconstruction of Staphylococcus aureus strains in a paediatric hospital
por: Manara, Serena, et al.
Publicado: (2018)

Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome
por: Ferretti, Pamela, et al.
Publicado: (2018)

Draft Genome Sequence of Neopoerus faecalis gen. nov., sp. nov., an Oscillospiraceae Strain Isolated from Human Feces
por: Selma-Royo, Marta, et al.
Publicado: (2023)

Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly
por: Karcher, Nicolai, et al.
Publicado: (2021)

Draft genome sequence of a representative strain of the Catenibacterium genus isolated from human feces
por: Ricci, Liviana, et al.
Publicado: (2023)

The Airborne Metagenome in an Indoor Urban Environment
por: Tringe, Susannah G., et al.
Publicado: (2008)

Compact graphical representation of phylogenetic data and metadata with GraPhlAn
por: Asnicar, Francesco, et al.
Publicado: (2015)

ConStrains identifies microbial strains in metagenomic datasets
por: Luo, Chengwei, et al.
Publicado: (2015)

Metagenomic Analysis of the Airborne Environment in Urban Spaces
por: Be, Nicholas A., et al.
Publicado: (2014)

Marine Microbial Metagenomics: From Individual to the Environment
por: Tseng, Ching-Hung, et al.
Publicado: (2014)

Core Microbial Functional Activities in Ocean Environments Revealed by Global Metagenomic Profiling Analyses
por: Ferreira, Ari J. S., et al.
Publicado: (2014)

Species-level functional profiling of metagenomes and metatranscriptomes
por: Franzosa, Eric A., et al.
Publicado: (2018)

Large-Scale Phylogenomics of the Lactobacillus casei Group Highlights Taxonomic Inconsistencies and Reveals Novel Clade-Associated Features
por: Wuyts, Sander, et al.
Publicado: (2017)

Reduced metagenome sequencing for strain-resolution taxonomic profiles
por: Snipen, Lars, et al.
Publicado: (2021)

Cannot write session to /tmp/vufind_sessions/sess_ojdr2d14clcl0rst83e965ud6g