SymPortal

Analytical framework for coral algal symbiont NGS ITS2 profiling

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https://doi.org/10.1111/1755-0998.13004

Notice: From 14.07.2021 new submissions to SymPortal will be embargoed for a period of 1 year.
After this time they will be made public for querying via SymPortal's DataExplorer.
Embargo extensions are available upon request.
Submissions made before 14.07.2021 are unaffected by this change and will remain embargoed indefinitely or until published.
Please see Submit Data for more details.

Community driven

Improved resolution with greater use

Database integrated

Standardisation-enforced central repository

ITS2 type profiling

Sequence-based putative taxa prediction

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Resources
Resource Description Link
Pre-MED sequences Fasta file containing sequences from published samples that have been through the SymPortal quality control pipeline but have not yet been through Minimum Entropy Decomposition. 3,591,132 sequences. Last updated: 2024-02-13.
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Post-MED sequences Fasta file containing sequences from published samples that have been through the SymPortal quality control pipeline and Minimum Entropy Decomposition. 72,040 sequences. Last updated: 2024-02-13.
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Defining Intragenomic Variants (DIVs) Fasta file containing sequences from the SymPortal database that have a name associated to them. These sequences represent either sequences that the SymPortal database was seeded with when it was first created (see associated MS for more details), or sequences that have been used to define an ITS2 type profile (i.e. Defining Intragenomic [Seqeunce] Variant; DIVs). Fasta contains 5,524 sequences. Last updated: 2024-02-13.
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Published articles using SymPortal
Article Title Location #Samples Additional markers Run type Article Data DataExplorer
Terraneo_et_al_2019 Environmental latitudinal gradients and host‐specificity shape Symbiodiniaceae distribution in Red Sea Porites corals Red Sea 80 -- remote
Article
Data
Hume_et_al_2020 Fine-scale delineation of Symbiodiniaceae genotypes on a previously bleached central Red Sea reef system demonstrates a prevalence of coral host-specific associations Red Sea 604 -- remote
Article
Data
Smith_et_al_2020 Low Symbiodiniaceae diversity in a turbid marginal reef environment Singapore 447 psbAncr remote
Article
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Damjanovic_et_al_2019b Mixed‐mode bacterial transmission in the common brooding coral Pocillopora acuta GBR 71 -- remote
Article
Data
Damjanovic_et_al_2019a Bacterial and algal symbiont dynamics in early recruits exposed to two adult coral species GBR 90 -- remote
Article
Data
Howells_et_al_2020 Corals in the hottest reefs in the world exhibit symbiont fidelity not flexibility Persian/Arabian Gulf 373 -- remote
Article
Data
Hume_et_al_2019 SymPortal: A novel analytical framework and platform for coral algal symbiont next‐generation sequencing ITS2 profiling Persian/Arabian Gulf 42 psbAncr remote
Article
Data
Camp_et_al_2019 Mangrove lagoons of the Great Barrier Reef support coral populations persisting under extreme environmental conditions GBR 28 -- remote
Article
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Klein_et_al_2019 Night-time temperature reprieves enhance the thermal tolerance of a symbiotic cnidarian Red Sea 52 -- local&remote
Article
Data
tara_non_corals Tara Pacific ITS2 Symbiodiniaceae data Tara Pacific Expedition 584 -- remote
Article
Data
Lee_et_al_2022 Molecular diversity and assemblages of coral symbionts (Symbiodiniaceae) in diverse scleractinian coral species South China Sea 64 None remote
Article
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Dungan_et_al_2022 Lack of evidence for the oxidative stress theory of bleaching in the sea anemone, Exaiptasia diaphana, under elevated temperature GBR 51 -- remote
Article
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Camp_et_al_2020 Corals exhibit distinct patterns of microbial reorganisation to thrive in an extreme inshore environment New Caledonia 24 -- remote
Article
Data
Porro_et_al_2019 The many faced symbiotic snakelocks anemone (Anemonia viridis, Anthozoa): host and symbiont genetic differentiation among colour morphs. English Channel / France 0 None remote
Article
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Eckert_et_al_2020 Depth influences Symbiodiniaceae associations among Montastraea cavernosa corals on the Belize Barrier Reef Belize 241 None remote
Article
Data
Voolstra_et_al_2020 Standardized short‐term acute heat stress assays resolve historical differences in coral thermotolerance across microhabitat reef sites Red Sea 98 None remote
Article
Data
Butler_et_al_2023 Formal recognition of host-generalist species of dinoflagellate (Cladocopium, Symbiodiniaceae) mutualistic with Indo-Pacific reef corals Indo-Pacific 4 psbAncr remote
Article
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Casariego_et_al_2020 Genome-Wide DNA Methylation Analysis Reveals a Conserved Epigenetic Response to Seasonal Environmental Variation in the Staghorn Coral Acropora cervicornis None 30 None remote
Article
Data
Rouze_et_al_2021 Symbiotic associations of the deepest recorded photosynthetic scleractinian coral (172 m depth) -- 6 -- remote
Article
Data
Nitschke_et_al_2020 Unlocking the phylogenetic diversity, primary habitats, and abundances of free‐living Symbiodiniaceae on a coral reef -- 24 -- remote
Article
Data
Ziegler_et_al_2017 Biogeography and molecular diversity of coral symbionts in the genus Symbiodinium around the Arabian Peninsula Red Sea/PAG 891 None remote
Article
Data
Kriefall_et_al_2022 Reef environments shape microbial partners in a highly connected coral population French Polynesia 96 None remote
Article
Data
Shantz_et_al_2022 Positive interactions between corals and damselfish increase coral resistance to temperature stress French Polynesia 18 None remote
Article
Data
Alderdice_et_al_2022 Deoxygenation lowers the thermal threshold of coral bleaching Bali 8 None remote
Article
Data
Doering_et_al_2023 Comparing the Role of ROS and RNS in the Thermal Stress Response of Two Cnidarian Models, Exaiptasia diaphana and Galaxea fascicularis GBR 87 None remote
Article
Data
Maire_et_al_2023_part_one Assessing the contribution of bacteria to the heat tolerance of experimentally evolved coral photosymbionts None 37 None remote
Article
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Leinbach_et_al_2023 Reef habitats structure symbiotic microalgal assemblages in corals and contribute to differential heat stress responses French Polynesia 189 None remote
Article
Data
Humanes_Lachs_et_al_2022 Within population variability in coral heat tolerance indicates climate adaptation potential Palau 97 None remote --
Data
Bove_et_al_2023 Exposure to global change and microplastics elicits an immune response in an endangered coral None 36 None remote
Article
Data
Maire_et_al_2023_part_two Assessing the contribution of bacteria to the heat tolerance of experimentally evolved coral photosymbionts None 52 None remote
Article
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LaJeunesse_et_al_2022 Mutualistic dinoflagellates with big disparities in ribosomal DNA variation may confound estimates of symbiont diversity and ecology in the jellyfish Cotylorhiza tuberculata Mediterranean Sea 24 None remote
Article
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Marhoefer_et_al_2021 Signatures of Adaptation and Acclimatization to Reef Flat and Slope Habitats in the Coral Pocillopora damicornis GBR 175 None remote
Article
Data
Martinez_et_al_2021 Selection of mesophotic habitats by Oculina patagonica in the Eastern Mediterranean Sea following global warming Mediterranean Sea 18 None remote
Article
Data
Indergard_et_al_2022 Acclimation to elevated temperatures in Acropora cervicornis: effects of host genotype and symbiont shuffling CRF Tavernier 54 None remote
Article
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Haydon_et_al_2023 Metabolomic signatures of corals thriving across extreme reef habitats reveal strategies of heat stress tolerance GBR 40 None remote
Article
Data
Haydon_et_al_2021 Rapid shifts in bacterial communities and homogeneity of Symbiodiniaceae in colonies of Pocillopora acuta transplanted between reef and mangrove environments GBR 33 None remote
Article
Data
Terraneo_et_al_2023 From the shallow to the mesophotic: a characterization of Symbiodiniaceae diversity in the Red Sea NEOM region Red Sea 50 None remote
Article
Data
Lachs_et_al_2023 No apparent trade-offs associated with heat tolerance in a reef-building coral Palau 51 None remote
Article
Data
Fifer_et_al_2020_part_one Microbiome structuring within a coral colony and along a sedimentation gradient Guam 71 None remote
Article
Data
Fifer_et_al_2020_part_two Microbiome structuring within a coral colony and along a sedimentation gradient Guam 58 None remote
Article
Data
20220419_GuamWild_bentlage Photosystem regulation in coral-associated dinoflagellates (Symbiodiniaceae) is the primary mode for seasonal acclimation Guam 91 None remote
Article
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Sturm_et_al_2022 Depth-dependent genetic structuring of a depth-generalist coral and its Symbiodiniaceae algal communities at Campeche Bank, Mexico Gulf of Mexico 124 None remote
Article
Data
Rossbach_Hume_et_al_2021 Flexibility in Red Sea Tridacna maxima‐Symbiodiniaceae associations supports environmental niche adaptation Red Sea 50 -- remote
Article
Data
Puntin_et_al_2023 The reef-building coral Galaxea fascicularis: a new model system for coral symbiosis research Red Sea, Hong Kong 29 None remote
Article
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tara_negatives Tara Pacific ITS2 Symbiodiniaceae data Tara Pacific Expedition 143 -- remote
Article
Data
tara_coral Tara Pacific ITS2 Symbiodiniaceae data Tara Pacific Expedition 2583 -- remote
Article
Data
Liberman_et_al_2022 Octocorals in the Gulf of Aqaba exhibit high photosymbiont fidelity Gulf of Aqaba 51 cp23S remote
Article
Data
Grima_et_al_2022 Species-specific elementomes for scleractinian coral hosts and their associated Symbiodiniaceae GBR 66 None remote
Article
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Jacobs_et_al_2021 A phylogenomic examination of Palmyra Atoll’s corallimorpharian invader Palmyra 4 None remote
Article
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Jiang_et_al_2021 Plasticity of symbiont acquisition in new recruits of the massive coral Platygyra daedalea under ocean warming and acidification Luhuitou fringing reef 25 None remote
Article
Data
de_Souza_et_al_2023 Importance of depth and temperature variability as drivers of coral symbiont composition despite a mass bleaching event Hawaii 276 None remote
Article
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Nunez-Pons_et_al_2023 Hawaiian coral holobionts reveal algal and prokaryotic host specificity, intraspecific variability in bleaching resistance, and common interspecific microbial consortia modulating thermal stress responses Hawaii 352 None remote
Article
Data
Scharfenstein_et_al_2022 Evidence for de novo acquisition of microalgal symbionts by bleached adult corals Australia 96 None remote
Article
Data
Lewis_et_al_2022 Colony self-shading facilitates Symbiodiniaceae cohabitation in a South Pacific coral community Cook Islands 248 psbAncr remote
Article
Data
Gardner_et_al_2019 Coral microbiome diversity reflects mass coral bleaching susceptibility during the 2016 El Niño heat wave Seychelles 52 -- remote
Article
Data

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