(Q110829597)

https://api.crossref.org/v1/works/http://dx.doi.org/10.1039/D1NP00013F

6 February 2022

title

The confluence of big data and evolutionary genome mining for the discovery of natural products (English)

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6 February 2022

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6 February 2022

Shrikant S Mantri

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6 February 2022

Nelly Selem-Mojica

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6 February 2022

Nadine Ziemert

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6 February 2022

Francisco Barona-Gómez

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6 February 2022

author name string

Athina Gavrilidou

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2

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6 February 2022

publication date

18 August 2021

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6 February 2022

published in

Natural Product Reports

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volume

38

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issue

11

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6 February 2022

page(s)

2024-2040

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Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking

6 February 2022

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Biogeography and Microscale Diversity Shape the Biosynthetic Potential of Fungus-growing Ant-associated Pseudonocardia

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

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Chloramphenicol Derivatives with Antibacterial Activity Identified by Functional Metagenomics

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A genomics perspective on natural product biosynthesis in plant pathogenic bacteria

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Soil Bacterial Diversity Is Associated with Human Population Density in Urban Greenspaces

6 February 2022

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Applied evolution: phylogeny-based approaches in natural products research

6 February 2022

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Transporter genes in biosynthetic gene clusters predict metabolite characteristics and siderophore activity

6 February 2022

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Comparative Genomics and Metabolomics Analyses of Clavulanic Acid-Producing Streptomyces Species Provides Insight Into Specialized Metabolism

6 February 2022

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plantiSMASH: automated identification, annotation and expression analysis of plant biosynthetic gene clusters

6 February 2022

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Comparative genomics reveals phylogenetic distribution patterns of secondary metabolites in Amycolatopsis species.

6 February 2022

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CASSIS and SMIPS: promoter-based prediction of secondary metabolite gene clusters in eukaryotic genomes

6 February 2022

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Putting the data before the algorithm in big data addressing personalized healthcare

6 February 2022

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TREND: a platform for exploring protein function in prokaryotes based on phylogenetic, domain architecture and gene neighborhood analyses

6 February 2022

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Contributions of ancestral inter-species recombination to the genetic diversity of extant Streptomyces lineages

6 February 2022

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AutoMLST: an automated web server for generating multi-locus species trees highlighting natural product potential

6 February 2022

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Cultivation and functional characterization of 79 planctomycetes uncovers their unique biology

6 February 2022

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Expansion of RiPP biosynthetic space through integration of pan-genomics and machine learning uncovers a novel class of lantibiotics

6 February 2022

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COCONUT online: Collection of Open Natural Products database

6 February 2022

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Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya

6 February 2022

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ActDES - a curated Actinobacterial Database for Evolutionary Studies

6 February 2022

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Natural products in soil microbe interactions and evolution.

6 February 2022

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

6 February 2022

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The evolutionary paths towards complexity: a metabolic perspective.

6 February 2022

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panX: pan-genome analysis and exploration.

6 February 2022

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Molecular evolution meets the genomics revolution

6 February 2022

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Microreact: visualizing and sharing data for genomic epidemiology and phylogeography

6 February 2022

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Discovery and Biosynthesis of the Antibiotic Bicyclomycin in Distantly Related Bacterial Classes.

6 February 2022

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Structure and function of the global topsoil microbiome

6 February 2022

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Happy birthday, Mr. Darwin. Introduction

6 February 2022

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

6 February 2022

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A computational framework to explore large-scale biosynthetic diversity

6 February 2022

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A global atlas of the dominant bacteria found in soil.

6 February 2022

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The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes

6 February 2022

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

6 February 2022

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Phylogenetic reconciliation reveals the natural history of glycopeptide antibiotic biosynthesis and resistance

6 February 2022

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Drivers of metabolic diversification: how dynamic genomic neighbourhoods generate new biosynthetic pathways in the Brassicaceae

6 February 2022

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

6 February 2022

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Type III Polyketide Synthases: Functional Classification and Phylogenomics.

6 February 2022

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Missense meanderings in sequence space: a biophysical view of protein evolution

6 February 2022

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Genomic characteristics and comparative genomics analysis of the endophytic fungus Sarocladium brachiariae

6 February 2022

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The architecture of metabolism maximizes biosynthetic diversity in the largest class of fungi

6 February 2022

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New developments in RiPP discovery, enzymology and engineering

6 February 2022

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Assessing the Efficiency of Cultivation Techniques To Recover Natural Product Biosynthetic Gene Populations from Sediment

6 February 2022

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Computational identification of co-evolving multi-gene modules in microbial biosynthetic gene clusters

6 February 2022

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EvoMining reveals the origin and fate of natural product biosynthetic enzymes

6 February 2022

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Genome mining of biosynthetic and chemotherapeutic gene clusters in Streptomyces bacteria

6 February 2022

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Competition among Nasal Bacteria Suggests a Role for Siderophore-Mediated Interactions in Shaping the Human Nasal Microbiota

6 February 2022

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Antibiotics from Gram-negative bacteria: a comprehensive overview and selected biosynthetic highlights.

6 February 2022

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6 February 2022

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An integrated view of protein evolution

6 February 2022

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Genetic drift, selection and the evolution of the mutation rate

6 February 2022

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Machine learning: supervised methods

6 February 2022

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The antimicrobial potential of Streptomyces from insect microbiomes

6 February 2022

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FlaGs and webFlaGs: discovering novel biology through the analysis of gene neighbourhood conservation

6 February 2022

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A Single Biosynthetic Gene Cluster Is Responsible for the Production of Bagremycin Antibiotics and Ferroverdin Iron Chelators

6 February 2022

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The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes

6 February 2022

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Sequencing rare marine actinomycete genomes reveals high density of unique natural product biosynthetic gene clusters.

6 February 2022

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Enzyme promiscuity: a mechanistic and evolutionary perspective

6 February 2022

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IMG-ABC v.5.0: an update to the IMG/Atlas of Biosynthetic Gene Clusters Knowledgebase

6 February 2022

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Detecting sequence homology at the gene cluster level with MultiGeneBlast

6 February 2022

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Richard Dickerson, Molecular Clocks, and Rates of Protein Evolution

6 February 2022

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The LOTUS Initiative for Open Natural Products Research: Knowledge Management through Wikidata

6 February 2022

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Comparative Genomics and Metabolomics in the Genus Nocardia

6 February 2022

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Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural products

6 February 2022

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Phylogenomics reveals convergent evolution of red-violet coloration in land plants and the origins of the anthocyanin biosynthetic pathway

6 February 2022

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ResFinder 4.0 for predictions of phenotypes from genotypes

6 February 2022

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

6 February 2022

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Bacterial Secondary Metabolite Biosynthetic Potential in Soil Varies with Phylum, Depth, and Vegetation Type

6 February 2022

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MIBiG 2.0: a repository for biosynthetic gene clusters of known function

6 February 2022

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Taxonomy, Physiology, and Natural Products of Actinobacteria

6 February 2022

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Oxidative Cyclization in Natural Product Biosynthesis

6 February 2022

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Phylogenomic analysis of UDP-dependent glycosyltransferases provides insights into the evolutionary landscape of glycosylation in plant metabolism

6 February 2022

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Cycad Coralloid Roots Contain Bacterial Communities Including Cyanobacteria and Caulobacter spp. That Encode Niche-Specific Biosynthetic Gene Clusters

6 February 2022

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Computational strategies for genome-based natural product discovery and engineering in fungi

6 February 2022

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Metabolite-Enzyme Coevolution: From Single Enzymes to Metabolic Pathways and Networks

6 February 2022

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A communal catalogue reveals Earth's multiscale microbial diversity

6 February 2022

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Lateral Gene Transfer Dynamics in the Ancient Bacterial Genus Streptomyces

6 February 2022

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Exploiting the mosaic structure of trans-acyltransferase polyketide synthases for natural product discovery and pathway dissection

6 February 2022

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Formation and diversification of a paradigm biosynthetic gene cluster in plants

6 February 2022

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Correlating chemical diversity with taxonomic distance for discovery of natural products in myxobacteria.

6 February 2022

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Evolutionary dynamics of natural product biosynthesis in bacteria

6 February 2022

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Statistical Perspectives on “Big Data”

6 February 2022

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Evolving biosynthetic tangos negotiate mechanistic landscapes

6 February 2022

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Natural Products and the Gene Cluster Revolution

6 February 2022

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The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters

6 February 2022

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Natural products--a simple model to explain chemical diversity

6 February 2022

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Basic local alignment search tool

6 February 2022

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Soil bacterial populations are shaped by recombination and gene-specific selection across a grassland meadow

6 February 2022

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ARTS 2.0: feature updates and expansion of the Antibiotic Resistant Target Seeker for comparative genome mining

6 February 2022

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GISMO--gene identification using a support vector machine for ORF classification

6 February 2022

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Evolution and Diversity of Assembly-Line Polyketide Synthases

6 February 2022

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Out of the Abyss: Genome and Metagenome Mining Reveals Unexpected Environmental Distribution of Abyssomicins

6 February 2022

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Drivers of genetic diversity in secondary metabolic gene clusters within a fungal species

6 February 2022

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Phylogenomics of 2,4-Diacetylphloroglucinol-Producing Pseudomonas and Novel Antiglycation Endophytes from Piper auritum

6 February 2022

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A New Phylogenomic Approach For Quantifying Horizontal Gene Transfer Trends in Prokaryotes

6 February 2022

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Nonribosomal Peptide Synthesis-Principles and Prospects

6 February 2022

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Biosynthetic gene clusters and the evolution of fungal chemodiversity

6 February 2022

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Phylogenomics reveals subfamilies of fungal nonribosomal peptide synthetases and their evolutionary relationships.

6 February 2022

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BiG-FAM: the biosynthetic gene cluster families database

6 February 2022

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Neutral evolution of cellular phenotypes

6 February 2022

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Inhibition of histone deacetylase 1 (HDAC1) and HDAC2 enhances CRISPR/Cas9 genome editing

6 February 2022

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Massive Gene Flux Drives Genome Diversity between Sympatric Streptomyces Conspecifics

6 February 2022

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StreptomeDB 2.0--an extended resource of natural products produced by streptomycetes

6 February 2022

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The convergence of bacterial natural products from evolutionarily distinct pathways

6 February 2022

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The Antibiotic Resistant Target Seeker (ARTS), an exploration engine for antibiotic cluster prioritization and novel drug target discovery

6 February 2022

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Mechanistic approaches to the study of evolution: the functional synthesis

6 February 2022

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Comparative genomics reveals complex natural product biosynthesis capacities and carbon metabolism across host-associated and free-living Aquimarina (Bacteroidetes, Flavobacteriaceae) species

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

The birth, evolution and death of metabolic gene clusters in fungi

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Local Adaptation of Bacterial Symbionts within a Geographic Mosaic of Antibiotic Coevolution

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Bacterial natural product biosynthetic domain composition in soil correlates with changes in latitude on a continent-wide scale.

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

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

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Re-annotation of the sequence > annotation: opportunities for the functional microbiologist

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Taxonomic and Metabolic Incongruence in the Ancient Genus Streptomyces

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Increasing Metagenomic Resolution of Microbiome Interactions Through Functional Phylogenomics and Bacterial Sub-Communities

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Antibiotic production in Streptomyces is organized by a division of labor through terminal genomic differentiation

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Natural Product Biosynthetic Diversity and Comparative Genomics of the Cyanobacteria

6 February 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Rhodococcus comparative genomics reveals a phylogenomic-dependent non-ribosomal peptide synthetase distribution: insights into biosynthetic gene cluster connection to an orphan metabolite

2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Dissecting Disease-Suppressive Rhizosphere Microbiomes by Functional Amplicon Sequencing and 10× Metagenomics

29 March 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

The genus as a model microorganism for bioactive natural product discovery

20 June 2022

1 reference

29 July 2022

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Evolution of combinatorial diversity in trans-acyltransferase polyketide synthase assembly lines across bacteria

1 reference

29 July 2022

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

A community resource for paired genomic and metabolomic data mining

1 reference

2 November 2022

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Evolution of a plant gene cluster in Solanaceae and emergence of metabolic diversity

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

Population Genomics Insights into Adaptive Evolution and Ecological Differentiation in Streptomycetes

13 December 2022

1 reference

https://opencitations.net/index/coci/api/v1/references/10.1039/D1NP00013F

BiG-SLiCE: A highly scalable tool maps the diversity of 1.2 million biosynthetic gene clusters

6 November 2023

1 reference

https://opencitations.net/index/api/v1/references/10.1039/D1NP00013F

https://api.crossref.org/v1/works/http://dx.doi.org/10.1039/D1NP00013F

12 April 2024

Identifiers

1 reference