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Symbiodinium genomes reveal adaptive evolution of functions related to symbiosis
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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Dinoflagellate mitochondrial genomes: stretching the rules of molecular biology
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Using a meiosis detection toolkit to investigate ancient asexual “scandals” and the evolution of sex
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Fission yeast rad17: a homologue of budding yeast RAD24 that shares regions of sequence similarity with DNA polymerase accessory proteins.
inferredcites →https://doi.org/10.1007/bf00446754openalex-snapshot
Base composition of DNA from symbiotic dinoflagellates: a tool for phylogenetic classification
inferredcites →https://doi.org/10.1007/bf01731581openalex-snapshot
A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
inferredcites →https://doi.org/10.1007/s00227-010-1392-xopenalex-snapshot
Immunocytochemical evidence that symbiotic algae secrete potential recognition signal molecules in hospite
inferredcites →https://doi.org/10.1007/s00338-017-1568-7openalex-snapshot
Prevalent and persistent viral infection in cultures of the coral algal endosymbiont Symbiodinium
inferredcites →https://doi.org/10.1007/s003380050073openalex-snapshot
Oxidative stress causes coral bleaching during exposure to elevated temperatures
inferredcites →https://doi.org/10.1007/s11103-007-9258-4openalex-snapshot
Reme1, a Copia retrotransposon in melon, is transcriptionally induced by UV light
inferredcites →https://doi.org/10.1007/s12010-015-1676-1openalex-snapshot
Cyanobacterial Sunscreen Scytonemin: Role in Photoprotection and Biomedical Research
inferredcites →https://doi.org/10.1016/j.cub.2013.05.062openalex-snapshot
Draft Assembly of the Symbiodinium minutum Nuclear Genome Reveals Dinoflagellate Gene Structure
inferredcites →https://doi.org/10.1016/j.jenvman.2016.07.038openalex-snapshot
Ocean acidification: Linking science to management solutions using the Great Barrier Reef as a case study
inferredcites →https://doi.org/10.1016/j.protis.2013.09.006openalex-snapshot
The Chloroplast Genome of a Symbiodinium sp. Clade C3 Isolate
inferredcites →https://doi.org/10.1016/j.resmic.2011.04.006openalex-snapshot
Genomic understanding of dinoflagellates
inferredcites →https://doi.org/10.1016/j.tig.2008.04.001openalex-snapshot
Dinoflagellates: a mitochondrial genome all at sea
inferredcites →https://doi.org/10.1016/j.ympev.2010.03.040openalex-snapshot
A new Symbiodinium clade (Dinophyceae) from soritid foraminifera in Hawai’i
inferredcites →https://doi.org/10.1016/s0022-0981(00)00192-1openalex-snapshot
The synthesis of mycosporine-like amino acids (MAAs) by cultured, symbiotic dinoflagellates
inferredcites →https://doi.org/10.1021/ja807192uopenalex-snapshot
Investigating the Initial Steps in the Biosynthesis of Cyanobacterial Sunscreen Scytonemin
inferredcites →https://doi.org/10.1038/22099openalex-snapshot
Single gene circles in dinoflagellate chloroplast genomes
inferredcites →https://doi.org/10.1038/267275a0openalex-snapshot
Preponderance of synonymous changes as evidence for the neutral theory of molecular evolution
inferredcites →https://doi.org/10.1038/nature10249openalex-snapshot
Using the Acropora digitifera genome to understand coral responses to environmental change
inferredcites →https://doi.org/10.1038/nature21707openalex-snapshot
Global warming and recurrent mass bleaching of corals
inferredcites →https://doi.org/10.1038/nclimate1330openalex-snapshot
Coral thermal tolerance shaped by local adaptation of photosymbionts
inferredcites →https://doi.org/10.1038/nrg1985openalex-snapshot
The evolution of sex: empirical insights into the roles of epistasis and drift
inferredcites →https://doi.org/10.1038/srep09983openalex-snapshot
Bicarbonate transporters in corals point towards a key step in the evolution of cnidarian calcification
inferredcites →https://doi.org/10.1038/srep23181openalex-snapshot
A Stress-Activated Transposon in Arabidopsis Induces Transgenerational Abscisic Acid Insensitivity
inferredcites →https://doi.org/10.1038/srep39734openalex-snapshot
Genomes of coral dinoflagellate symbionts highlight evolutionary adaptations conducive to a symbiotic lifestyle
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HYPERMETHYLATION AT CPG‐MOTIFS IN THE DINOFLAGELLATES AMPHIDINIUM CARTERAE (DINOPHYCEAE) AND SYMBIODINIUM MICROADRIATICUM (DINOPHYCEAE): EVIDENCE FROM RESTRICTION ANALYSES, 5‐AZACYTIDINE AND ETHIONINE TREATMENT
inferredcites →https://doi.org/10.1046/j.1529-8817.2000.00010.xopenalex-snapshot
CONSPECIFICITY AND INDO‐PACIFIC DISTRIBUTION OF SYMBIODINIUM GENOTYPES (DINOPHYCEAE) FROM GIANT CLAMS
inferredcites →https://doi.org/10.1046/j.1529-8817.2001.01031.xopenalex-snapshot
INVESTIGATING THE BIODIVERSITY, ECOLOGY, AND PHYLOGENY OF ENDOSYMBIOTIC DINOFLAGELLATES IN THE GENUS SYMBIODINIUM USING THE ITS REGION: IN SEARCH OF A “SPECIES” LEVEL MARKER
inferredcites →https://doi.org/10.1071/mf99078openalex-snapshot
Climate change, coral bleaching and the future of the world's coral reefs
inferredcites →https://doi.org/10.1073/pnas.0504068102openalex-snapshot
Highways of gene sharing in prokaryotes
inferredcites →https://doi.org/10.1073/pnas.1017351108openalex-snapshot
High-quality draft assemblies of mammalian genomes from massively parallel sequence data
inferredcites →https://doi.org/10.1073/pnas.1411260111openalex-snapshot
Stress and the dynamic genome: Steroids, epigenetics, and the transposome
inferredcites →https://doi.org/10.1073/pnas.1413483112openalex-snapshot
Coral host cells acidify symbiotic algal microenvironment to promote photosynthesis
inferredcites →https://doi.org/10.1073/pnas.1501725112openalex-snapshot
Sex is a ubiquitous, ancient, and inherent attribute of eukaryotic life
inferredcites →https://doi.org/10.1073/pnas.1513318112openalex-snapshot
The genome of Aiptasia , a sea anemone model for coral symbiosis
inferredcites →https://doi.org/10.1089/cmb.2012.0021openalex-snapshot
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
inferredcites →https://doi.org/10.1093/bioinformatics/btm071openalex-snapshot
CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes
inferredcites →https://doi.org/10.1093/bioinformatics/btp348openalex-snapshot
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
inferredcites →https://doi.org/10.1093/bioinformatics/btv351openalex-snapshot
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
inferredcites →https://doi.org/10.1093/gbe/evr008openalex-snapshot
Genome Size and Transposable Element Content as Determined by High-Throughput Sequencing in Maize and Zea luxurians
inferredcites →https://doi.org/10.1093/jxb/erm292openalex-snapshot
The remarkable chloroplast genome of dinoflagellates
inferredcites →https://doi.org/10.1093/molbev/msg233openalex-snapshot
PCP Gene Family in Symbiodinium from Hippopus hippopus: Low Levels of Concerted Evolution, Isoform Diversity, and Spectral Tuning of Chromophores
inferredcites →https://doi.org/10.1093/molbev/msi042openalex-snapshot
“Species” Radiations of Symbiotic Dinoflagellates in the Atlantic and Indo-Pacific Since the Miocene-Pliocene Transition
inferredcites →https://doi.org/10.1093/molbev/msi118openalex-snapshot
Tertiary Endosymbiosis Driven Genome Evolution in Dinoflagellate Algae
inferredcites →https://doi.org/10.1093/molbev/msm088openalex-snapshot
PAML 4: Phylogenetic Analysis by Maximum Likelihood
inferredcites →https://doi.org/10.1093/molbev/msu300openalex-snapshot
IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
inferredcites →https://doi.org/10.1093/molbev/msw119openalex-snapshot
Sex, Scavengers, and Chaperones: Transcriptome Secrets of DivergentSymbiodiniumThermal Tolerances
inferredcites →https://doi.org/10.1093/nar/gkg770openalex-snapshot
Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies
inferredcites →https://doi.org/10.1093/nar/gki198openalex-snapshot
MAFFT version 5: improvement in accuracy of multiple sequence alignment
inferredcites →https://doi.org/10.1093/nar/gki937openalex-snapshot
Gene identification in novel eukaryotic genomes by self-training algorithm
inferredcites →https://doi.org/10.1093/nar/gkl200openalex-snapshot
AUGUSTUS: ab initio prediction of alternative transcripts
inferredcites →https://doi.org/10.1093/nar/gkl315openalex-snapshot
PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments
inferredcites →https://doi.org/10.1093/nar/gkr1293openalex-snapshot
MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity
inferredcites →https://doi.org/10.1093/oxfordjournals.jbchem.a021415openalex-snapshot
X-Irradiation Activates the Drosophila 1731 Retrotransposon LTR and Stimulates Secretion of an Extracellular Factor That Induces the 1731-LTR Transcription in Nonirradiated Cells
inferredcites →https://doi.org/10.1098/rsos.140297openalex-snapshot
Prevalent endosymbiont zonation shapes the depth distributions of scleractinian coral species
inferredcites →https://doi.org/10.1104/pp.111.173500openalex-snapshot
Plastid Origin and Evolution: New Models Provide Insights into Old Problems
inferredcites →https://doi.org/10.1104/pp.112.207480openalex-snapshot
Thermal Acclimation of the Symbiotic Alga Symbiodinium spp. Alleviates Photobleaching under Heat Stress
inferredcites →https://doi.org/10.1110/ps.03554604openalex-snapshot
The ankyrin repeat as molecular architecture for protein recognition
inferredcites →https://doi.org/10.1111/evo.12270openalex-snapshot
HOST-SPECIALIST LINEAGES DOMINATE THE ADAPTIVE RADIATION OF REEF CORAL ENDOSYMBIONTS
inferredcites →https://doi.org/10.1111/gcb.13639openalex-snapshot
Restricted gene flow and local adaptation highlight the vulnerability of high‐latitude reefs to rapid environmental change
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CHARACTERIZATION AND BIOLOGICAL IMPLICATIONS OF SCYTONEMIN, A CYANOBACTERIAL SHEATH PIGMENT 1
inferredcites →https://doi.org/10.1111/j.0022-3646.2005.04231.xopenalex-snapshot
SYMBIODINIUM (PYRRHOPHYTA) GENOME SIZES (DNA CONTENT) ARE SMALLEST AMONG DINOFLAGELLATES1
inferredcites →https://doi.org/10.1111/j.1365-2486.1996.tb00063.xopenalex-snapshot
Coral reef bleaching: facts, hypotheses and implications
inferredcites →https://doi.org/10.1111/j.1365-294x.2005.02545.xopenalex-snapshot
Diversity of algal endosymbionts (zooxanthellae) in octocorals: the roles of geography and host relationships
inferredcites →https://doi.org/10.1111/j.1365-294x.2011.05357.xopenalex-snapshot
Genotypic diversity and spatial–temporal distribution of Symbiodinium clones in an abundant reef coral
inferredcites →https://doi.org/10.1111/j.1462-5822.2006.00765.xopenalex-snapshot
Lectin/glycan interactions play a role in recognition in a coral/dinoflagellate symbiosis
inferredcites →https://doi.org/10.1111/j.1529-8817.1993.tb00280.xopenalex-snapshot
MACROMOLECULES EXUDED BY SYMBIOTIC DINOFLAGELLATES IN CULTURE: AMINO ACID AND SUGAR COMPOSITION1
inferredcites →https://doi.org/10.1111/j.1529-8817.2010.00819.xopenalex-snapshot
FLOW‐CYTOMETRIC CHARACTERIZATION OF THE CELL‐SURFACE GLYCANS OF SYMBIOTIC DINOFLAGELLATES (SYMBIODINIUM SPP.)1
inferredcites →https://doi.org/10.1111/j.1550-7408.1962.tb02579.xopenalex-snapshot
Symbiodinium gen. nov. and Symbiodinium microadriaticum sp. nov., a Zooxanthella: Taxonomy, Life Cycle, and Morphology.*
inferredcites →https://doi.org/10.1111/jeu.12110openalex-snapshot
Cryptic Sex in Symbiodinium (Alveolata, Dinoflagellata) is Supported by an Inventory of Meiotic Genes
inferredcites →https://doi.org/10.1111/jpy.12529openalex-snapshot
Robust Dinoflagellata phylogeny inferred from public transcriptome databases
inferredcites →https://doi.org/10.1111/mec.13659openalex-snapshot
The transcriptomic response of the coral Acropora digitifera to a competent Symbiodinium strain: the symbiosome as an arrested early phagosome
inferredcites →https://doi.org/10.1126/sciadv.1601122openalex-snapshot
Photosymbiosis and the expansion of shallow-water corals
inferredcites →https://doi.org/10.1126/sciadv.1602373openalex-snapshot
Deep reefs are not universal refuges: Reseeding potential varies among coral species
inferredcites →https://doi.org/10.1126/science.1193637openalex-snapshot
The Genetic and Molecular Basis for Sunscreen Biosynthesis in Cyanobacteria
inferredcites →https://doi.org/10.1126/science.988637openalex-snapshot
Hydroxymethyluracil in Eukaryote DNA: A Natural Feature of the Pyrrophyta (Dinoflagellates)
inferredcites →https://doi.org/10.1126/science.aad0408openalex-snapshot
The Symbiodinium kawagutii genome illuminates dinoflagellate gene expression and coral symbiosis
inferredcites →https://doi.org/10.1128/aem.01633-16openalex-snapshot
Comparative Profiling and Discovery of Novel Glycosylated Mycosporine-Like Amino Acids in Two Strains of the Cyanobacterium Scytonema cf. crispum
inferredcites →https://doi.org/10.1128/aem.05870-11openalex-snapshot
Mycosporine-Like Amino Acids from Coral Dinoflagellates
inferredcites →https://doi.org/10.1128/jb.00134-09openalex-snapshot
Gene Expression Patterns Associated with the Biosynthesis of the Sunscreen Scytonemin in Nostoc punctiforme ATCC 29133 in Response to UVA Radiation
inferredcites →https://doi.org/10.1128/jb.01816-06openalex-snapshot
Molecular Genetics and Genomic Analysis of Scytonemin Biosynthesis in Nostoc punctiforme ATCC 29133
inferredcites →https://doi.org/10.1128/mmbr.05014-11openalex-snapshot
Cell Biology of Cnidarian-Dinoflagellate Symbiosis
inferredcites →https://doi.org/10.1186/1471-2105-12-491openalex-snapshot
MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects
inferredcites →https://doi.org/10.1186/1471-2105-5-45openalex-snapshot
A hybrid clustering approach to recognition of protein families in 114 microbial genomes
inferredcites →https://doi.org/10.1186/1471-2164-10-624openalex-snapshot
Potential impact of stress activated retrotransposons on genome evolution in a marine diatom
inferredcites →https://doi.org/10.1186/1471-2164-8-218openalex-snapshot
LTR retrotransposons in rice (Oryza sativa, L.): recent burst amplifications followed by rapid DNA loss
inferredcites →https://doi.org/10.1186/1472-6785-13-7openalex-snapshot
SymbioGBR: a web-based database of Symbiodinium associated with cnidarian hosts on the Great Barrier Reef
inferredcites →https://doi.org/10.1186/1472-6785-9-21openalex-snapshot
Generalist dinoflagellate endosymbionts and host genotype diversity detected from mesophotic (67-100 m depths) coral Leptoseris
inferredcites →https://doi.org/10.1186/1741-7007-5-41openalex-snapshot
Broad genomic and transcriptional analysis reveals a highly derived genome in dinoflagellate mitochondria
inferredcites →https://doi.org/10.1186/gb-2008-9-1-r7openalex-snapshot
Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments
inferredcites →https://doi.org/10.1186/s13059-015-0721-2openalex-snapshot
OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy
inferredcites →https://doi.org/10.1214/aos/1013699998openalex-snapshot
The control of the false discovery rate in multiple testing under dependency
inferredcites →https://doi.org/10.1242/jcs.64.1.195openalex-snapshot
Endocytosis of the symbiotic dinoflagellate Symbiodinium microadriaticum freudenthal by endodermal cells of the scyphistomae of Cassiopeia xamachana and resistance of the algae to host digestion
inferredcites →https://doi.org/10.1371/journal.pbio.1001889openalex-snapshot
The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing
inferredcites →https://doi.org/10.1371/journal.pgen.1006619openalex-snapshot
Condition-specific RNA editing in the coral symbiont Symbiodinium microadriaticum
inferredcites →https://doi.org/10.1371/journal.pone.0002879openalex-snapshot
An Expanded Inventory of Conserved Meiotic Genes Provides Evidence for Sex in Trichomonas vaginalis
inferredcites →https://doi.org/10.1371/journal.pone.0022594openalex-snapshot
MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons
inferredcites →https://doi.org/10.1371/journal.pone.0025026openalex-snapshot
The Diversity of Coral Reefs: What Are We Missing?
inferredcites →https://doi.org/10.2307/1218702openalex-snapshot
II. IMPLICATIONS AND EXTENSIONS OF THE SERIAL ENDOSYMBIOSIS THEORY OF THE ORIGIN OF EUKARYOTES
inferredcites →https://doi.org/10.2307/1297526openalex-snapshot
Reef Corals: Mutualistic Symbioses Adapted to Nutrient-Poor Environments
inferredcites →https://doi.org/10.2307/1309663openalex-snapshot
Light and the Bioenergetics of a Symbiotic Coral
inferredcites →https://doi.org/10.2307/1543491openalex-snapshot
Molecular Genetic Evidence that Dinoflagellates Belonging to the GenusSymbiodiniumFreudenthal Are Haploid
inferredcites →https://doi.org/10.3389/fmicb.2014.00336openalex-snapshot
A genomic approach to coral-dinoflagellate symbiosis: studies of Acropora digitifera and Symbiodinium minutum
inferredcites →https://doi.org/10.4161/cc.6.18.4751openalex-snapshot
The Transcription Stress Response
inferredcites →https://doi.org/10.4319/lo.1996.41.2.0271openalex-snapshot
Elevated temperatures and ultraviolet radiation cause oxidative stress and inhibit photosynthesis in ymbiotic dinoflagellates
inferredcites →https://doi.org/10.4319/lo.2003.48.5.2046openalex-snapshot
Low symbiont diversity in southern Great Barrier Reef corals, relative to those of the Caribbean
inferredcites →https://doi.org/10.5808/gi.2014.12.3.87openalex-snapshot
Transposable Elements and Genome Size Variations in Plants
inferredcites →https://doi.org/10.7554/elife.24494openalex-snapshot
A diverse host thrombospondin-type-1 repeat protein repertoire promotes symbiont colonization during establishment of cnidarian-dinoflagellate symbiosis
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1016/j.hal.2021.102079openalex-snapshot
Omics study of harmful algal blooms in China: Current status, challenges, and future perspectives
inferred← citeshttps://doi.org/10.1016/j.scitotenv.2019.135767openalex-snapshot
RNA-seq profiling of Fugacium kawagutii reveals strong responses in metabolic processes and symbiosis potential to deficiencies of iron and other trace metals
inferred← citeshttps://doi.org/10.1038/s41467-018-03724-9openalex-snapshot
Recurrent acquisition of cytosine methyltransferases into eukaryotic retrotransposons
inferred← citeshttps://doi.org/10.1126/science.aba4674openalex-snapshot
Population genetics of the coral Acropora millepora : Toward genomic prediction of bleaching
inferred← citeshttps://doi.org/10.1371/journal.pone.0270965openalex-snapshot
Transfer of knowledge from model organisms to evolutionarily distant non-model organisms: The coral Pocillopora damicornis membrane signaling receptome
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