Symbiodinium clade C generality among common scleractinian corals in subtropical Hong Kong

Wong, Jane C. Y.; Thompson, Philip D.; Xie, James Y.; Qiu, Jian‐Wen; Baker, David M.

doi:10.1016/j.rsma.2016.02.005

Cited by 24 publications

(15 citation statements)

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“…Phylogenetic reconstruction of internal transcribed spacer 2 genes from different symbionts within clade C and D detected in the reef building corals from this study and previous studies(LaJeunesse et al, 2005;Granados-Cifuentes and Rodriguez-Lanetty, 2011;Seyfabadi et al, 2011;Zhou et al, 2012;Arif et al, 2014;Kavousi et al, 2015;Ng and Ang, 2016;Wong et al, 2016) using neighbor joining algorithms. Sister lineages to clade C represented by F1 (Symbiodinium kawagutii AF333517) and F2 (AF333516) in clade F were used as outgroups.…”

supporting

confidence: 54%

“…Data were submitted to the GenBank under accession number MN630169-MN630173. The ITS2 sequences generated in this study and previous studies (LaJeunesse et al, 2005; Granados-Cifuentes and Rodriguez-Lanetty, 2011; Zhou et al, 2012;Kavousi et al, 2015;Ng and Ang, 2016;Wong et al, 2016) were aligned using CLUSTAL W version 1.8. A phylogenetic tree of ITS2 was constructed using the neighbor-joining algorithms within the MEGA version 7.0 (Kumar et al, 2016).…”

Section: Dna Extraction and Amplicon Sequencingmentioning

confidence: 99%

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Physiological Characteristics and Environment Adaptability of Reef-Building Corals at the Wuzhizhou Island of South China Sea

Feng

Xie

et al. 2020

Front. Physiol.

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supporting

confidence: 54%

Section: Dna Extraction and Amplicon Sequencingmentioning

confidence: 99%

Physiological Characteristics and Environment Adaptability of Reef-Building Corals at the Wuzhizhou Island of South China Sea

Feng

Xie

et al. 2020

Front. Physiol.

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“…To determine the identities of symbiotic algae in the corals, we searched our coral transcriptome data for several gene fragments in two ways. First, we conducted local BLAST against the GeoSymbio database [38] to search for ITS2 genes, after adding the ITS2 Symbiodiniaceae sequences reported from several species of corals in Hong Kong [39]. Our query returned subclade C1 as the best hit sequence in 10 of 13 sequenced corals that have symbionts (i.e.…”

Section: Construction and Contentmentioning

confidence: 99%

Development of a transcriptomic database for 14 species of scleractinian corals

et al. 2019

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Background Scleractinian corals are important reef builders, but around the world they are under the threat of global climate change as well as local stressors. Molecular resources are critical for understanding a species’ stress responses and resilience to the changing environment, but such resources are unavailable for most scleractinian corals, especially those distributed in the South China Sea. We therefore aimed to provide transcriptome resources for 14 common species, including a few structure forming species, in the South China Sea. Description We sequenced the transcriptome of 14 species of scleractinian corals using high-throughput RNA-seq and conducted de novo assembly. For each species, we produced 7.4 to 12.0 gigabases of reads, and assembled them into 271 to 762 thousand contigs with a N50 value of 629 to 1427 bp. These contigs included 66 to 114 thousand unigenes with a predicted open reading frame, and 74.3 to 80.5% of the unigenes were functionally annotated. In the azooxanthelate species Tubastraea coccinea , 41.5% of the unigenes had at least a best-hit sequence from corals. In the other thirteen species, 20.2 to 48.9% of the annotated unigenes had best-hit sequences from corals, and 28.3 to 51.6% from symbiotic algae belonging to the family Symbiodinaceae . With these resources, we developed a transcriptome database (CoralTBase) which features online BLAST and keyword search for unigenes/functional terms through a user friendly Internet interface. Short conclusion We developed comprehensive transcriptome resources for 14 species of scleractinian corals and constructed a publicly accessible database ( www.comp.hkbu.edu.hk/~db/CoralTBase ). CoralTBase will facilitate not only functional studies using these corals to understand the molecular basis of stress responses and adaptation, but also comparative transcriptomic studies with other species of corals and more distantly related cnidarians. Electronic supplementary material The online version of this article (10.1186/s12864-019-5744-8) contains supplementary material, which is available to authorized users.

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“…Therefore, the intraspecific variation in community structure shown in each of the species examined here may be related to environmental differences among host localities (Howells et al, 2012). Because our samples originate from a large spatial range, and since Cladocopium can be found throughout the Indo-Pacific realm (LaJeunesse et al, 2003;Howells et al, 2012;Wham et al, 2014;Wong et al, 2016;Keshavmurthy et al, 2017), our sampling is expected to capture a considerable fraction of the environmental affinities associated with this Symbiodiniaceae genus.…”

Section: Resultsmentioning

confidence: 97%

Peer Review #3 of "Searching for phylogenetic patterns of Symbiodiniaceae community structure among Indo-Pacific Merulinidae corals (v0.2)"

2019

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Over half of all extant stony corals (Cnidaria: Anthozoa: Scleractinia) harbour endosymbiotic dinoflagellates of the family Symbiodiniaceae, forming the foundational species of modern shallow reefs. However, whether these associations are conserved on the coral phylogeny remains unknown. Here we aim to characterise Symbiodiniaceae communities in eight closely-related species in the genera Merulina, Goniastrea and Scapophyllia, and determine if the variation in endosymbiont community structure can be explained by the phylogenetic relatedness among hosts. We perform DNA metabarcoding of the nuclear internal transcribed spacer 2 using Symbiodiniaceae-specific primers on 30 coral colonies to recover three major endosymbiont clades represented by 23 distinct types. In agreement with previous studies on Southeast Asian corals, we find an abundance of Cladocopium and Durusdinium, but also detect Symbiodinium types in three of the eight coral host species. Interestingly, differences in endosymbiont community structure are dominated by host variation at the intraspecific level, rather than interspecific, intergeneric or among-clade levels, indicating a lack of phylogenetic constraint in the coral-endosymbiont association among host species. Furthermore, the limited geographic sampling of four localities spanning the Western and Central Indo-Pacific preliminarily hints at large-scale spatial structuring of Symbiodiniaceae communities. More extensive collections of corals from various regions and environments will help us better understand the specificity of the coral-endosymbiont relationship.

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Symbiodinium clade C generality among common scleractinian corals in subtropical Hong Kong

Cited by 24 publications

References 50 publications

Physiological Characteristics and Environment Adaptability of Reef-Building Corals at the Wuzhizhou Island of South China Sea

Physiological Characteristics and Environment Adaptability of Reef-Building Corals at the Wuzhizhou Island of South China Sea

Development of a transcriptomic database for 14 species of scleractinian corals

Peer Review #3 of "Searching for phylogenetic patterns of Symbiodiniaceae community structure among Indo-Pacific Merulinidae corals (v0.2)"

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