Daniel M. Holstein
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View article: Decadal and multispecies coral connectivity modeling for conservation and restoration prioritization in Florida
Decadal and multispecies coral connectivity modeling for conservation and restoration prioritization in Florida Open
Coral populations are rapidly declining due to global warming and local anthropogenic stressors, with nearly all living corals at risk if temperatures rise beyond 1.5°C. As reversing climate change is no longer feasible, effective local ac…
View article: Coral restoration for coastal resilience: Integrating ecology, hydrodynamics, and engineering at multiple scales
Coral restoration for coastal resilience: Integrating ecology, hydrodynamics, and engineering at multiple scales Open
The loss of functional and accreting coral reefs reduces coastal protection and resilience for tropical coastlines. Coral restoration has potential for recovering healthy reefs that can mitigate risks from coastal hazards and increase sust…
View article: Post-disturbance recovery dynamics of connected coral subpopulations
Post-disturbance recovery dynamics of connected coral subpopulations Open
View article: Will Climate Change Alter the Swimming Behavior of Larval Stone Crabs?: A Guided-Inquiry Lesson
Will Climate Change Alter the Swimming Behavior of Larval Stone Crabs?: A Guided-Inquiry Lesson Open
The ocean has absorbed ~one third of the excess atmospheric carbon dioxide (CO2) released since the Industrial Revolution. When the ocean absorbs excess CO2, a series of chemical reactions occur that result in a reduction in seawater pH, a…
View article: <i>Ex situ</i> spawning, larval development, and settlement in massive reef‐building corals (<i>Porites</i>) in Palau
<i>Ex situ</i> spawning, larval development, and settlement in massive reef‐building corals (<i>Porites</i>) in Palau Open
Reproduction, embryological development, and settlement of corals are critical for survival of coral reefs through larval propagation. Yet, for many species of corals, a basic understanding of the early life‐history stages is lacking. In t…
View article: MedImageInsight: An Open-Source Embedding Model for General Domain Medical Imaging
MedImageInsight: An Open-Source Embedding Model for General Domain Medical Imaging Open
In this work, we present MedImageInsight, an open-source medical imaging embedding model. MedImageInsight is trained on medical images with associated text and labels across a diverse collection of domains, including X-Ray, CT, MRI, dermos…
View article: Investigating the link between the Port of Miami dredging and the onset of the stony coral tissue loss disease epidemics
Investigating the link between the Port of Miami dredging and the onset of the stony coral tissue loss disease epidemics Open
View article: <i>Ex situ</i>spawning, larval development, and settlement in the massive reef-building coral<i>Porites lobata</i>in Palau
<i>Ex situ</i>spawning, larval development, and settlement in the massive reef-building coral<i>Porites lobata</i>in Palau Open
Reproduction, embryological development, and settlement of corals are critical for survival of coral reefs through larval propagation. Yet, for many species of corals, a basic understanding of the early life-history stages is lacking. In t…
View article: Hurricanes enhance coral connectivity but also superspread coral diseases
Hurricanes enhance coral connectivity but also superspread coral diseases Open
Climate change poses an existential threat to coral reefs. A warmer and more acidic ocean weakens coral ecosystems and increases the intensity of hurricanes. The wind–wave–current interactions during a hurricane deeply change the ocean cir…
View article: Injecting New Knowledge into Large Language Models via Supervised Fine-Tuning
Injecting New Knowledge into Large Language Models via Supervised Fine-Tuning Open
In recent years, Large Language Models (LLMs) have shown remarkable performance in generating human-like text, proving to be a valuable asset across various applications. However, adapting these models to incorporate new, out-of-domain kno…
View article: Stony coral tissue loss disease: a review of emergence, impacts, etiology, diagnostics, and intervention
Stony coral tissue loss disease: a review of emergence, impacts, etiology, diagnostics, and intervention Open
Stony coral tissue loss disease (SCTLD) is destructive and poses a significant threat to Caribbean coral reef ecosystems. Characterized by the acute loss of coral tissue, SCTLD has impacted over 22 stony coral species across the Caribbean …
View article: RAG vs Fine-tuning: Pipelines, Tradeoffs, and a Case Study on Agriculture
RAG vs Fine-tuning: Pipelines, Tradeoffs, and a Case Study on Agriculture Open
There are two common ways in which developers are incorporating proprietary and domain-specific data when building applications of Large Language Models (LLMs): Retrieval-Augmented Generation (RAG) and Fine-Tuning. RAG augments the prompt …
View article: Stony coral tissue loss disease induces transcriptional signatures of in situ degradation of dysfunctional Symbiodiniaceae
Stony coral tissue loss disease induces transcriptional signatures of in situ degradation of dysfunctional Symbiodiniaceae Open
View article: Coral restoration for coastal resilience: Integrating ecology, hydrodynamics, and engineering at multiple scales
Coral restoration for coastal resilience: Integrating ecology, hydrodynamics, and engineering at multiple scales Open
The loss of functional and accreting coral reefs reduces coastal protection and resilience for tropical coastlines. Coral restoration has potential for recovering healthy reefs that can mitigate risks from coastal hazards and increase sust…
View article: Transmission of stony coral tissue loss disease (SCTLD) in simulated ballast water confirms the potential for ship-born spread
Transmission of stony coral tissue loss disease (SCTLD) in simulated ballast water confirms the potential for ship-born spread Open
View article: Comparing spatial conservation prioritization methods with site‐ versus spatial dependency‐based connectivity
Comparing spatial conservation prioritization methods with site‐ versus spatial dependency‐based connectivity Open
Larval dispersal is an important component of marine reserve networks. Two conceptually different approaches to incorporate dispersal connectivity into spatial planning of these networks exist, and it is an open question as to when either …
View article: Transmission of stony coral tissue loss disease (SCTLD) in simulated ballast water confirms the potential for ship-born spread
Transmission of stony coral tissue loss disease (SCTLD) in simulated ballast water confirms the potential for ship-born spread Open
Stony coral tissue loss disease (SCTLD) remains an unprecedented epizootic disease, representing a substantial threat to the persistence and health of coral reef ecosystems in the Tropical Western Atlantic since its first observation near …
View article: Experimental transmission of Stony Coral Tissue Loss Disease results in differential microbial responses within coral mucus and tissue
Experimental transmission of Stony Coral Tissue Loss Disease results in differential microbial responses within coral mucus and tissue Open
Stony coral tissue loss disease (SCTLD) is a widespread and deadly disease that affects nearly half of Caribbean coral species. To understand the microbial community response to this disease, we performed a disease transmission experiment …
View article: Predicting coral metapopulation decline in a changing thermal environment
Predicting coral metapopulation decline in a changing thermal environment Open
Thermal stress is expected to compromise the persistence of tropical corals throughout their biogeographic ranges, making many reefs inhospitable to corals by the end of the century. We integrated models of local predictions of thermal str…
View article: Alphaflexivirus Genomes in Stony Coral Tissue Loss Disease-Affected, Disease-Exposed, and Disease-Unexposed Coral Colonies in the U.S. Virgin Islands
Alphaflexivirus Genomes in Stony Coral Tissue Loss Disease-Affected, Disease-Exposed, and Disease-Unexposed Coral Colonies in the U.S. Virgin Islands Open
Stony coral tissue loss disease (SCTLD) is decimating Caribbean corals. Here, through the metatranscriptomic assembly and annotation of two alphaflexivirus-like strains, we provide genomic evidence of filamentous viruses in SCTLD-affected,…
View article: Connecting the Dots: Transmission of Stony Coral Tissue Loss Disease From the Marquesas to the Dry Tortugas
Connecting the Dots: Transmission of Stony Coral Tissue Loss Disease From the Marquesas to the Dry Tortugas Open
For the last 7 years, Florida’s Coral Reef (FCR) has suffered from widespread and severe coral loss caused by stony coral tissue loss disease (SCTLD). First observed off the coast of Miami-Dade county in 2014, the outbreak has since spread…
View article: Reef Sediments Can Act As a Stony Coral Tissue Loss Disease Vector
Reef Sediments Can Act As a Stony Coral Tissue Loss Disease Vector Open
Stony coral tissue loss disease (SCTLD) was first observed in 2014 near Virginia Key in Miami-Dade County, Florida. Field sampling, lab experiments, and modeling approaches have suggested that reef sediments may play a role in SCTLD transm…
View article: Energetic and reproductive costs of coral recovery in divergent bleaching responses
Energetic and reproductive costs of coral recovery in divergent bleaching responses Open
View article: Editorial: Gulf of Mexico Reefs: Past, Present and Future
Editorial: Gulf of Mexico Reefs: Past, Present and Future Open
EDITORIAL article Front. Mar. Sci., 19 July 2021Sec. Coral Reef Research https://doi.org/10.3389/fmars.2021.713058
View article: Variable Species Responses to Experimental Stony Coral Tissue Loss Disease (SCTLD) Exposure
Variable Species Responses to Experimental Stony Coral Tissue Loss Disease (SCTLD) Exposure Open
Stony coral tissue loss disease (SCTLD) was initially documented in Florida in 2014 and outbreaks with similar characteristics have since appeared in disparate areas throughout the northern Caribbean, causing significant declines in coral …
View article: Predicting the distribution of threatened orbicellid corals in shallow and mesophotic reef ecosystems
Predicting the distribution of threatened orbicellid corals in shallow and mesophotic reef ecosystems Open
Orbicellid corals are threatened primary reef-building corals throughout the Caribbean in shallow and mesophotic coral ecosystems (MCEs), yet a poor understanding of where they occur limits population monitoring and management. The goals o…
View article: Seascape ecology: identifying research priorities for an emerging ocean sustainability science
Seascape ecology: identifying research priorities for an emerging ocean sustainability science Open
Seascape ecology, the marine-centric counterpart to landscape ecology, is rapidly emerging as an interdisciplinary and spatially explicit ecological science with relevance to marine management, biodiversity conservation, and restoration. W…
View article: Coupled Epidemio-Hydrodynamic Modeling to Understand the Spread of a Deadly Coral Disease in Florida
Coupled Epidemio-Hydrodynamic Modeling to Understand the Spread of a Deadly Coral Disease in Florida Open
For the last six years, the Florida Reef Tract (FRT) has been experiencing an outbreak of the Stony Coral Tissue Loss Disease (SCTLD). First reported off the coast of Miami-Dade County in 2014, the SCTLD has since spread throughout the ent…
View article: Artificial Reefs in the Northern Gulf of Mexico: Community Ecology Amid the “Ocean Sprawl”
Artificial Reefs in the Northern Gulf of Mexico: Community Ecology Amid the “Ocean Sprawl” Open
The northern Gulf of Mexico has been an important source for crude oil and natural gas extraction since the 1930s. Thousands of fixed platforms and associated equipment have been installed on the Gulf of Mexico continental shelf, leading t…
View article: The Influence of Eddies on Coral Larval Retention in the Flower Garden Banks
The Influence of Eddies on Coral Larval Retention in the Flower Garden Banks Open
While coral larval exchange among reef patches is crucial to the persistence of coral metapopulations, larval retention within patches is critical for local population maintenance. In isolated systems such as the Flower Garden Banks (FGB) …