Biosynthetic Gene Cluster for the Cladoniamides, Bis-Indoles with a Rearranged Scaffold

The cladoniamides are bis-indole alkaloids isolated from Streptomyces uncialis, a lichen-associated actinomycete strain. The cladoniamides have an unusual, indenotryptoline structure rarely observed among bis-indole alkaloids. I report here the isolation, sequencing, and annotation of the cladoniamide biosynthetic gene cluster and compare it to the recently published gene cluster for BE-54017, a closely related indenotryptoline natural product. The cladoniamide gene cluster differs from the BE-54017 gene cluster in gene organization and in the absence of one N-methyltransferase gene but otherwise contains close homologs to all genes in the BE-54017 cluster. Both gene clusters encode enzymes needed for the construction of an indolocarbazole core, as well as flavin-dependent enzymes putatively involved in generating the indenotryptoline scaffold from an indolocarbazole. These two bis-indolic gene clusters exemplify the diversity of biosynthetic routes that begin from the oxidative dimerization of two molecules of l-tryptophan, highlight enzymes for further study, and provide new opportunities for combinatorial engineering

Fishery-Independent Data Reveal Negative Effect of Human Population Density on Caribbean Predatory Fish Communities

BACKGROUND: Understanding the current status of predatory fish communities, and the effects fishing has on them, is vitally important information for management. However, data are often insufficient at region-wide scales to assess the effects of extraction in coral reef ecosystems of developing nations. METHODOLOGY/PRINCIPAL FINDINGS: Here, I overcome this difficulty by using a publicly accessible, fisheries-independent database to provide a broad scale, comprehensive analysis of human impacts on predatory reef fish communities across the greater Caribbean region. Specifically, this study analyzed presence and diversity of predatory reef fishes over a gradient of human population density. Across the region, as human population density increases, presence of large-bodied fishes declines, and fish communities become dominated by a few smaller-bodied species. CONCLUSIONS/SIGNIFICANCE: Complete disappearance of several large-bodied fishes indicates ecological and local extinctions have occurred in some densely populated areas. These findings fill a fundamentally important gap in our knowledge of the ecosystem effects of artisanal fisheries in developing nations, and provide support for multiple approaches to data collection where they are commonly unavailable

Depth and habitat determine assemblage structure of South Africa’s warm-temperate reef fish

Depth and habitat are important predictors of fish assemblage structure, yet current no-take marine protected area (MPA) networks are generally limited to providing refuge for fish species that inhabit shallow waters and may exclude deep habitats essential to exploited populations. To ensure MPA efficacy at the design, uptake and management levels, baseline data on fish populations associated with deep nearshore reefs are needed. This study employed baited remote underwater stereo-video systems to investigate fish habitat associations at shallow (11–25 m) and deep (45–75 m) reef sites in the Tsitsikamma National Park MPA, South Africa. The compositions of fish assemblages at shallow and deep reef sites were significantly different. Specifically, rare species, juveniles and low trophic level species dominated the shallow reef, while deep reef assemblages were characterised by large, sexually mature and predatory fish. The body size of abundant species was also correlated with depth, with larger individuals being more abundant on deeper reefs. Habitat types were identified according to a habitat classification system established in a previous study, which resulted in four broad depth separated habitat types (defined by macrobenthos and environmental variables). Canonical analysis of principle coordinates (CAP) indicated that habitat type was a good categorical predictor of the observed fish assemblages. The CAP analysis determined that 86 % of the samples were correctly assigned to the habitat type from which they were collected, indicating that specific fish assemblages were associated with distinct habitat types. This study highlights the importance of protecting both shallow and deep reefs, not only to ensure the conservation of particular fish assemblages, but also to provide protection for all stages of the life cycle of fish species