Interpreting Microbial Biosynthesis in the Genomic Age: Biological and Practical Considerations (Q33833366)

29 July 2017

2 references

2 November 2019

2 September 2020

Interpreting Microbial Biosynthesis in the Genomic Age: Biological and Practical Considerations (English)

1 reference

29 July 2017

1 reference

2 November 2019

1 reference

2 September 2020

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28587290%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

Jason C Kwan

series ordinal

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28587290%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

author name string

Ian J Miller

series ordinal

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28587290%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

language of work or name

1 reference

6 June 2017

3 references

29 July 2017

2 November 2019

2 September 2020

3 references

2 November 2019

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28587290%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

2 September 2020

15

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28587290%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

issue

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28587290%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution

13 June 2020

copyright license

2 references

2 November 2019

2 September 2020

0 references

antiSMASH 4.0-improvements in chemistry prediction and gene cluster boundary identification

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

metaSPAdes: a new versatile metagenomic assembler

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Scaffolding bacterial genomes and probing host-virus interactions in gut microbiome by proximity ligation (chromosome capture) assay

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Discovery of Reactive Microbiota-Derived Metabolites that Inhibit Host Proteases

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

From Genomes to Phenotypes: Traitar, the Microbial Trait Analyzer

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Bioinformatics strategies for taxonomy independent binning and visualization of sequences in shotgun metagenomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Biology and evolution of arbuscular mycorrhizal symbiosis in the light of genomics.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Single sample resolution of rare microbial dark matter in a marine invertebrate metagenome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Evolution and Ecology of Actinobacteria and Their Bioenergy Applications.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Lack of Overt Genome Reduction in the Bryostatin-Producing Bryozoan Symbiont "Candidatus Endobugula sertula".

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Phylogenomic Analysis of Natural Products Biosynthetic Gene Clusters Allows Discovery of Arseno-Organic Metabolites in Model Streptomycetes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

COCACOLA: binning metagenomic contigs using sequence COmposition, read CoverAge, CO-alignment and paired-end read LinkAge

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Coming of age: ten years of next-generation sequencing technologies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Improved metagenome assemblies and taxonomic binning using long-read circular consensus sequence data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Culturing of 'unculturable' human microbiota reveals novel taxa and extensive sporulation.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Inhibitory interactions promote frequent bistability among competing bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Biosynthesis of therapeutic natural products using synthetic biology

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Accurate binning of metagenomic contigs via automated clustering sequences using information of genomic signatures and marker genes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Metagenomic Chromosome Conformation Capture (3C): techniques, applications, and challenges

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Recovering complete and draft population genomes from metagenome datasets

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Synthetic biology to access and expand nature's chemical diversity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Single-cell genome sequencing: current state of the science

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

The Road to Metagenomics: From Microbiology to DNA Sequencing Technologies and Bioinformatics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Biosynthesis of polyketides by trans-AT polyketide synthases

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

MetaQUAST: evaluation of metagenome assemblies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Identification of Thiotetronic Acid Antibiotic Biosynthetic Pathways by Target-directed Genome Mining

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Variable genetic architectures produce virtually identical molecules in bacterial symbionts of fungus-growing ants

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Leveraging ecological theory to guide natural product discovery

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Detection of low-abundance bacterial strains in metagenomic datasets by eigengenome partitioning

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Isolation of Genetically Tractable Most-Wanted Bacteria by Metaparental Mating

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Functional metagenomic discovery of bacterial effectors in the human microbiome and isolation of commendamide, a GPCR G2A/132 agonist

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

From cultured to uncultured genome sequences: metagenomics and modeling microbial ecosystems

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Considerations of the chemical biology of microbial natural products provide an effective drug discovery strategy

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Unusual biology across a group comprising more than 15% of domain Bacteria.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

De novo meta-assembly of ultra-deep sequencing data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

When less is more: 'slicing' sequencing data improves read decoding accuracy and de novo assembly quality

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Counteraction of antibiotic production and degradation stabilizes microbial communities

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Contact genomics: scaffolding and phasing (meta)genomes using chromosome 3D physical signatures

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Fungal artificial chromosomes for mining of the fungal secondary metabolome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Defensive symbioses of animals with prokaryotic and eukaryotic microorganisms.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Targeted metagenomics: finding rare tryptophan dimer natural products in the environment

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Reconstructing genome-scale metabolic models with merlin

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

An event-driven approach for studying gene block evolution in bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Heritable symbiosis: The advantages and perils of an evolutionary rabbit hole

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Accurate, multi-kb reads resolve complex populations and detect rare microorganisms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

MBBC: an efficient approach for metagenomic binning based on clustering

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Targeted natural products discovery from marine cyanobacteria using combined phylogenetic and mass spectrometric evaluation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

VizBin - an application for reference-independent visualization and human-augmented binning of metagenomic data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

A new antibiotic kills pathogens without detectable resistance

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Metagenomic chromosome conformation capture (meta3C) unveils the diversity of chromosome organization in microorganisms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

MinION nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

A systematic computational analysis of biosynthetic gene cluster evolution: lessons for engineering biosynthesis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Functional optimization of gene clusters by combinatorial design and assembly

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Phylum-wide comparative genomics unravel the diversity of secondary metabolism in Cyanobacteria.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

GroopM: an automated tool for the recovery of population genomes from related metagenomes.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Latitudinal variation of a defensive symbiosis in the Bugula neritina (Bryozoa) sibling species complex

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

A roadmap for natural product discovery based on large-scale genomics and metabolomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

A systematic analysis of biosynthetic gene clusters in the human microbiome reveals a common family of antibiotics.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Genomic characterization of three unique Dehalococcoides that respire on persistent polychlorinated biphenyls

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

The expression of antibiotic resistance genes in antibiotic-producing bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Species-level deconvolution of metagenome assemblies with Hi-C-based contact probability maps

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Arixanthomycins A-C: Phylogeny-guided discovery of biologically active eDNA-derived pentangular polyphenols

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Alignment-free visualization of metagenomic data by nonlinear dimension reduction.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Recognition sequences and substrate evolution in cyanobactin biosynthesis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Diversity and evolution of secondary metabolism in the marine actinomycete genus Salinispora

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

MetaCluster-TA: taxonomic annotation for metagenomic data based on assembly-assisted binning

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Bacterial symbionts in agricultural systems provide a strategic source for antibiotic discovery

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Metagenomic natural product discovery in lichen provides evidence for a family of biosynthetic pathways in diverse symbioses.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Defensive bacteriome symbiont with a drastically reduced genome.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Mapping gene clusters within arrayed metagenomic libraries to expand the structural diversity of biomedically relevant natural products

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Primary endosymbiosis events date to the later Proterozoic with cross-calibrated phylogenetic dating of duplicated ATPase proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

REAPR: a universal tool for genome assembly evaluation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Ribosomally synthesized and post-translationally modified peptide natural products: new insights into the role of leader and core peptides during biosynthesis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

QUAST: quality assessment tool for genome assemblies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

The binning of metagenomic contigs for microbial physiology of mixed cultures

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

PBSIM: PacBio reads simulator--toward accurate genome assembly

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

MetaCluster 5.0: a two-round binning approach for metagenomic data for low-abundance species in a noisy sample

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

A hybrid approach for the automated finishing of bacterial genomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Growing unculturable bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Metagenomics - a guide from sampling to data analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Polyketide proofreading by an acyltransferase-like enzyme

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Unsupervised discovery of microbial population structure within metagenomes using nucleotide base composition

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

How to apply de Bruijn graphs to genome assembly

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Extreme genome reduction in symbiotic bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Meta-omic characterization of the marine invertebrate microbial consortium that produces the chemotherapeutic natural product ET-743

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Long-chain N-acyl amino acid synthases are linked to the putative PEP-CTERM/exosortase protein-sorting system in Gram-negative bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Geographic distribution of secondary metabolite genes in the marine actinomycete Salinispora arenicola

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Isolation of Succinivibrionaceae implicated in low methane emissions from Tammar wallabies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Approaches to capturing and designing biologically active small molecules produced by uncultured microbes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Targeted metagenomics: a high-resolution metagenomics approach for specific gene clusters in complex microbial communities

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Environments that induce synthetic microbial ecosystems

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Digital MDA for enumeration of total nucleic acid contamination

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Clustering metagenomic sequences with interpolated Markov models

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

SPHINX--an algorithm for taxonomic binning of metagenomic sequences.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Single-cell genomics reveals the lifestyle of Poribacteria, a candidate phylum symbiotically associated with marine sponges

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Biosynthesis of polyketides by trans-AT polyketide synthases

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Marine metagenomics: new tools for the study and exploitation of marine microbial metabolism.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Nonribosomal peptide synthetases: structures and dynamics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Evolution of metabolic diversity: insights from microbial polyketide synthases

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

The natural history of antibiotics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

The biosynthetic logic of polyketide diversity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Polyketide assembly lines of uncultivated sponge symbionts from structure-based gene targeting

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Host cell-free growth of the Q fever bacterium Coxiella burnetii

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Metabolites from symbiotic bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Comparative genomics: the bacterial pan-genome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Recombination and selectional forces in cyanopeptolin NRPS operons from highly similar, but geographically remote Planktothrix strains

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Evolutionary relationships of "Candidatus endobugula" bacterial symbionts and their Bugula bryozoan hosts

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Genome sequencing reveals complex secondary metabolome in the marine actinomycete Salinispora tropica

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Identification of the putative bryostatin polyketide synthase gene cluster from "Candidatus Endobugula sertula", the uncultivated microbial symbiont of the marine bryozoan Bugula neritina

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Natural biocombinatorics in the polyketide synthase genes of the actinobacterium Streptomyces avermitilis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Genome-directed isolation of the key nitrogen fixer Leptospirillum ferrodiazotrophum sp. nov. from an acidophilic microbial community

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

28 July 2018

The microbial pan-genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

SEARCHGTr: a program for analysis of glycosyltransferases involved in glycosylation of secondary metabolites

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Patellamide A and C biosynthesis by a microcin-like pathway in Prochloron didemni, the cyanobacterial symbiont of Lissoclinum patella

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Application of tetranucleotide frequencies for the assignment of genomic fragments

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Evidence for a symbiosis island involved in horizontal acquisition of pederin biosynthetic capabilities by the bacterial symbiont of Paederus fuscipes beetles

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

A polyketide synthase-peptide synthetase gene cluster from an uncultured bacterial symbiont of Paederus beetles

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

50 Million Years of Genomic Stasis in Endosymbiotic Bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Polyketide biosynthesis: a millennium review

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Cloning and heterologous expression of a natural product biosynthetic gene cluster from eDNA.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Twenty years of bacterial genome sequencing.

28 July 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Engineering a Polyketide Synthase for In Vitro Production of Adipic Acid.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Engineering terpene biosynthesis in Streptomyces for production of the advanced biofuel precursor bisabolene.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Direct cloning and refactoring of a silent lipopeptide biosynthetic gene cluster yields the antibiotic taromycin A.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Bacterial endosymbiosis in a chordate host: long-term co-evolution and conservation of secondary metabolism

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Insights from the metagenome of an acid salt lake: the role of biology in an extreme depositional environment

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Evolutionary dynamics of modular polyketide synthases, with implications for protein design and engineering.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Phylogenetic analysis of condensation domains in NRPS sheds light on their functional evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Mining the microbial dark matter

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Insights into the phylogeny and coding potential of microbial dark matter

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

High-resolution metagenomics

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Metagenome mining reveals polytheonamides as posttranslationally modified ribosomal peptides

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Identification and analysis of the bacterial endosymbiont specialized for production of the chemotherapeutic natural product ET-743.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Genome streamlining and chemical defense in a coral reef symbiosis.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Unprecedented diversity of catalytic domains in the first four modules of the putative pederin polyketide synthase

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Antitumor polyketide biosynthesis by an uncultivated bacterial symbiont of the marine sponge Theonella swinhoei

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Antimicrobials Inspired by Nonribosomal Peptide Synthetase Gene Clusters.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Natural Product Discovery through Improved Functional Metagenomics in Streptomyces

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Novel natural products from soil DNA libraries in a streptomycete host

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

The biosynthetic gene cluster of the maytansinoid antitumor agent ansamitocin from Actinosynnema pretiosum

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Bryostatins: biological context and biotechnological prospects.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

bryA: an unusual modular polyketide synthase gene from the uncultivated bacterial symbiont of the marine bryozoan Bugula neritina

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Single-cell genomic sequencing using Multiple Displacement Amplification

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Binning metagenomic contigs by coverage and composition

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Community-wide analysis of microbial genome sequence signatures

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

4-[2-(2-amino-2-oxoethyl)-2,7-dihydroxy-4-oxochroman-5-yl]-3-hydroxybut-2-enoic acid

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Computational approach for prediction of domain organization and substrate specificity of modular polyketide synthases

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Analysis of the sorangicin gene cluster reinforces the utility of a combined phylogenetic/retrobiosynthetic analysis for deciphering natural product assembly by trans-AT PKS.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Localization of 'Candidatus Endobugula sertula' and the bryostatins throughout the life cycle of the bryozoan Bugula neritina

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

A sea of biosynthesis: marine natural products meet the molecular age.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Total synthesis and stereochemical reassignment of mandelalide A.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

ART: a next-generation sequencing read simulator.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Emerging concepts promising new horizons for marine biodiscovery and synthetic biology

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Metagenomic approaches for exploiting uncultivated bacteria as a resource for novel biosynthetic enzymology.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

An environmental bacterial taxon with a large and distinct metabolic repertoire

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

De novo genome assembly: what every biologist should know

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Critical Assessment of Metagenome Interpretation − a benchmark of computational metagenomics software

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

Minimum Information about a Biosynthetic Gene cluster.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FMD15060165

SANDPUMA: Ensemble Predictions of Nonribosomal Peptide Chemistry Reveals Biosynthetic Diversity across Actinobacteria

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Predictive, structure-based model of amino acid recognition by nonribosomal peptide synthetase adenylation domains

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5484115

Stereochemical Determination of Acyclic Structures Based on Carbon-Proton Spin-Coupling Constants. A Method of Configuration Analysis for Natural Products

29 October 2018

1 reference

12 December 2020

HETEROGENEITY OF DNA IN DENSITY AND BASE COMPOSITION

1 reference

12 December 2020

Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software.

1 reference

12 December 2020

Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy

1 reference

12 December 2020

Identifiers

DOI

10.3390/MD15060165

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28587290%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28587290%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

1 reference