PLoS computational biology

microbiome

[1] A multi-source domain annotation pipeline for quantitative metagenomic and metatranscriptomic functional profiling.

[2] Phylogeny-corrected identification of microbial gene families relevant to human gut colonization.

[3] metaboot: a machine learning framework of taxonomical biomarker discovery for different microbial communities based on metagenomic data

[4] Microbe-mediated stress resistance in plants: the roles played by core and stress-specific microbiota.

[5] SqueezeMeta, A Highly Portable, Fully Automatic Metagenomic Analysis Pipeline.

[6] Metagenomic insights into the changes in microbial community and antimicrobial resistance genes associated with different salt content of red pepper (Capsicum annuum L.) sauce

[7] Metagenomic analysis reveals a rich bacterial content in high-risk prostate tumors from African men.

[8] Harnessed viruses in the age of metagenomics and synthetic biology: an update on infectious clone assembly and biotechnologies of plant viruses

[9] A Metagenomics Study on Hirschsprung's Disease Associated Enterocolitis: Biodiversity and Gut Microbial Homeostasis Depend on Resection Length and Patient's Clinical History.

[10] Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics.

[11] Erratum: Gut Microbiome-Based Metagenomic Signature for Non-invasive Detection of Advanced Fibrosis in Human Nonalcoholic Fatty Liver Disease (Cell Metabolism (2017) 25(5) (1054–1062.e5), (S1550413117302061), (10.1016/j.cmet.2017.04.001))

[12] Quasi-metagenomic Analysis of Salmonella from Food and Environmental Samples.

[13] Bacterial contributions to delignification and lignocellulose degradation in forest soils with metagenomic and quantitative stable isotope probing.

[14] A multi-source domain annotation pipeline for quantitative metagenomic and metatranscriptomic functional profiling.

[15] Multiple comparative metagenomics using multiset k-mer counting

[16] Structural insights of microbial community of Deulajhari (India) hot spring using 16s-rRNA based metagenomic sequencing

[17] Metagenomic analysis of a Southern Maritime Antarctic soil

[18] Remote sensing, isotopic composition and metagenomics analyses revealed Doce River ore plume reached the southern Abrolhos Bank Reefs

[19] Metagenomic signatures of gut infection caused by different pathotypes.

[20] Erratum: Effects of the peer metagenomic environment on smoking behavior (Proceedings of the National Academy of Sciences of the United States of America (2019) 116 (16302–16307) DOI: 10.1073/pnas.1806901116)

[21] Effects of the peer metagenomic environment on smoking behavior

[22] Changes in gut microbial metagenomic pathways associated with clinical outcomes after the elimination of malabsorbed sugars in an IBS cohort.

[23] Metagenomic data of free cyanide and thiocyanate degrading bacterial communities

[24] Metagenomics-Based, Strain-Level Analysis of Escherichia coli From a Time-Series of Microbiome Samples From a Crohn's Disease Patient

[25] Metagenomic Analysis of the Effect of Enteromorpha prolifera Bloom on Microbial Community and Function in Aquaculture Environment.

[26] Impacts of florfenicol on the microbiota landscape and resistome as revealed by metagenomic analysis.

[27] Functional metagenomic exploration identifies novel prokaryotic copper resistance genes from the soil microbiome.

[28] Metagenomic Sequences of Three Drinking Water and Two Shower Hose Biofilm Samples Treated with or without Copper-Silver Ionization.

[29] A Metagenomic Analysis of Environmental and Clinical Samples Using a Secure Hybrid Cloud Solution.

[30] Metagenomic analysis reveals enhanced nutrients removal from low C/N municipal wastewater in a pilot-scale modified AAO system coupling electrolysis.

[31] Insights on bio-degumming of kenaf bast based on metagenomic and proteomics.

[32] Microbial composition of Kombucha determined using amplicon sequencing and shotgun metagenomics.

[33] Metagenomic Sequencing Identifies Highly Diverse Assemblages of Dinoflagellate Cysts in Sediments from Ships' Ballast Tanks.

[34] Correction to: Genome-resolved metagenomics of sugarcane vinasse bacteria (Biotechnology for Biofuels (2018) 11 (48) DOI: 10.1186/s13068-018-1036-9)

[35] Shotgun Metagenomics Of Dust Microbiome From Flight Deck And Cabin In Civil Aviation Aircraft.

[36] Bioinformatics tools for marine biotechnology: a practical tutorial with a metagenomic approach.

[37] Metagenomic Analysis of Microdissected Valvular Tissue for Etiological Diagnosis of Blood Culture–Negative Endocarditis

[38] Metagenomic microbial community profiling using unique clade-specific marker genes

[39] Metagenomic microbial community profiling using unique clade-specific marker genes

[40] Identification of Prevotella, Anaerotruncus and Eubacterium Genera by Machine Learning Analysis of Metagenomic Profiles for Stratification of Patients Affected by Type I Diabetes

[41] metagenomics reveals pervasive bacterial populations and reduced community diversity across the alaska tundra ecosystem

[42] metagenomic profiles of antibiotic resistance genes in activated sludge, dewatered sludge and bioaerosols

[43] metaboot: a machine learning framework of taxonomical biomarker discovery for different microbial communities based on metagenomic data

[44] temporal metagenomic and metabolomic characterisation of fresh perennial ryegrass degradation by rumen bacteria

[45] anthropogenic n deposition slows decay by favoring bacterial metabolism: insights from metagenomic analyses

[46] riboframe: an improved method for microbial taxonomy profiling from non-targeted metagenomics

[47] functional metagenomic investigations of the human intestinal microbiota

[48] overview of metagenomics for marine biodiversity research

[49] metagenomic analysis of antibiotic-induced changes in gut microbiota in a pregnant rat model

[50] vector-enabled metagenomic (vem) surveys using whiteflies (aleyrodidae) reveal novel begomovirus species in the new and oldworlds

[51] metagenomic analysis of the medicinal leech gut microbiota

[52] DATMA: Distributed AuTomatic Metagenomic Assembly and annotation framework.

[53] validation of picogram- and femtogram-input dna libraries for microscale metagenomics

[54] an improved methodology to overcome key issues in human fecal metagenomic dna extraction

[55] viral metagenomics: analysis of begomoviruses by illumina high-throughput sequencing

[56] the green impact: bacterioplankton response towards a phytoplankton spring bloom in the southern north sea assessed by comparative metagenomic and metatranscriptomic approaches

[57] editorial: virus discovery by metagenomics: the (im)possibilities

[58] bioreactor virome metagenomics sequencing using dna spike-ins

[59] insights into microalga and bacteria interactions of selected phycosphere biofilms using metagenomic, transcriptomic, and proteomic approaches

[60] in vitro and in silico characterization of metagenomic soil-derived cellulases capable of hydrolyzing oil palm empty fruit bunch

[61] evaluation of five in situ lysis protocols for pcr amenable metagenomic dna from mangrove soils

[62] analysis of metagenomics next generation sequence data for fungal its barcoding: do you need advance bioinformatics experience?

[63] studying vertical microbiome transmission from mothers to infants by strain-level metagenomic profiling

[64] meta4: a web-application for sharing and annotating metagenomic gene predictions using web-services

[65] metagenomic analysis of orange colored protrusions from the muscle of queen conch lobatus gigas (linnaeus, 1758)

[66] functional screening of antibiotic resistance genes from a representative metagenomic library of food fermenting microbiota

[67] low maternal microbiota sharing across gut, breast milk and vagina, as revealed by 16s rrna gene and reduced metagenomic sequencing

[68] seeing the forest for the genes: using metagenomics to infer the aggregated traits of microbial communities

[69] new bacterial phytase through metagenomic prospection

[70] data management in metagenomics: a risk management approach

[71] identifying contamination with advanced visualization and analysis practices: metagenomic approaches for eukaryotic genome assemblies

[72] natural history bycatch: a pipeline for identifying metagenomic sequences in radseq data

[73] physiological and metagenomic analyses of microbial mats involved in self-purification of mine waters contaminated with heavy metals

[74] Identification of Prosthetic Joint Infection Pathogens Using a Shotgun Metagenomics Approach

[75] Pulmonary Metagenomic Sequencing Suggests Missed Infections in Immunocompromised Children

[76] Hit or miss - A metagenomic evaluation of intra-bone variability of host pathogen load in tuberculosis-infected human remains.