Emerging Strategies and Integrated Systems Microbiology Technologies for Biodiscovery of Marine Bioactive Compounds

Marine natural products

(2014) John W. Blunt et al.   NATURAL PRODUCT REPORTS

Nitrilase Activity Screening on Structurally Diverse Substrates: Providing Biocatalytic Tools for Organic Synthesis

(2013) Carine Vergne-Vaxelaire et al.   ADVANCED SYNTHESIS & CATALYSIS

Chemical dereplication of marine actinomycetes by liquid chromatography–high resolution mass spectrometry profiling and statistical analysis

(2013) David Forner et al.   ANALYTICA CHIMICA ACTA

Multiplexing of Combinatorial Chemistry in Antimycin Biosynthesis: Expansion of Molecular Diversity and Utility

(2013) Yan Yan et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

The regulation and biosynthesis of antimycins

(2013) Ryan F Seipke et al.   Beilstein Journal of Organic Chemistry

Amylase enzyme fromBacillus subtilisS8-18: A potential desizing agent from the marine environment

(2013) Balu Jancy Kalpana et al.   BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY

Cloning and characterization of a novel cold-active glycoside hydrolase family 1 enzyme with β-glucosidase, β-fucosidase and β-galactosidase activities

(2013) Anna Wierzbicka-Woś et al.   BMC BIOTECHNOLOGY

Kinase Inhibitors of Marine Origin

(2013) Sandip B. Bharate et al.   CHEMICAL REVIEWS

A Cryptic Polyene Biosynthetic Gene Cluster in Streptomyces calvus Is Expressed upon Complementation with a Functional bldA Gene

(2013) Lindsay Kalan et al.   CHEMISTRY & BIOLOGY

Meta-omic characterization of prokaryotic gene clusters for natural product biosynthesis

(2013) Michael M Schofield et al.   CURRENT OPINION IN BIOTECHNOLOGY

PCR screening reveals considerable unexploited biosynthetic potential of ansamycins and a mysterious family of AHBA-containing natural products in actinomycetes

(2013) H.-X. Wang et al.   JOURNAL OF APPLIED MICROBIOLOGY

Microbial natural products: molecular blueprints for antitumor drugs

(2013) Lesley-Ann Giddings et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Heterologous expression of natural product biosynthetic gene clusters in Streptomyces coelicolor: from genome mining to manipulation of biosynthetic pathways

(2013) Juan Pablo Gomez-Escribano et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Identification of a marine NADPH-dependent aldehyde reductase for chemoselective reduction of aldehydes

(2013) Guangyue Li et al.   JOURNAL OF MOLECULAR CATALYSIS B-ENZYMATIC

Identification of Elaiophylin Derivatives from the Marine-Derived Actinomycete Streptomyces sp. 7-145 Using PCR-Based Screening

(2013) Chunyan Wu et al.   JOURNAL OF NATURAL PRODUCTS

Molecular Networking as a Dereplication Strategy

(2013) Jane Y. Yang et al.   JOURNAL OF NATURAL PRODUCTS

Proteogenomic Definition of Biomarkers for the Large Roseobacter Clade and Application for a Quick Screening of New Environmental Isolates

(2013) Joseph Alexander Christie-Oleza et al.   JOURNAL OF PROTEOME RESEARCH

Proteomics Guided Discovery of Flavopeptins: Anti-proliferative Aldehydes Synthesized by a Reductase Domain-Containing Non-ribosomal Peptide Synthetase

(2013) Yunqiu Chen et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Characterisation of an l-Haloacid Dehalogenase from the Marine Psychrophile Psychromonas ingrahamii with Potential Industrial Application

(2013) Halina R. Novak et al.   MARINE BIOTECHNOLOGY

Integrated Metagenomic and Metatranscriptomic Analyses of Microbial Communities in the Meso- and Bathypelagic Realm of North Pacific Ocean

(2013) Jieying Wu et al.   Marine Drugs

Diversity of Secondary Metabolites from Marine Bacillus Species: Chemistry and Biological Activity

(2013) Muhammad Mondol et al.   Marine Drugs

Subtilomycin: A New Lantibiotic from Bacillus subtilis Strain MMA7 Isolated from the Marine Sponge Haliclona simulans

(2013) Robert Phelan et al.   Marine Drugs

Biocatalytic retrosynthesis

(2013) Nicholas J Turner et al.   Nature Chemical Biology

Sustainable production of biologically active molecules of marine based origin

(2013) Patrick M. Murray et al.   New Biotechnology

IMG 4 version of the integrated microbial genomes comparative analysis system

(2013) Victor M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

antiSMASH 2.0—a versatile platform for genome mining of secondary metabolite producers

(2013) Kai Blin et al.   NUCLEIC ACIDS RESEARCH

BAGEL3: automated identification of genes encoding bacteriocins and (non-)bactericidal posttranslationally modified peptides

(2013) Auke J. van Heel et al.   NUCLEIC ACIDS RESEARCH

Proteogenomic Analysis of a Thermophilic Bacterial Consortium Adapted to Deconstruct Switchgrass

(2013) Patrik D'haeseleer et al.   PLoS One

Marine Sediment-Derived Streptomyces Bacteria from British Columbia, Canada Are a Promising Microbiota Resource for the Discovery of Antimicrobial Natural Products

(2013) Doralyn S. Dalisay et al.   PLoS One

Antimicrobial Activity of Heterotrophic Bacterial Communities from the Marine Sponge Erylus discophorus (Astrophorida, Geodiidae)

(2013) Ana Patrícia Graça et al.   PLoS One

Evidence of Unique and Generalist Microbes in Distantly Related Sympatric Intertidal Marine Sponges (Porifera: Demospongiae)

(2013) Anoop Alex et al.   PLoS One

Glycogenomics as a mass spectrometry-guided genome-mining method for microbial glycosylated molecules

(2013) R. D. Kersten et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bioactive polyhydroxylated sterols from the marine sponge Haliclona crassiloba

(2013) Zhong-Bin Cheng et al.   STEROIDS

Purification and characterization of a dehalogenase from Pseudomonas stutzeri DEH130 isolated from the marine sponge Hymeniacidon perlevis

(2013) Jinyou Zhang et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Detergent compatible alkaline lipase produced by marine Bacillus smithii BTMS 11

(2013) V. P. Lailaja et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Biosynthesis of natural products by microbial iterative hybrid PKS–NRPS

(2013) Katja Maria Fisch   RSC Advances

Culture-dependent and independent approaches for identifying novel halogenases encoded by Crambe crambe (marine sponge) microbiota

(2013) Başak Öztürk et al.   Scientific Reports

Metatranscriptomic and functional metagenomic analysis of methylphosphonate utilization by marine bacteria

(2013) Asunción Martínez et al.   Frontiers in Microbiology

Bias problems in culture-independent analysis of environmental bacterial communities: a representative study on hydrocarbonoclastic bacteria

(2013) Husain Al-Awadhi et al.   SpringerPlus

Characterization of a new oxidant-stable serine protease isolated by functional metagenomics

(2013) Sophie Biver et al.   SpringerPlus

Extracellular Production of Novel Halotolerant, Thermostable, and Alkali-Stable Carboxymethyl Cellulase by Marine Bacterium Marinimicrobium sp. LS-A18

(2012) Kun Zhao et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

Production of xylanase by an alkaline-tolerant marine-derived Streptomyces viridochromogenes strain and improvement by ribosome engineering

(2012) Zhuo Liu et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Indigenous hydrocarbon-utilizing bacterioflora in oil-polluted habitats in Kuwait, two decades after the greatest man-made oil spill

(2012) H. Al-Awadhi et al.   ARCHIVES OF MICROBIOLOGY

Synthetic biological approaches to natural product biosynthesis

(2012) Jaclyn M Winter et al.   CURRENT OPINION IN BIOTECHNOLOGY

Heterologous production of polyketides by modular type I polyketide synthases in Escherichia coli

(2012) Satoshi Yuzawa et al.   CURRENT OPINION IN BIOTECHNOLOGY

Combinatorial biosynthesis of polyketides—a perspective

(2012) Fong T Wong et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Integrated metagenomic and metaproteomic analyses of an ANME-1-dominated community in marine cold seep sediments

(2012) Runar Stokke et al.   ENVIRONMENTAL MICROBIOLOGY

Genomic sequence-based discovery of novel angucyclinone antibiotics from marine Streptomyces sp. W007

(2012) Hongyu Zhang et al.   FEMS MICROBIOLOGY LETTERS

A metaproteomic assessment of winter and summer bacterioplankton from Antarctic Peninsula coastal surface waters

(2012) Timothy J Williams et al.   ISME Journal

Growing Unculturable Bacteria

(2012) E. J. Stewart   JOURNAL OF BACTERIOLOGY

Marine Proteomics: A Critical Assessment of an Emerging Technology

(2012) Marc Slattery et al.   JOURNAL OF NATURAL PRODUCTS

Genomic Mining for Novel FADH2-Dependent Halogenases in Marine Sponge-Associated Microbial Consortia

(2012) Kristina Bayer et al.   MARINE BIOTECHNOLOGY

Assessment of the Bacteriocinogenic Potential of Marine Bacteria Reveals Lichenicidin Production by Seaweed-Derived Bacillus spp.

(2012) Maria Luz Prieto et al.   Marine Drugs

Antiviral Activities and Putative Identification of Compounds in Microbial Extracts from the Hawaiian Coastal Waters

(2012) Jing Tong et al.   Marine Drugs

Isolation identification and biochemical characterization of a novel halo-tolerant lipase from the metagenome of the marine sponge Haliclona simulans

(2012) Joseph Selvin et al.   Microbial Cell Factories

Culture-Dependent and Independent Studies of Microbial Diversity in Highly Copper-Contaminated Chilean Marine Sediments

(2012) Ludovic Besaury et al.   MICROBIAL ECOLOGY

Evidence of bacteriophage-mediated horizontal transfer of bacterial 16S rRNA genes in the viral metagenome of the marine sponge Hymeniacidon perlevis

(2012) C. Harrington et al.   MICROBIOLOGY-SGM

Next-generation sequencing technologies for environmental DNA research

(2012) SHADI SHOKRALLA et al.   MOLECULAR ECOLOGY

2-Deoxystreptamine-containing aminoglycoside antibiotics: Recent advances in the characterization and manipulation of their biosynthetic pathways

(2012) Sung Ryeol Park et al.   NATURAL PRODUCT REPORTS

Enhanced multiplex genome engineering through co-operative oligonucleotide co-selection

(2012) Peter A. Carr et al.   NUCLEIC ACIDS RESEARCH

Heterologous Production of 4-O-Demethylbarbamide, a Marine Cyanobacterial Natural Product

(2012) Eun Ji Kim et al.   ORGANIC LETTERS

Examining the Fish Microbiome: Vertebrate-Derived Bacteria as an Environmental Niche for the Discovery of Unique Marine Natural Products

(2012) Laura M. Sanchez et al.   PLoS One

Phylogenetic and Functional Metagenomic Profiling for Assessing Microbial Biodiversity in Environmental Monitoring

(2012) Veljo Kisand et al.   PLoS One

Informatic strategies for the discovery of polyketides and nonribosomal peptides

(2012) Chad Johnston et al.   MedChemComm

Synthetic Biology of Antimicrobial Discovery

(2012) Bijan Zakeri et al.   ACS Synthetic Biology

TREX: A Universal Tool for the Transfer and Expression of Biosynthetic Pathways in Bacteria

(2012) Anita Loeschcke et al.   ACS Synthetic Biology

Isolation and initial characterization of a novel type of Baeyer-Villiger monooxygenase activity from a marine microorganism

(2012) Andrew Willetts et al.   Microbial Biotechnology

Meta-omic Characterization of the Marine Invertebrate Microbial Consortium That Produces the Chemotherapeutic Natural Product ET-743

(2011) Christopher M. Rath et al.   ACS Chemical Biology

Systematics-guided bioprospecting for bioactive microbial natural products

(2011) Xueting Liu et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Genetic Screening Strategy for Rapid Access to Polyether Ionophore Producers and Products in Actinomycetes

(2011) Hao Wang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Molecular cloning and characterization of a new cold-active esterase from a deep-sea metagenomic library

(2011) Chengzhang Fu et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Identification of a new subfamily of salt-tolerant esterases from a metagenomic library of tidal flat sediment

(2011) Jeong Ho Jeon et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Identification and characterization of novel esterases from a deep-sea sediment metagenome

(2011) Xiawei Jiang et al.   ARCHIVES OF MICROBIOLOGY

Effective gene collection from the metatranscriptome of marine microorganisms

(2011) Atsushi Ogura et al.   BMC GENOMICS

Marine sponges and their microbial symbionts: love and other relationships

(2011) Nicole S. Webster et al.   ENVIRONMENTAL MICROBIOLOGY

Transcriptional responses of surface water marine microbial assemblages to deep-sea water amendment

(2011) Yanmei Shi et al.   ENVIRONMENTAL MICROBIOLOGY

A high-throughput screen to identify novel calcineurin inhibitors

(2011) Lekha Menon Margassery et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Proteomics-Based Discovery of Koranimine, a Cyclic Imine Natural Product

(2011) Bradley S. Evans et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Statistical Research on Marine Natural Products Based on Data Obtained between 1985 and 2008

(2011) Gu-Ping Hu et al.   Marine Drugs

Marine Biocatalysts: Enzymatic Features and Applications

(2011) Antonio Trincone   Marine Drugs

Marine natural products

(2011) John W. Blunt et al.   NATURAL PRODUCT REPORTS

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

(2011) Marnix H. Medema et al.   NUCLEIC ACIDS RESEARCH

Transcriptome Fingerprinting Analysis: An Approach to Explore Gene Expression Patterns in Marine Microbial Communities

(2011) Montserrat Coll-Lladó et al.   PLoS One

Culture-independent and -dependent methods to investigate the diversity of planktonic bacteria in the northern Bering Sea

(2011) Yinxin Zeng et al.   POLAR BIOLOGY

Functional analysis of environmental DNA-derived type II polyketide synthases reveals structurally diverse secondary metabolites

(2011) Z. Feng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Precise Manipulation of Chromosomes in Vivo Enables Genome-Wide Codon Replacement

(2011) Farren J. Isaacs et al.   SCIENCE

Cloning-Independent Expression and Analysis of  -Transaminases by Use of a Cell-Free Protein Synthesis System

(2010) Y.-C. Kwon et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Production of a New Thiopeptide Antibiotic, TP-1161, by a Marine Nocardiopsis Species

(2010) K. Engelhardt et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A bacterial laccase from marine microbial metagenome exhibiting chloride tolerance and dye decolorization ability

(2010) Zemin Fang et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

A nitrilase from a metagenomic library acts regioselectively on aliphatic dinitriles

(2010) Sally Bayer et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Engineered polyketide biosynthesis and biocatalysis in Escherichia coli

(2010) Xue Gao et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

BACTIBASE second release: a database and tool platform for bacteriocin characterization

(2010) Riadh Hammami et al.   BMC MICROBIOLOGY

Approaches for novel enzyme discovery from marine environments

(2010) Hyun Sook Lee et al.   CURRENT OPINION IN BIOTECHNOLOGY

Proteomic analysis of polyketide and nonribosomal peptide biosynthesis

(2010) Jordan L Meier et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Recent application of metagenomic approaches toward the discovery of antimicrobials and other bioactive small molecules

(2010) Jacob J Banik et al.   CURRENT OPINION IN MICROBIOLOGY

Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction

(2010) Robert M Morris et al.   ISME Journal

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

(2010) Alexander Siegl et al.   ISME Journal

Engineering Fluorometabolite Production: Fluorinase Expression inSalinispora tropicaYields Fluorosalinosporamide†

(2010) Alessandra S. Eustáquio et al.   JOURNAL OF NATURAL PRODUCTS

Marine Metagenomics: New Tools for the Study and Exploitation of Marine Microbial Metabolism

(2010) Jonathan Kennedy et al.   Marine Drugs

Immense Essence of Excellence: Marine Microbial Bioactive Compounds

(2010) Ira Bhatnagar et al.   Marine Drugs

Metabolic engineering of Agrobacterium sp. strain ATCC 31749 for production of an α-Gal epitope

(2010) Anne M Ruffing et al.   Microbial Cell Factories

Methods and options for the heterologous production of complex natural products

(2010) Haoran Zhang et al.   NATURAL PRODUCT REPORTS

Synthetic biology: applications come of age

(2010) Ahmad S. Khalil et al.   NATURE REVIEWS GENETICS

SBSPKS: structure based sequence analysis of polyketide synthases

(2010) Swadha Anand et al.   NUCLEIC ACIDS RESEARCH

Manufacturing Molecules Through Metabolic Engineering

(2010) J. D. Keasling   SCIENCE

An Orthogonal Active Site Identification System (OASIS) for Proteomic Profiling of Natural Product Biosynthesis

(2009) Jordan L. Meier et al.   ACS Chemical Biology

The Biosynthetic Logic of Polyketide Diversity

(2009) Christian Hertweck   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Isolation and Characterization of Metalloproteases with a Novel Domain Structure by Construction and Screening of Metagenomic Libraries

(2009) T. Waschkowitz et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

MARTA: a suite of Java-based tools for assigning taxonomic status to DNA sequences

(2009) Matthew Horton et al.   BIOINFORMATICS

Automated genome mining for natural products

(2009) Michael HT Li et al.   BMC BIOINFORMATICS

Deciphering Pactamycin Biosynthesis and Engineered Production of New Pactamycin Analogues

(2009) Takuya Ito et al.   CHEMBIOCHEM

The chemical biology of modular biosynthetic enzymes

(2009) Jordan L. Meier et al.   CHEMICAL SOCIETY REVIEWS

A culture-dependent bacterial community structure analysis based on liquid cultivation and its application to a marine environment

(2009) Toru Shigematsu et al.   FEMS MICROBIOLOGY LETTERS

Synthesis of Methyl Halides from Biomass Using Engineered Microbes

(2009) Travis S. Bayer et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Metagenomic approaches to natural products from free-living and symbiotic organisms

(2009) Sean F. Brady et al.   NATURAL PRODUCT REPORTS

Programming cells by multiplex genome engineering and accelerated evolution

(2009) Harris H. Wang et al.   NATURE

A proteomics approach to discovering natural products and their biosynthetic pathways

(2009) Stefanie B Bumpus et al.   NATURE BIOTECHNOLOGY

Drug Discovery and Natural Products: End of an Era or an Endless Frontier?

(2009) J. W.-H. Li et al.   SCIENCE

Microarray-Based Characterization of Microbial Community Functional Structure and Heterogeneity in Marine Sediments from the Gulf of Mexico

(2008) L. Wu et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Identification of two novel esterases from a marine metagenomic library derived from South China Sea

(2008) Xinmin Chu et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

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

(2008) F Meyer et al.   BMC BIOINFORMATICS

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

Diversity of microbes associated with the marine sponge, Haliclona simulans, isolated from Irish waters and identification of polyketide synthase genes from the sponge metagenome

(2008) Jonathan Kennedy et al.   ENVIRONMENTAL MICROBIOLOGY

Advantages and limitations of quantitative PCR (Q-PCR)-based approaches in microbial ecology

(2008) Cindy J. Smith et al.   FEMS MICROBIOLOGY ECOLOGY

Transport functions dominate the SAR11 metaproteome at low-nutrient extremes in the Sargasso Sea

(2008) Sarah M Sowell et al.   ISME Journal

Genome Sequence of the Streptomycin-Producing Microorganism Streptomyces griseus IFO 13350

(2008) Y. Ohnishi et al.   JOURNAL OF BACTERIOLOGY

The Screening of Antimicrobial Bacteria with Diverse Novel Nonribosomal Peptide Synthetase (NRPS) Genes from South China Sea Sponges

(2008) Wei Zhang et al.   MARINE BIOTECHNOLOGY

Non-ribosomal peptide synthetase module fusions to produce derivatives of daptomycin in Streptomyces roseosporus

(2008) S. Doekel et al.   MICROBIOLOGY-SGM

SAR11 marine bacteria require exogenous reduced sulphur for growth

(2008) H. James Tripp et al.   NATURE

Substrate-induced gene expression (SIGEX) screening of metagenome libraries

(2008) Taku Uchiyama et al.   Nature Protocols

Cultivating previously uncultured soil bacteria using a soil substrate membrane system

(2008) Belinda C Ferrari et al.   Nature Protocols

Efficient transfer of two large secondary metabolite pathway gene clusters into heterologous hosts by transposition

(2008) Jun Fu et al.   NUCLEIC ACIDS RESEARCH

A latitudinal diversity gradient in planktonic marine bacteria

(2008) J. A. Fuhrman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA