The Draft Genome and Transcriptome of the Atlantic Horseshoe Crab, Limulus polyphemus
The horseshoe crab, Limulus polyphemus, exhibits robust circadian and circatidal rhythms, but little is known about the molecular mechanisms underlying those rhythms. In this study, horseshoe crabs were collected during the day and night as well as high and low tides, and their muscle and central ne...
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| Format: | Article |
| Language: | English |
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Wiley
2017-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2017/7636513 |
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| author | Stephen D. Simpson Jordan S. Ramsdell Winsor H. Watson III Christopher C. Chabot |
| author_facet | Stephen D. Simpson Jordan S. Ramsdell Winsor H. Watson III Christopher C. Chabot |
| author_sort | Stephen D. Simpson |
| collection | DOAJ |
| description | The horseshoe crab, Limulus polyphemus, exhibits robust circadian and circatidal rhythms, but little is known about the molecular mechanisms underlying those rhythms. In this study, horseshoe crabs were collected during the day and night as well as high and low tides, and their muscle and central nervous system tissues were processed for genome and transcriptome sequencing, respectively. The genome assembly resulted in 7.4×105 contigs with N50 of 4,736, while the transcriptome assembly resulted in 9.3×104 contigs and N50 of 3,497. Analysis of functional completeness by the identification of putative universal orthologs suggests that the transcriptome has three times more total expected orthologs than the genome. Interestingly, RNA-Seq analysis indicated no statistically significant changes in expression level for any circadian core or accessory gene, but there was significant cycling of several noncircadian transcripts. Overall, these assemblies provide a resource to investigate the Limulus clock systems and provide a large dataset for further exploration into the taxonomy and biology of the Atlantic horseshoe crab. |
| format | Article |
| id | doaj-art-f33131b961ad49ae98001ae145c2afbe |
| institution | Kabale University |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2017-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-f33131b961ad49ae98001ae145c2afbe2025-02-03T01:11:34ZengWileyInternational Journal of Genomics2314-436X2314-43782017-01-01201710.1155/2017/76365137636513The Draft Genome and Transcriptome of the Atlantic Horseshoe Crab, Limulus polyphemusStephen D. Simpson0Jordan S. Ramsdell1Winsor H. Watson III2Christopher C. Chabot3Hubbard Center for Genome Studies, University of New Hampshire, Durham, NH 03824, USAHubbard Center for Genome Studies, University of New Hampshire, Durham, NH 03824, USADepartment of Biological Sciences, University of New Hampshire, Durham, NH 03824, USADepartment of Biological Sciences, MSC#64, Plymouth State University, Plymouth, NH 03264, USAThe horseshoe crab, Limulus polyphemus, exhibits robust circadian and circatidal rhythms, but little is known about the molecular mechanisms underlying those rhythms. In this study, horseshoe crabs were collected during the day and night as well as high and low tides, and their muscle and central nervous system tissues were processed for genome and transcriptome sequencing, respectively. The genome assembly resulted in 7.4×105 contigs with N50 of 4,736, while the transcriptome assembly resulted in 9.3×104 contigs and N50 of 3,497. Analysis of functional completeness by the identification of putative universal orthologs suggests that the transcriptome has three times more total expected orthologs than the genome. Interestingly, RNA-Seq analysis indicated no statistically significant changes in expression level for any circadian core or accessory gene, but there was significant cycling of several noncircadian transcripts. Overall, these assemblies provide a resource to investigate the Limulus clock systems and provide a large dataset for further exploration into the taxonomy and biology of the Atlantic horseshoe crab.http://dx.doi.org/10.1155/2017/7636513 |
| spellingShingle | Stephen D. Simpson Jordan S. Ramsdell Winsor H. Watson III Christopher C. Chabot The Draft Genome and Transcriptome of the Atlantic Horseshoe Crab, Limulus polyphemus International Journal of Genomics |
| title | The Draft Genome and Transcriptome of the Atlantic Horseshoe Crab, Limulus polyphemus |
| title_full | The Draft Genome and Transcriptome of the Atlantic Horseshoe Crab, Limulus polyphemus |
| title_fullStr | The Draft Genome and Transcriptome of the Atlantic Horseshoe Crab, Limulus polyphemus |
| title_full_unstemmed | The Draft Genome and Transcriptome of the Atlantic Horseshoe Crab, Limulus polyphemus |
| title_short | The Draft Genome and Transcriptome of the Atlantic Horseshoe Crab, Limulus polyphemus |
| title_sort | draft genome and transcriptome of the atlantic horseshoe crab limulus polyphemus |
| url | http://dx.doi.org/10.1155/2017/7636513 |
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