Molecular Cytogenetic Analysis of the Scleractinian Coral<i>Acropora solitaryensis</i>Veron &amp; Wallace 1984

Taguchi, Takahiro; Mezaki, Takuma; Iwase, Fumihito; Sekida, Satoko; Kubota, Shin; Fukami, Hironobu; Okuda, K; Shinbo, Teruyuki; Oshima, Syun-ichirou; Iiguni, Yoshiaki; Testa, Joseph R.; Tominaga, Akira

doi:10.2108/zsj.31.89

Cited by 14 publications

(22 citation statements)

References 31 publications

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“…Of the 1,430 HQ SNPs used for linkage analysis, we were able to assign most (87%) to linkage groups with high confidence (LOD scores ≥ 8). Most of the mapped markers (998, or 81% of mapped markers) were captured in the 16 largest linkage groups (LGs), a biologically plausible number comparable to the range of haploid chromosome numbers (n) reported in other Scleractinian corals (n = 14-27; [67][68][69]). Because chromosome numbers have not been directly determined in O. faveolata, we included all linkage groups containing sufficient markers to provide meaningful information on large-scale genomic structure (>20 markers) rather than selecting a number of groups based on prior expectations.…”

Section: Development Of a Genetic Linkage Mapmentioning

confidence: 80%

“…While the haploid number of chromosomes in O. faveolata has not been empirically determined, our analysis of recombination frequencies identified 16 linkage groups that we hypothesize represent chromosomes or portions of chromosomes. For comparison, data on haploid chromosome numbers (karyotype) are available for multiple (31) coral species [20,[69][70][71][72], and these range from n=12 to n=27 across all Scleractinian corals measured. The Scleractinian phylogeny includes two major clades (called robust and complex) that probably diverged >240 mya [73].…”

Section: Discussionmentioning

confidence: 99%

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Development of an integrated genomic map for a threatened Caribbean coral (Orbicella faveolata)

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Dziedzic

Guermond

et al. 2017

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Genomic methods are powerful tools for studying evolutionary responses to selection, but the application of these tools in non-model systems threatened by climate change has been limited by the availability of genomic resources in those systems. High-throughput DNA sequencing has enabled development of genome and transcriptome assemblies in non-model systems including reef-building corals, but the fragmented nature of early draft assemblies often obscures the relative positions of genes and genetic markers, and limits the functional interpretation of genomic studies in these systems. To address this limitation and improve genomic resources for the study of adaptation to ocean warming in corals, we've developed a genetic linkage map for the mountainous star coral, Orbicella faveolata. We analyzed genetic linkage among multilocus SNP genotypes to infer the relative positions of markers, transcripts, and genomic scaffolds in an integrated genomic map. To illustrate the utility of this resource, we tested for genetic associations with bleaching responses and fluorescence phenotypes, and estimated genomewide patterns of population differentiation. Mapping the significant markers identified from these analyses in the integrated genomic resource identified hundreds of genes linked to significant markers, highlighting the utility of this resource for genomic studies of corals. The functional interpretations drawn from genomic studies are often limited by the availability of genomic resources linking genes to genetic markers. The resource developed in this study provides a framework for comparing genetic studies of O. faveolata across genotyping methods or references, and illustrates an approach for integrating genomic resources that may be broadly useful in other non-model systems.

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Section: Development Of a Genetic Linkage Mapmentioning

confidence: 80%

Section: Discussionmentioning

confidence: 99%

Development of an integrated genomic map for a threatened Caribbean coral (Orbicella faveolata)

Snelling

Dziedzic

Guermond

et al. 2017

Preprint

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“…The corresponding system determinations are poorly known: a few ESD examples have been reported but no examples of GSD have so far been confirmed among non-bilaterians [6]. A cytogenetic analysis has shown a clear evidence of potential sex chromosomes in a scleractinian [7] but the role of these chromosomes in sex determination remains to be studied as this species is hermaphroditic. Gonochorism is highly predominant in octocorals (89% of the species [8]), even if cases of rapid transition between gonochorism and hermaphrodism have been demonstrated in the genus Alcyonium [9].…”

Section: Introductionmentioning

confidence: 99%

Evidence for a genetic sex determination in Cnidaria, the Mediterranean red coral (Corallium rubrum)

et al. 2017

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Sexual reproduction is widespread among eukaryotes, and the sex-determining processes vary greatly among species. While genetic sex determination (GSD) has been intensively described in bilaterian species, no example has yet been recorded among non-bilaterians. However, the quasi-ubiquitous repartition of GSD among multicellular species suggests that similar evolutionary forces can promote this system, and that these forces could occur also in non-bilaterians. Studying sex determination across the range of Metazoan diversity is indeed important to understand better the evolution of this mechanism and its lability. We tested the existence of sex-linked genes in the gonochoric red coral (Corallium rubrum, Cnidaria) using restriction site-associated DNA sequencing. We analysed 27 461 single nucleotide polymorphisms (SNPs) in 354 individuals from 12 populations including 53 that were morphologically sexed. We found a strong association between the allele frequencies of 472 SNPs and the sex of individuals, suggesting an XX/XY sex-determination system. This result was confirmed by the identification of 435 male-specific loci. An independent test confirmed that the amplification of these loci enabled us to identify males with absolute certainty. This is the first demonstration of a GSD system among non-bilaterian species and a new example of its convergence in multicellular eukaryotes.

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“…To solve the controversial taxonomic issue (Fukami et al 2004) and develop an understanding of coral genetics, we have been accumulating molecular cytogenetic data of scleractinian corals. So far, we have published three molecular cytogenetic reports using FISH on scleractinian corals, such as A. solitaryensis, E. aspera, and C. aspera (Taguchi et al 2013(Taguchi et al , 2014(Taguchi et al , 2016, which are commonly found on the western coast of Japan (Wallace 1999). The present study is our fourth report and concerns P. contorta; it is a different genus from our previous studies but is classified in the same family Merulinidae with C. aspera.…”

Section: Discussionmentioning

confidence: 60%

“…So far, we have reported molecular cytogenetic information on three species of stony corals, such as Acropora solitaryensis (family Acroporidae), Coleostrea aspera (family Merulinidae), and Echinophillia aspera (family Lobophylliidae). Our studies on these three species have led to several new findings, such as precise and consistent numbers of chromosomes, rRNA gene loci, and the presence of a homogenously staining region (hsr), consisting of rDNA and some coral repeated sequences shared with humans (Taguchi et al 2013(Taguchi et al , 2014(Taguchi et al , 2016.…”

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confidence: 99%

Molecular Cytogenetic Analysis and Isolation of a 5S rRNA-Related Marker in the Scleractinian Coral <i>Platygyra contorta</i> Veron 1990 (Hexacorallia, Anthozoa, Cnidaria)

et al. 2017

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A molecular cytogenetic analysis was conducted on the scleractinian coral Platygyra contorta, which is commonly found along temperate coasts in Japan. P. contorta was karyotyped (2n=28) by conventional G-and C-bandings, and the karyogram revealed that about 50% of the metaphase spreads had a homogenously staining region (hsr) in the terminal portion of the long arm of chromosome 12. Fluorescence in situ hybridization (FISH) showed that this hsr consisted of rRNA genes (rDNA) stained by C-banding. The presence of an hsr, which is a highly amplified rDNA, may explain the molecular diversity of coral rDNA. FISH visualized and demonstrated the presence of a telomere motif (TTA GGG) n in this coral using a human telomere probe. Furthermore, we isolated a specific FISH marker (312 bp) designated PC-T1, which was located near the centromere of chromosome 11. A sequence analysis revealed that the terminal part of PC-T1 (51 bp from the 3′ end) was 90% homologous with a Montipora capitate microsatellite and the Actinia equine 5S rRNA gene. Isolating FISH markers will assist the classification of scleractinian corals with the progression on describing their genome. The data obtained in this study will be valuable for discriminating species among scleractinian corals and understanding their genetics, including chromosomal evolution.

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Molecular Cytogenetic Analysis of the Scleractinian CoralAcropora solitaryensisVeron & Wallace 1984

Cited by 14 publications

References 31 publications

Development of an integrated genomic map for a threatened Caribbean coral (Orbicella faveolata)

Development of an integrated genomic map for a threatened Caribbean coral (Orbicella faveolata)

Evidence for a genetic sex determination in Cnidaria, the Mediterranean red coral (Corallium rubrum)

Molecular Cytogenetic Analysis and Isolation of a 5S rRNA-Related Marker in the Scleractinian Coral <i>Platygyra contorta</i> Veron 1990 (Hexacorallia, Anthozoa, Cnidaria)

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