(Q47154055)

9 January 2018

title

Increased Biosynthetic Gene Dosage in a Genome-Reduced Defensive Bacterial Symbiont. (English)

1 reference

9 January 2018

Jason C Kwan

4

0 references

Kerry L. McPhail

series ordinal

3

object named as

Kerry L McPhail

1 reference

9 January 2018

author name string

Juan Lopera

series ordinal

1

1 reference

9 January 2018

Ian J Miller

series ordinal

2

1 reference

9 January 2018

publication date

21 November 2017

1 reference

9 January 2018

published in

mSystems

1 reference

9 January 2018

volume

2

1 reference

9 January 2018

issue

6

1 reference

9 January 2018

describes a project that uses

Cytoscape

object named as

Cytoscape

2 references

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

ggplot2

object named as

ggplot2

2 references

10 June 2022

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=5698493

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

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Total Synthesis of (-)-Mandelalide A Exploiting Anion Relay Chemistry (ARC): Identification of a Type II ARC/CuCN Cross-Coupling Protocol

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Enantioselective Total Synthesis of Mandelalide A and Isomandelalide A: Discovery of a Cytotoxic Ring-Expanded Isomer

23 May 2018

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23 May 2018

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Comparative Genomics of a Plant-Parasitic Nematode Endosymbiont Suggest a Role in Nutritional Symbiosis

23 May 2018

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Total Synthesis, Stereochemical Revision, and Biological Reassessment of Mandelalide A: Chemical Mimicry of Intrafamily Relationships

23 May 2018

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23 May 2018

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

23 May 2018

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Fast and sensitive protein alignment using DIAMOND

23 May 2018

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Rfam 12.0: updates to the RNA families database

23 May 2018

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

23 May 2018

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Host control of symbiont natural product chemistry in cryptic populations of the tunicate Lissoclinum patella

23 May 2018

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23 May 2018

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Prokka: rapid prokaryotic genome annotation

23 May 2018

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Bacterial genome instability

23 May 2018

1 reference

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Intranuclear verrucomicrobial symbionts and evidence of lateral gene transfer to the host protist in the termite gut.

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

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

23 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Ribosomal Database Project: data and tools for high throughput rRNA analysis

23 May 2018

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A conserved motif flags acyl carrier proteins for β-branching in polyketide synthesis

23 May 2018

1 reference

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Insights into the phylogeny and coding potential of microbial dark matter

23 May 2018

1 reference

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Defensive bacteriome symbiont with a drastically reduced genome.

23 May 2018

1 reference

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

23 May 2018

1 reference

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Comparative genome analysis of Spiroplasma melliferum IPMB4A, a honeybee-associated bacterium.

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Genome streamlining and chemical defense in a coral reef symbiosis.

23 May 2018

1 reference

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A novel human-infection-derived bacterium provides insights into the evolutionary origins of mutualistic insect-bacterial symbioses

23 May 2018

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EcoCyc: fusing model organism databases with systems biology

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

The emerging role of human esterases

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Mandelalides A-D, cytotoxic macrolides from a new Lissoclinum species of South African tunicate

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Active site binding and catalytic role of bicarbonate in 1,4-dihydroxy-2-naphthoyl coenzyme A synthases from vitamin K biosynthetic pathways

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

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

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Microbes inside--from diversity to function: the case of Akkermansia

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Fast gapped-read alignment with Bowtie 2

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Amino acids biosynthesis and nitrogen assimilation pathways: a great genomic deletion during eukaryotes evolution

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2.

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Complex microbiome underlying secondary and primary metabolism in the tunicate-Prochloron symbiosis

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Duplication of partial spinosyn biosynthetic gene cluster in Saccharopolyspora spinosa enhances spinosyn production

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Extreme genome reduction in symbiotic bacteria

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

A system for the targeted amplification of bacterial gene clusters multiplies antibiotic yield in Streptomyces coelicolor

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Integrative analysis of environmental sequences using MEGAN4

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Biosynthesis of polyketides by trans-AT polyketide synthases

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

FastTree 2--approximately maximum-likelihood trees for large alignments

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Gene amplification and adaptive evolution in bacteria.

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

The biosynthetic logic of polyketide diversity

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Spontaneous amplification of the actinorhodin gene cluster in Streptomyces coelicolor involving native insertion sequence IS466

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Clustal W and Clustal X version 2.0

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

A tylosin ketoreductase reveals how chirality is determined in polyketides

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

KAAS: an automatic genome annotation and pathway reconstruction server

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Amplification of the entire kanamycin biosynthetic gene cluster during empirical strain improvement of Streptomyces kanamyceticus

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Convergence of isoprene and polyketide biosynthetic machinery: isoprenyl-S-carrier proteins in the pksX pathway of Bacillus subtilis

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Massive genome erosion and functional adaptations provide insights into the symbiotic lifestyle of Sodalis glossinidius in the tsetse host

23 May 2018

1 reference

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Chromosomal stasis versus plasmid plasticity in aphid endosymbiont Buchnera aphidicola.

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

THE STRUCTURAL BIOLOGY OF TYPE II FATTY ACID BIOSYNTHESIS

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Recognizing the pseudogenes in bacterial genomes

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Versatile and open software for comparing large genomes

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Cytoscape: a software environment for integrated models of biomolecular interaction networks

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

A genomic perspective on nutrient provisioning by bacterial symbionts of insects

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

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

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

50 Million Years of Genomic Stasis in Endosymbiotic Bacteria

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Opitutus terrae gen. nov., sp. nov., to accommodate novel strains of the division 'Verrucomicrobia' isolated from rice paddy soil

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Plasmid-encoded anthranilate synthase (TrpEG) in Buchnera aphidicola from aphids of the family pemphigidae

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Post-translational modification of polyketide and nonribosomal peptide synthases

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

A new enzyme superfamily - the phosphopantetheinyl transferases

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Selfish operons: horizontal transfer may drive the evolution of gene clusters

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Accelerated evolution and Muller's rachet in endosymbiotic bacteria

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Biochemistry of homologous recombination in Escherichia coli

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Why are secondary metabolites (natural products) biosynthesized?

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Winding paths to simplicity: genome evolution in facultative insect symbionts

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

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

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Total synthesis and stereochemical reassignment of mandelalide A.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

An enzymatic domain for the formation of cyclic ethers in complex polyketides

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

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

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Construction of a bacterial artificial chromosome library for a myxobacterium of the genus Cystobacter and characterization of an antibiotic biosynthetic gene cluster

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Cyclization mechanism for the synthesis of macrocyclic antibiotic lankacidin in Streptomyces rochei

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5698493

Hypervariability of Ascidian Mitochondrial Gene Order: Exposing the Myth of Deuterostome Organelle Genome Stability

15 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1128%2FMSYSTEMS.00096-17

Enacyloxins Are Products of an Unusual Hybrid Modular Polyketide Synthase Encoded by a Cryptic Burkholderia ambifaria Genomic Island

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1128%2FMSYSTEMS.00096-17

Substrate specificity in ketosynthase domains from trans-AT polyketide synthases

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29181447

12 December 2020

inferred from PubMed ID database lookup

Catalysis-based total synthesis of putative mandelalide A

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29181447

12 December 2020

inferred from PubMed ID database lookup

Discovery of Mandelalide E and Determinants of Cytotoxicity for the Mandelalide Series

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29181447

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1128/MSYSTEMS.00096-17

1 reference

9 January 2018

PMCID

5698493

1 reference

9 January 2018

PubMed ID

29181447

1 reference

9 January 2018