Les espèces coralliennes Acropora palmata (Lamarck, 1816) et A. cervicornis (Lamarck, 1816) ont un rôle majeur en termes de bio-construction et structuration des récifs dans la Caraïbe. Cependant, les populations de ces deux espèces sont en déclin et elles sont maintenant classées en danger critique d’extinction par l’Union Internationale de Conservation de la Nature (UICN). De récentes études principalement menées sur les récifs de la Floride et des Grandes Antilles se sont ainsi intéressé à la structure et à la dynamique des populations de ces espèces, mais le statut génétique des populations des Petites Antilles est moins connu.Le présent sujet a pour but d’étudier l’état des populations des coraux Acropora palmata et A. cervicornis sur les récifs de Guadeloupe et des Petites Antilles et d’élucider les mécanismes qui président à la survie de ces espèces et au recrutement des jeunes coraux. / In the Caribbean, Acropora palmata (Lamarck 1816) and A. cervicornis (Lamarck 1816) are major coral species for reef building. Since the 80’s, these species populations are decreasing and are now classified as critically endangered species by the International Union for Conservation of Nature (IUCN). Recent studies, mainly conducted on the reefs of Florida and the Greater Antilles concerned the structure and the dynamics of Acropora populations, while the genetic status of the populations in the Lesser Antilles remains less studied. The purpose of the study is to determine the status of the coral populations of Acropora palmata and A. cervicornis on reefs of Guadeloupe and Lesser Antilles and to elucidate the mechanisms governing the survival of these species and the recruitment of young corals.

This thesis is composed of two articles. The first is an analysis of long-term survival among A. cervicornis outplants in the Florida Keys, from 2007 to the present. The second is a review of literature that informs coral restoration and guides both restoration practitioners and coral researchers towards greater effectiveness in outplant survival and understanding biological processes involved in restoration. In the first article, despite promising initial evidence of outplant survival and health, the long-term results, using Weibull survival analysis, are discouraging with almost all out planted corals over an 8 year long study exhibiting steep declines in percent live tissue and survival between three and five years. Not only is this 3-5 year collapse apparent in all the outplanted cohorts, but the evidence is highly significant that the length of outplant survival is decreasing with each passing year (diminished resilience). These findings suggest that some shared, likely environmental factor, is increasingly impacting all outplants. Further, no cohorts appear to adapt to the environmental conditions in which these declines are occurring (diminished adaptive capacity), a trend that would be evident if their declines slowed or reversed and Weibull beta-parameterization would show. The second article, reviews several areas of recent study which offer avenues for future research: these include, ecological history and biogeography, developmental pathways of colonial form and function, polarity and symmetry, genetics, wound healing, fecundity, reproduction, sexual maturity and community interactions. The thesis concludes with questions for further research and understanding in the field of coral restoration.

This thesis is the first study to provide a detailed characterization of Acropora cervicornis transplants and donor colony survival on southeast Florida coral reefs. Since May 2006 this species has been listed as a threatened species under the Endangered Species Act. As populations continue to decline restoration efforts need to be evaluated to determine if there is an effort that could facilitate a population rebound. The overall goal of this project was to examine potential Acropora cervicornis restoration techniques along the entire Florida reef tract including Broward County, Miami Dade County, and Monroe County. For my thesis I used a portion of the data collected from the Broward County region nursery. I analyzed data on the donor colonies and the nursery fragments. The goals were to determine if fragments generated from clippings removed from donor colonies can 1) be transplanted to a nursery site, 2) have acceptable survivorship and 3) increase in complexity (branching). Beyond survival and growth, I also examined genotypic differences in fragment survival and growth rates. Twelve A. cervicornis donor colonies separated by as much as 26 km were identified, and monitored quarterly for 19 months. From each donor colony three 10 cm clippings were removed for transplantation to the nursery habitat and one 1 cm clipping was taken for genetic analysis. Prior to transplantation, each 10 cm clipping was cut into 3 cm fragments. Transplantation occurred in September, October, and December 2007, transplanting 1/3 of the fragments horizontal and 2/3 vertical in orientation. Fragments in the nursery were monitored monthly through November 2008. During each monthly monitoring, images were taken, fragments were measured, branches were counted, and condition (partial mortality, disease, predation, etc.) was assessed. Each donor colony sampled with in Broward County for this project was determined to be a unique genotype using microsatellites. Significant differences in survival, growth, and number of branches were determined among fragment genotypes. Vertically orientated fragments had higher survivorship, but horizontal fragments had higher mean growth rates and number of branches per fragment. This coral restoration project has the real possibility of providing important information on the effectiveness of utilizing the asexual, fragmentation, capacity of A. cervicornis to facilitate A. cervicornis population conservation. My effort could contribute to a quantitative comparison of Acropora genotypic variation in survivorship and growth, which will provide information on intra- and inter-regional potential for large-scale restoration within the Florida reef tract.

This thesis provides a detailed analysis of the growth and survivorship of outplanted Acropora cervicornis corals from underwater nurseries within three regions of the Florida Reef Tract. Substantial loss of stony coral cover on Florida’s coral reefs, including the branching staghorn coral, Acropora cervicornis, has occurred for decades due to disturbances such as disease, temperature induced bleaching, hurricanes, sedimentation, and pollution. This rapid population decline contributed to A. cervicornis being listed as a threatened species under the U.S. Endangered Species Act in May 2006. To aid in the recovery of the species, coral fragments were grown in underwater nurseries and outplanted to selected sites located within unique cross-shelf zones in the Upper Florida Keys, Lower Keys, and Biscayne regions. This study evaluated the regional and zonal variation in growth and survivorship of known genotypes of outplanted A. cervicornis corals to better inform future large-scale restoration projects. The zone in which corals of A. cervicornis were outplanted to had a more significant effect on growth than the coral genotype. The forereef zone within the Upper and Lower Keys regions and the mid-channel zone in the Biscayne region had significantly higher mean growth rates. When comparing growth rates of genotypes that performed best, high growth, in the Lower Keys nursery, these same genotypes did not perform the best at any of the outplant sites. Survivorship was not significantly different in any of the regions. Based on these results, future coral outplantings focused in the forereef and mid-channel zones would maximize growth. Choosing coral genotypes based on their high growth rates in the nursery does not ensure the same high growth rates when outplanted.

This thesis is the first known study to relocate Acropora cervicornis across multiple regions of the Florida Reef Tract. Since 2006, A. cervicornis has been listed as a threatened coral species under the U.S. Endangered Species Act. In response, restoration efforts utilizing coral nursery methods have been implemented throughout the Caribbean. The primary objective of this research was to determine the response of A. cervicornis colonies to being relocated between two coral nurseries separated by approximately 150km along the Florida Reef Tract. To accomplish this, a reciprocal transport was conducted between coral fragments with known genotypes from Broward County and Monroe County, Florida. A subset of coral ramets (fragments of a single genotype) was removed from the nursery of origin and relocated to the opposing coral nursery, while the remaining ramets stayed in their original nursery to serve as controls. Following transplant, both relocated and non-relocated corals were monitored for 14 months and survivorship, growth rates, branching frequency, and coral condition data were collected. In addition, tissue samples were collected twice during the monitoring period to determine zooxanthellae densities. Reaction norms were used to predict the responses of each measured variable for each genotype in response to being relocated. Relocated coral colonies from both nurseries exhibited equal or greater survivorship than the non-relocated corals from their original nursery. Growth rates, branching frequency, and zooxanthellae densities were highest in the corals that were previously in or relocated to Broward County. Within each nursery, relocated and non-relocated corals were not significantly different in any of the measured parameters. Throughout the study period, there were no signs of disease, bleaching, or predation on any of the corals. These findings demonstrate that A. cervicornis colonies can be successfully relocated across regions of the Florida Reef Tract suggesting that colonies throughout the FRT may be used for collaborative restoration efforts. Reaction norm analysis indicated phenotypically plastic responses in each growth parameter with some instances of genotype-by-environment interactions. Finally, these results suggest the need for additional research to investigate regional differences in A. cervicornis populations for proper management and restoration approaches.

Rickettsiales-like organisms (RLOs) are thought to be related to bacteria in the order Rickettsiales. They have been reported to occur in the staghorn coral (Acropora cervicornis), and this study investigated trends of infection over time, and in relation to the health of infected corals. This study focuses on tissue samples taken mostly from visibly healthy A. cervicornis thickets in Broward County, Florida, and processed for histological examination. Samples were originally collected and analyzed to document reproduction during years 2001 through 2012, and tissue loss diseases (white-band disease [WBD] types I and II, and rapid tissue loss). The presence of suspect RLOs, the presence of ovoid bacterial aggregates in the basal body wall, and the condition of the coral tissue were examined in hematoxylin and eosin (H&E) and Giemsa-stained sections. Determination was made as to whether suspect RLO infection severity, location, or the presence of bacterial aggregates are correlated with changes in tissue condition associated with WBD. To better understand progression, trends, and periodicity in bacterial presence and coral tissue health, these data were then further analyzed for potential correlation with the month, year, and average monthly nighttime sea surface temperatures (categorized into ranges above, within, or below 24–29°C) when samples were collected. The severity of suspect RLO infections and the presence of bacterial aggregates in A. cervicornis varied over time, with no correlation with the location of suspect RLOs within the polyp. High suspect RLO prevalence was correlated with normal tissue conditions, while low suspect RLO prevalence was correlated with abnormal tissue conditions. However, high prevalence of bacterial aggregates was correlated to abnormal tissue conditions. Epidermal RLO and overall suspect RLO prevalence severity scores were significantly higher among samples collected when monthly average nighttime sea surface temperatures were below 24°C in contrast to samples collected when temperatures were between 24–29°C, suggesting direct or indirect effects of sea surface temperatures on infection severity. The areas of suspect RLO intracellular bodies within infected mucocytes were measured using digital image analysis software and found to be positively correlated with worsening coral tissue condition. Semiquantitative variable scores for histoslides stained with H&E were significantly different from those stained with Giemsa, indicating that these stains cannot be used interchangeably to study the presence of bacteria and the condition of coral tissue. Overall, the results of this study indicate that infection severity of suspect RLOs and the presence of bacterial aggregates are variable and correlated with the incidence of WBD-I in A. cervicornis. However, the exact nature of this relationship remains unclear. Further studies are necessary to interpret trends detected during this analysis to develop a better understanding of what contributes to the severe tissue-loss outbreaks and mortalities of A. cervicornis.

Coral reefs are an important element of marine ecosystem that are critical to maintain a healthy environment. Unfortunately, in recent years coral reefs are doing poorly and many in parts of the ocean are simply dying. Therefore, study of coral’s structural response to external loads could answer what will happen with their structures, while they exhibit different types of loading. Therefore, the proposition of using in-situ micro-Raman spectroscopy to study skeletons of Acropora cervicornis was used. Coral skeleton samples I subjected to mechanical loading studied their vibrational properties by exciting the material with 532nm visible light. A uniaxial compressive load I applied using a MTS universal testing machine and then using the Raman Spectroscopy to study the vibrational response of coral skeletons. Indentations used Vickers Hardness tester and performed 2D mapping of the coral structure around the indentation. If it’s expected that as a result of the proposed research the better understanding of structural stability of the Acropora Cervicornis coral skeletons will be achieved.

This research explores the instantaneous mechanical behavior of the skeleton of the critically endangered staghorn coral Acropora cervicornis. Both bleached and sanded skeletons were used in this experiment. The Raman spectroscopy test showed that there was no significant change in the Raman shift between the three branches tested. The shifts were nearly identical to Raman shifts of calcium carbonate. Vickers hardness test found that 1 Bleached had the average hardness of 3.44 GPa with a standard deviation of 0.12 GPa. The sanded sample also had a similar value of 3.54 GPa with a standard deviation of 0.13 GPa. Samples from 2 Bleached had a hardness value that was significantly lower at only 2.68 GPa with a standard deviation of 0.37 GPa. The axial compressive stress test determined that the average strength for the bleached samples was 18.98 MPa and for the sanded, 29.16 MPa. This information can be used to assist in the restoration of this species.

Caribbean reef ecosystems have undergone major ecological changes in the last 30 – 40 years, with the result that ecological systems once dominated by structurally complex Acropora cervicornis and Montastraea annularis corals now consist mainly of flattened carbonate substrates with macroalgal overgrowth. A need for greater understanding of coral reef ecosystems is imperative if we are to attempt to conserve them. The threespot damselfish, Stegastes planifrons, is herbivorous damselfish species ubiquitous to Caribbean reefs, where it has been termed a keystone species. Aggressive in nature, S. planifrons defends territories of around 70 cm in diameter from other roving herbivorous fish and urchins, in apparent effort to maintain the algal resources therein for its own use. The predilection of Stegastes planifrons for basing its territories on the now Critically Endangered staghorn coral, Acropora cervicornis, and the Endangered boulder coral Montastraea annularis is well known, however the likely ecological implications of this fact have not been investigated. Using a combination of experimental and observational methodologies we examine the ecological implications of coral microhabitat choice and use by S. planifrons. We also assess the magnitude of the direct and indirect effects of S. planifrons’ territorial behaviour on macroalgal dynamics both within and outside of territory confines, at the reef-wide level. We find that coral microhabitat is a more important determinant of algal community structure than damselfish presence, and that this can be explained by a previously unrecognised effect of coral microhabitat on the grazing behaviour of roving herbivorous fishes - on which S. planifrons’ territorial behaviour has little effect. In a modification of the space availability hypothesis of Williams et al (2001) we suggest that Acropora cervicornis acts as a grazing fish „exclusion zone‟, and we further hypothesise that the existence of large stands of this coral prior to the Caribbean „phase shift‟ may have acted to concentrate the grazing pressure of excluded roving fish onto the remaining areas of the reef. We further hypothesise that the loss of such „exclusion zones‟ and accompanied effective dilution of grazing pressure may have been on a scale large enough to have been a significant underlying factor in the proliferation of macroalgae seen on modern day Caribbean reefs. In the absence of demonstrable direct or indirect effects on benthic algal communities we question the continued keystone status of S. planifrons, particularly since the status 6 was originally based on interference behaviour involving the important grazing urchin Diadema antillarum, which is now functionally absent from Caribbean reefs. Implications of the context-dependant nature of keystone status are also discussed. We find that the effect of S. planifrons on coral community may be more important than its effects on benthic algal community. In examining the factors involved in habitat coral choice we establish a significant preference for 100% live coral substrate over substrates with a supply of algal food. Territory selection was followed by a high rate of coral biting – a behaviour which has previously been shown to result in coral tissue death and the fast establishment of algal turf communities on which S. planifrons likes to feed (Kaufman 1977). We also demonstrate a novel and significant association between S. planifrons presence and disease incidence its primary habitat coral, the Critically Endangered staghorn coral Acropora cervicornis, and a significant correlation between areas of fish biting and the later onset of disease. Changes to the overall role of damselfish on today's Caribbean reefs are discussed in light of these insights.

Acropora cervicornis and A. palmata were once dominant, reef-building corals of Caribbean reefs. Over the last several decades, population declines of Caribbean Acropora have been dramatic, and both species are now listed as “Threatened” under the United States Endangered Species Act. Numerous restoration efforts now utilize coral gardening techniques to cultivate these species for transplantation, in which A. cervicornis is primarily cultivated both on fixed structures and in line nurseries. This study evaluates growth and survivorship of multiple A. cervicornis genotypes grown via two line nursery techniques, and compares the efficacy of each against the conventional method of fixed nursery puck-mounted culture. Suspended nursery culture resulted in higher post-fragmentation survivorship of corals than puck culture, especially in warmer conditions. Disease incidence was significantly reduced by suspended culture, which also prevented predation from fireworms (Hermodice carunculata) prevalent in puck corals at the same nursery. Genotypic growth rate differences persisted among techniques, and suspended coral growth was comparable to puck culture. Suspended colonies may need more frequent pruning to avoid branch abrasion and breakage, but the technique is an effective means to reduce disease, predation, and post-fragmentation mortality in A. cervicornis nursery culture.