Cryptic Diversity of Black Band Disease Cyanobacteria in Siderastrea siderea Corals Revealed by Chemical Ecology and Comparative Genome-Resolved Metagenomics

Metagenomic and Metatranscriptomic Insights into Population Diversity of Microcystis Blooms: Spatial and Temporal Dynamics of mcy Genotypes, Including a Partial Operon That Can Be Abundant and Expressed

(2022) Colleen E. Yancey et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The toxic cosmopolitan cyanobacteria Moorena producens: insights into distribution, ecophysiology and toxicity

(2022) Emily Curren et al.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH

Revisiting the role of cyanobacteria-derived metabolites as antimicrobial agent: A 21st century perspective

(2022) Joyeeta Kar et al.   Frontiers in Microbiology

clinker & clustermap.js: automatic generation of gene cluster comparison figures

(2021) Cameron L M Gilchrist et al.   BIOINFORMATICS

A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria

(2021) Tiago Leão et al.   Marine Drugs

CyanoMetDB, a comprehensive public database of secondary metabolites from cyanobacteria

(2021) Martin R. Jones et al.   WATER RESEARCH

Cell-Free Biosynthesis to Evaluate Lasso Peptide Formation and Enzyme–Substrate Tolerance

(2021) Yuanyuan Si et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

antiSMASH 6.0: improving cluster detection and comparison capabilities

(2021) Kai Blin et al.   NUCLEIC ACIDS RESEARCH

Recent Advances and Perspectives on Expanding the Chemical Diversity of Lasso Peptides

(2021) Mengjiao Wang et al.   Frontiers in Bioengineering and Biotechnology

Consistent Metagenome-Derived Metrics Verify and Delineate Bacterial Species Boundaries

(2020) Matthew R. Olm et al.   mSystems

Cyanobacteria and Eukaryotic Microalgae as Emerging Sources of Antibacterial Peptides

(2020) Verónica Rojas et al.   MOLECULES

Comprehensive prediction of secondary metabolite structure and biological activity from microbial genome sequences

(2020) Michael A. Skinnider et al.   Nature Communications

Chemical and Metagenomic Studies of the Lethal Black Band Disease of Corals Reveal Two Broadly Distributed, Redox-Sensitive Mixed Polyketide/Peptide Macrocycles

(2019) Sarath P. Gunasekera et al.   JOURNAL OF NATURAL PRODUCTS

The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level

(2018) Luis M Rodriguez-R et al.   NUCLEIC ACIDS RESEARCH

A Comprehensive Overview of the Cyclodipeptide Synthase Family Enriched with the Characterization of 32 New Enzymes

(2018) Muriel Gondry et al.   Frontiers in Microbiology

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life

(2018) Donovan H Parks et al.   NATURE BIOTECHNOLOGY

Ketoreductase Domain Dysfunction Expands Chemodiversity: Malyngamide Biosynthesis in the Cyanobacterium Okeania hirsuta

(2018) Nathan A. Moss et al.   ACS Chemical Biology

Genome mining of cyclodipeptide synthases unravels unusual tRNA-dependent diketopiperazine-terpene biosynthetic machinery

(2018) Tingting Yao et al.   Nature Communications

High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries

(2018) Chirag Jain et al.   Nature Communications

metaSPAdes: a new versatile metagenomic assembler

(2017) Sergey Nurk et al.   GENOME RESEARCH

A new genome-mining tool redefines the lasso peptide biosynthetic landscape

(2017) Jonathan I Tietz et al.   Nature Chemical Biology

Comparative Metagenomics of the Polymicrobial Black Band Disease of Corals

(2017) Julie L. Meyer et al.   Frontiers in Microbiology

Earliest record of a coral disease from the Indo-Pacific?

(2016) George Roff   CORAL REEFS

Integrated approach to understanding the onset and pathogenesis of black band disease in corals

(2016) Yui Sato et al.   ENVIRONMENTAL MICROBIOLOGY

Antimicrobial effects of marine algal extracts and cyanobacterial pure compounds against five foodborne pathogens

(2016) Dominic Dussault et al.   FOOD CHEMISTRY

MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices

(2016) Dinghua Li et al.   METHODS

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Unraveling the Physiological Roles of the Cyanobacterium Geitlerinema sp. BBD and Other Black Band Disease Community Members through Genomic Analysis of a Mixed Culture

(2016) Paul A. Den Uyl et al.   PLoS One

CRISPR-Cas Defense System and Potential Prophages in Cyanobacteria Associated with the Coral Black Band Disease

(2016) Patrick Buerger et al.   Frontiers in Microbiology

Genetic, morphological and growth characterisation of a newRoseofilumstrain (Oscillatoriales, Cyanobacteria) associated with coral black band disease

(2016) Patrick Buerger et al.   PeerJ

MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph

(2015) Dinghua Li et al.   BIOINFORMATICS

Roary: rapid large-scale prokaryote pan genome analysis

(2015) Andrew J. Page et al.   BIOINFORMATICS

Microbiome shifts and the inhibition of quorum sensing by Black Band Disease cyanobacteria

(2015) Julie L Meyer et al.   ISME Journal

The re-emergence of natural products for drug discovery in the genomics era

(2015) Alan L. Harvey et al.   NATURE REVIEWS DRUG DISCOVERY

First Record of Black Band Disease in the Hawaiian Archipelago: Response, Outbreak Status, Virulence, and a Method of Treatment

(2015) Greta S. Aeby et al.   PLoS One

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

(2015) Dongwan D. Kang et al.   PeerJ

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Phylogenetic Inferences Reveal a Large Extent of Novel Biodiversity in Chemically Rich Tropical Marine Cyanobacteria

(2013) Niclas Engene et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks

(2013) Pelin Yilmaz et al.   NUCLEIC ACIDS RESEARCH

Correction: A Filtering Method to Generate High Quality Short Reads Using Illumina Paired-End Technology

(2013) A. Murat Eren et al.   PLoS One

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

The chemical ecology of cyanobacteria

(2012) Pedro N. Leão et al.   NATURAL PRODUCT REPORTS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Characterization of Roseofilum reptotaenium (Oscillatoriales, Cyanobacteria) gen. et sp. nov. isolated from Caribbean black band disease

(2012) Dale Casamatta et al.   PHYCOLOGIA

Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and Genome Analyzer systems

(2011) André E Minoche et al.   GENOME BIOLOGY

A meta-analysis of 16S rRNA gene clone libraries from the polymicrobial black band disease of corals

(2010) Aaron W. Miller et al.   FEMS MICROBIOLOGY ECOLOGY

Isolation and Biological Evaluation of 8-epi-Malyngamide C from the Floridian Marine CyanobacteriumLyngbya majuscula†

(2010) Jason C. Kwan et al.   JOURNAL OF NATURAL PRODUCTS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

Cyclodipeptide synthases are a family of tRNA-dependent peptide bond–forming enzymes

(2009) Muriel Gondry et al.   Nature Chemical Biology

Comparative Characterization of the Microbial Diversities of an Artificial Microbialite Model and a Natural Stromatolite

(2008) S. A. Havemann et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Microbial community composition of black band disease on the coral host Siderastrea siderea from three regions of the wider Caribbean

(2008) R Sekar et al.   MARINE ECOLOGY PROGRESS SERIES