Efficacy of the 28S rDNA barcode in differentiating Caribbean octocorals
The ecological landscape of Caribbean reefs is rapidly changing as octocorals fill the void left by declining scleractinian populations. Effective molecular barcodes are necessary to accurately identify these octocorals and monitor this shifting ecosystem. We tested the efficacy of the 28S rDNA as a...
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| Language: | English |
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Pensoft Publishers
2024-12-01
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| Series: | Biodiversity Data Journal |
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| Online Access: | https://bdj.pensoft.net/article/140454/download/pdf/ |
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| author | Sloan Senofsky Isabel Zamudio Brittany Pan Catherine McFadden |
| author_facet | Sloan Senofsky Isabel Zamudio Brittany Pan Catherine McFadden |
| author_sort | Sloan Senofsky |
| collection | DOAJ |
| description | The ecological landscape of Caribbean reefs is rapidly changing as octocorals fill the void left by declining scleractinian populations. Effective molecular barcodes are necessary to accurately identify these octocorals and monitor this shifting ecosystem. We tested the efficacy of the 28S rDNA as a barcode compared to the most commonly used mtMutS barcode on a collection of octocorals from across the Caribbean. Based on pairwise genetic distance values, 28S appeared to be more effective at differentiating species within the families Plexauridae and Gorgoniidae, while mtMutS was slightly more effective at distinguishing species of Pterogorgiidae. However, the standard 28S rDNA primers did not amplify all species as effectively as mtMutS, especially those belonging to the genus Eunicea. A shorter 28S barcode developed for eDNA applications distinguished species as effectively as the complete 28S barcode. |
| format | Article |
| id | doaj-art-ca74db24f9f1474b9da092ca5620deee |
| institution | Kabale University |
| issn | 1314-2828 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Pensoft Publishers |
| record_format | Article |
| series | Biodiversity Data Journal |
| spelling | doaj-art-ca74db24f9f1474b9da092ca5620deee2024-12-29T08:31:54ZengPensoft PublishersBiodiversity Data Journal1314-28282024-12-011211310.3897/BDJ.12.e140454140454Efficacy of the 28S rDNA barcode in differentiating Caribbean octocoralsSloan Senofsky0Isabel Zamudio1Brittany Pan2Catherine McFadden3Harvey Mudd CollegeHarvey Mudd CollegeHarvey Mudd CollegeHarvey Mudd CollegeThe ecological landscape of Caribbean reefs is rapidly changing as octocorals fill the void left by declining scleractinian populations. Effective molecular barcodes are necessary to accurately identify these octocorals and monitor this shifting ecosystem. We tested the efficacy of the 28S rDNA as a barcode compared to the most commonly used mtMutS barcode on a collection of octocorals from across the Caribbean. Based on pairwise genetic distance values, 28S appeared to be more effective at differentiating species within the families Plexauridae and Gorgoniidae, while mtMutS was slightly more effective at distinguishing species of Pterogorgiidae. However, the standard 28S rDNA primers did not amplify all species as effectively as mtMutS, especially those belonging to the genus Eunicea. A shorter 28S barcode developed for eDNA applications distinguished species as effectively as the complete 28S barcode.https://bdj.pensoft.net/article/140454/download/pdf/gorgonianeDNAspecies delimitationmtMutS |
| spellingShingle | Sloan Senofsky Isabel Zamudio Brittany Pan Catherine McFadden Efficacy of the 28S rDNA barcode in differentiating Caribbean octocorals Biodiversity Data Journal gorgonian eDNA species delimitation mtMutS |
| title | Efficacy of the 28S rDNA barcode in differentiating Caribbean octocorals |
| title_full | Efficacy of the 28S rDNA barcode in differentiating Caribbean octocorals |
| title_fullStr | Efficacy of the 28S rDNA barcode in differentiating Caribbean octocorals |
| title_full_unstemmed | Efficacy of the 28S rDNA barcode in differentiating Caribbean octocorals |
| title_short | Efficacy of the 28S rDNA barcode in differentiating Caribbean octocorals |
| title_sort | efficacy of the 28s rdna barcode in differentiating caribbean octocorals |
| topic | gorgonian eDNA species delimitation mtMutS |
| url | https://bdj.pensoft.net/article/140454/download/pdf/ |
| work_keys_str_mv | AT sloansenofsky efficacyofthe28srdnabarcodeindifferentiatingcaribbeanoctocorals AT isabelzamudio efficacyofthe28srdnabarcodeindifferentiatingcaribbeanoctocorals AT brittanypan efficacyofthe28srdnabarcodeindifferentiatingcaribbeanoctocorals AT catherinemcfadden efficacyofthe28srdnabarcodeindifferentiatingcaribbeanoctocorals |