Evaluation of coral reef carbonate production models at a global scale

Calcification by coral reef communities is estimated to account for half of all carbonate produced in shallow water environments and more than 25% of the total carbonate buried in marine sediments globally. Production of calcium carbonate by coral reefs is therefore an important component of the global carbon cycle; it is also threatened by future global warming and other global change pressures. Numerical models of reefal carbonate production are needed for understanding how carbonate deposition responds to environmental conditions including atmospheric CO₂ concentrations in the past and into the future. However, before any projections can be made, the basic test is to establish model skill in recreating present-day calcification rates. Here we evaluate four published model descriptions of reef carbonate production in terms of their predictive power, at both local and global scales. We also compile available global data on reef calcification to produce an independent observation-based data set for the model evaluation of carbonate budget outputs. The four calcification models are based on functions sensitive to combinations of light availability, aragonite saturation (Ω_a) and temperature and were implemented within a specifically developed global framework, the Global Reef Accretion Model (GRAM). No model was able to reproduce independent rate estimates of whole-reef calcification, and the output from the temperature-only based approach was the only model to significantly correlate with coral-calcification rate observations. The absence of any predictive power for whole reef systems, even when consistent at the scale of individual corals, points to the overriding importance of coral cover estimates in the calculations. Our work highlights the need for an ecosystem modelling approach, accounting for population dynamics in terms of mortality and recruitment and hence calcifier abundance, in estimating global reef carbonate budgets. In addition, validation of reef carbonate budgets is severely hampered by limited and inconsistent methodology in reef-scale observations

Assessing amino acid racemization variability in coral intra-crystalline protein for geochronological applications.

Over 500 Free Amino Acid (FAA) and corresponding Total Hydrolysed Amino Acid (THAA) analyses were completed from eight independently-dated, multi-century coral cores of massive Porites sp. colonies. This dataset allows us to re-evaluate the application of amino acid racemization (AAR) for dating late Holocene coral material, 20 years after Goodfriend et al. (GCA56 (1992), 3847) first showed AAR had promise for developing chronologies in coral cores. This re-assessment incorporates recent method improvements, including measurement by RP-HPLC, new quality control approaches (e.g. sampling and sub-sampling protocols, statistically-based data screening criteria), and cleaning steps to isolate the intra-crystalline skeletal protein. We show that the removal of the extra-crystalline contaminants and matrix protein is the most critical step for reproducible results and recommend a protocol of bleaching samples in NaOCl for 48 h to maximise removal of open system proteins while minimising the induced racemization. We demonstrate that AAR follows closed system behaviour in the intra-crystalline fraction of the coral skeletal proteins. Our study is the first to assess the natural variability in intra-crystalline AAR between colonies, and we use coral cores taken from the Great Barrier Reef, Australia, and Jarvis Island in the equatorial Pacific to explore variability associated with different environmental conditions and thermal histories. Chronologies were developed from THAA Asx D/L, Ala D/L, Glx D/L and FAA Asx D/L for each core and least squares Monte Carlo modelling applied in order to quantify uncertainty of AAR age determinations and assess the level of dating resolution possible over the last 5 centuries. AAR within colonies follow consistent stratigraphic aging. However, there are systematic differences in rates between the colonies, which would preclude direct comparison from one colony to another for accurate age estimation. When AAR age models are developed from a combined dataset to include this natural inter-colony variability THAA Asx D/L, Glx D/L and Ala D/L give a 2σ age uncertainty of ±19, ±38 and ±29 year, for the 20th C respectively; in comparison 2σ age uncertainties from a single colony are ±12, ±12 and ±14 year. This is the first demonstration of FAA D/L for dating coral and following strict protocols 2σ precisions of ±24 years can be achieved across different colonies in samples from the last 150 years, and can be ±10 years within a core from a single colony. Despite these relatively large error estimates, AAR would be a valuable tool in situations where a large number of samples need to be screened rapidly and cheaply (e.g. identifying material from mixed populations in beach or uplift deposits), prior to and complementing the more time-consuming geochronological tools of U/Th or seasonal isotopic timeseries

300 years of hydrological records and societal responses to droughts and floods on the Pacific coast of Central America

The management of hydrological extremes and impacts on society is inadequately understood because of the combination of short-term hydrological records, an equally short-term assessment of societal responses and the complex multi-directional relationships between the two over longer timescales. Rainfall seasonality and inter-annual variability on the Pacific coast of Central America is high due to the passage of the Inter Tropical Convergence Zone (ITCZ) and the El Niño–Southern Oscillation (ENSO). Here we reconstruct hydrological variability and demonstrate the potential for assessing societal impacts by drawing on documentary sources from the cities of Santiago de Guatemala (now Antigua Guatemala) and Guatemala de la Asunción (now Guatemala City) over the period from 1640 to 1945. City and municipal council meetings provide a rich source of information dating back to the beginning of Spanish colonisation in the 16th century. We use almost continuous sources from 1640 AD onwards, including > 190 volumes of Actas de Cabildo and Actas Municipales (minutes of meetings of the city and municipal councils) held by the Archivo Histórico de la Municipalidad de Antigua Guatemala (AHMAG) and the Archivo General de Centro América (AGCA) in Guatemala City. For this 305-year period (with the exception of a total of 11 years during which the books were either missing or damaged), information relating to Catholic rogation ceremonies and reports of flooding events and crop shortages were used to classify the annual rainy season (May to October) on a five-point scale from very wet to very dry. In total, 12 years of very wet conditions, 25 years of wetter than usual conditions, 34 years of drier conditions and 21 years of very dry conditions were recorded. An extended drier period from the 1640s to the 1740s was identified and two shorter periods (the 1820s and the 1840s) were dominated by dry conditions. Wetter conditions dominated the 1760s–1810s and possibly record more persistent La Niña conditions that are typically associated with higher precipitation over the Pacific coast of Central America. The 1640s–1740s dry period coincides with the Little Ice Age and the associated southward displacement of the ITCZ

Towards the analysis of coral skeletal density-banding using deep learning

Abstract: X-ray micro–computed tomography (µCT) is increasingly used to record the skeletal growth banding of corals. However, the wealth of data generated is time consuming to analyse for growth rates and colony age. Here we test an artificial intelligence (AI) approach to assist the expert identification of annual density boundaries in small colonies of massive Porites spanning decades. A convolutional neural network (CNN) was trained with µCT images combined with manually labelled ground truths to learn banding-related features. The CNN successfully predicted the position of density boundaries in independent images not used in training. Linear extension rates derived from CNN-based outputs and the traditional method were consistent. In the future, well-resolved 2D density boundaries from AI can be used to reconstruct density surfaces and enable studies focused on variations in rugosity and growth gradients across colony 3D space. We recommend the development of a community platform to share annotated images for AI.Copyright © The Author(s) 2021. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The linked document is the published version of the article.NHM Repositor

Toward integrated historical climate research: the example of Atmospheric Circulation Reconstructions over the Earth

Climate change has become a key environmental narrative of the 21st century. However, emphasis on the science of climate change has overshadowed studies focusing on human interpretations of climate history, of adaptation and resilience, and of explorations of the institutions and cultural coping strategies that may have helped people adapt to climate changes in the past. Moreover, although the idea of climate change has been subject to considerable scrutiny by the physical sciences, recent climate scholarship has highlighted the need for a re examination of the cultural and spatial dimensions of climate, with contributions from the humanities and social sciences. Establishing a multidisciplinary dialogue and approach to climate research past, present, and future has arguably never been more important. This article outlines developments in historical climatology research and considers examples of integrated multidisciplinary approaches to climate, climatic variability, and climate change research, conducted across the physical sciences, social sciences, humanities, and the arts. We highlight the international Atmospheric Circulation Reconstructions over the Earth (ACRE) initiative as one example of such an integrated approach. Initially, ACRE began as a response from climate science to the needs of the agricultural sector in Queensland, Australia for a longer, more spatially, and temporally-complete database of the weather. ACRE has now evolved to embrace an international group of researchers working together across disciplines to integrate their efforts into a four-dimensional (4D) dynamical global historical climate-quality reanalysis (reconstruction). WIREs Clim Change 2016, 7:164–174. doi:10.1002/wcc.37

The hydrological cycle and ocean circulation of the Maritime Continent in the Pliocene: results from PlioMIP2

The Maritime Continent (MC) forms the western boundary of the tropical Pacific Ocean, and relatively small changes in this region can impact the climate locally and remotely. In the mid-Piacenzian warm period of the Pliocene (mPWP; 3.264 to 3.025 Ma) atmospheric CO2 concentrations were ∼ 400 ppm, and the subaerial Sunda and Sahul shelves made the land–sea distribution of the MC different to today. Topographic changes and elevated levels of CO2, combined with other forcings, are therefore expected to have driven a substantial climate signal in the MC region at this time. By using the results from the Pliocene Model Intercomparison Project Phase 2 (PlioMIP2), we study the mean climatic features of the MC in the mPWP and changes in Indonesian Throughflow (ITF) with respect to the preindustrial. Results show a warmer and wetter mPWP climate of the MC and lower sea surface salinity in the surrounding ocean compared with the preindustrial. Furthermore, we quantify the volume transfer through the ITF; although the ITF may be expected to be hindered by the subaerial shelves, 10 out of 15 models show an increased volume transport compared with the preindustrial. In order to avoid undue influence from closely related models that are present in the PlioMIP2 ensemble, we introduce a new metric, the multi-cluster mean (MCM), which is based on cluster analysis of the individual models. We study the effect that the choice of MCM versus the more traditional analysis of multi-model mean (MMM) and individual models has on the discrepancy between model results and data. We find that models, which reproduce modern MC climate well, are not always good at simulating the mPWP climate anomaly of the MC. By comparing with individual models, the MMM and MCM reproduce the preindustrial sea surface temperature (SST) of the reanalysis better than most individual models and produce less discrepancy with reconstructed sea surface temperature anomalies (SSTA) than most individual models in the MC. In addition, the clusters reveal spatial signals that are not captured by the MMM, so that the MCM provides us with a new way to explore the results from model ensembles that include similar models

Abrupt decrease in tropical pacific sea surface salinity at end of little ice age

A 420-year history of strontium/calcium, uranium/calcium, and oxygen isotope ratios in eight coral cores from the Great Barrier Reef, Australia, indicates that sea surface temperature and salinity were higher in the 18th century than in the 20th century. An abrupt freshening after 1870 occurred simultaneously throughout the southwestern Pacific, coinciding with cooling tropical temperatures. Higher salinities between 1565 and 1870 are best explained by a combination of advection and wind-induced evaporation resulting from a strong latitudinal temperature gradient and intensified circulation. The global Little Ice Age glacial expansion may have been driven, in part, by greater poleward transport of water vapor from the tropical Pacific

Seawater carbonate chemistry and biological processed during experiments with corals Porites sp. & Stylophora pistillata, 2010

Uptake of anthropogenic CO2 by the oceans is altering seawater chemistry with potentially serious consequences for coral reef ecosystems due to the reduction of seawater pH and aragonite saturation state (omega arag). The objectives of this long-term study were to investigate the viability of two ecologically important reef-building coral species, massive Porites sp. and Stylophora pistilata, exposed to high pCO2(or low pH) conditions and to observe possible changes in physiologically related parameters as well as skeletal isotopic composition. Fragments of Porites sp. and S. pistilata were kept for 6-14 months under controlled aquarium conditions characterized by normal and elevated pCO2 conditions, corresponding to pHTvalues of 8.09, 7.49, and 7.19, respectively. In contrast with shorter, and therefore more transient experiments, the long experimental timescale achieved in this study ensures complete equilibration and steady state with the experimental environment and guarantees that the data provide insights into viable and stably growing corals. During the experiments, all coral fragments survived and added new skeleton, even at seawater omega arag 1. The delta11B vs. pH offset from the literature seawater delta11B vs. pH fractionation curves suggests a change in the ratio of skeletal material laid down during dark and light calcification and/or an internal pH regulation, presumably controlled by ion-transport enzymes. Finally, seawater pH significantly influences skeletal delta13C and delta18O. This must be taken into consideration when reconstructing paleo-environmental conditions from coral skeleto