Genome assembly at chromosome scale with telomere ends for Pearlspot, Etroplus suratensis
Abstract The pearlspot, Etroplus suratensis is a climate resilient cichlid fish that exhibits unusual adaptation to salinity. The fish is able to complete full life cycle in diverse salinity habitats ranging from fresh water to marine environments. High-quality primary and phased genome assemblies w...
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| Format: | Article |
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Nature Portfolio
2024-11-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-024-04096-0 |
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| author | Vinaya Kumar Katneni Karthic Krishnan Sudheesh K Prabhudas Roja Jayaraman Nida Quraishi Kumaraguru Vasagam Ashok Kumar Jangam Jesudhas Raymond Jani Angel Nimisha Kaikkolante Kumaravel Jayaraman S Shekhar Mudagandur |
| author_facet | Vinaya Kumar Katneni Karthic Krishnan Sudheesh K Prabhudas Roja Jayaraman Nida Quraishi Kumaraguru Vasagam Ashok Kumar Jangam Jesudhas Raymond Jani Angel Nimisha Kaikkolante Kumaravel Jayaraman S Shekhar Mudagandur |
| author_sort | Vinaya Kumar Katneni |
| collection | DOAJ |
| description | Abstract The pearlspot, Etroplus suratensis is a climate resilient cichlid fish that exhibits unusual adaptation to salinity. The fish is able to complete full life cycle in diverse salinity habitats ranging from fresh water to marine environments. High-quality primary and phased genome assemblies were generated for pearlspot fish using PacBio HiFi and Arima HiC sequencing technologies, for the first time. The primary assembly is highly contiguous with contig N50 length of 36 Mb. The final assembly is of 1.247 Gb with N50 length of 51.57 Mb and 98% of the genome length anchored to 24 chromosomes. The genome was assessed to be 99.9% complete based on BUSCO evaluation and was predicted to contain 52.96% repeat elements. We have predicted 27,192 protein encoding genes, of which 21,580 were functionally annotated. The genome offers an invaluable resource to understand adaptation of pearlspot fish to diverse salinity habitats. |
| format | Article |
| id | doaj-art-3a152a78d6f74acf9c2f4a091a6ab4c2 |
| institution | Kabale University |
| issn | 2052-4463 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Data |
| spelling | doaj-art-3a152a78d6f74acf9c2f4a091a6ab4c22024-11-17T12:09:06ZengNature PortfolioScientific Data2052-44632024-11-0111111110.1038/s41597-024-04096-0Genome assembly at chromosome scale with telomere ends for Pearlspot, Etroplus suratensisVinaya Kumar Katneni0Karthic Krishnan1Sudheesh K Prabhudas2Roja Jayaraman3Nida Quraishi4Kumaraguru Vasagam5Ashok Kumar Jangam6Jesudhas Raymond Jani Angel7Nimisha Kaikkolante8Kumaravel Jayaraman9S Shekhar Mudagandur10Centre for Bioinformatics, Nutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarCentre for Bioinformatics, Nutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarCentre for Bioinformatics, Nutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarCentre for Bioinformatics, Nutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarCentre for Bioinformatics, Nutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarNutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarCentre for Bioinformatics, Nutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarCrustacean Culture Division, ICAR-Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarCentre for Bioinformatics, Nutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarNutrition Genetics and Biotechnology Division, ICAR - Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarAquatic Animal Health and Environment Division, ICAR-Central Institute of Brackishwater Aquaculture, No 75, Santhome High Road, MRC NagarAbstract The pearlspot, Etroplus suratensis is a climate resilient cichlid fish that exhibits unusual adaptation to salinity. The fish is able to complete full life cycle in diverse salinity habitats ranging from fresh water to marine environments. High-quality primary and phased genome assemblies were generated for pearlspot fish using PacBio HiFi and Arima HiC sequencing technologies, for the first time. The primary assembly is highly contiguous with contig N50 length of 36 Mb. The final assembly is of 1.247 Gb with N50 length of 51.57 Mb and 98% of the genome length anchored to 24 chromosomes. The genome was assessed to be 99.9% complete based on BUSCO evaluation and was predicted to contain 52.96% repeat elements. We have predicted 27,192 protein encoding genes, of which 21,580 were functionally annotated. The genome offers an invaluable resource to understand adaptation of pearlspot fish to diverse salinity habitats.https://doi.org/10.1038/s41597-024-04096-0 |
| spellingShingle | Vinaya Kumar Katneni Karthic Krishnan Sudheesh K Prabhudas Roja Jayaraman Nida Quraishi Kumaraguru Vasagam Ashok Kumar Jangam Jesudhas Raymond Jani Angel Nimisha Kaikkolante Kumaravel Jayaraman S Shekhar Mudagandur Genome assembly at chromosome scale with telomere ends for Pearlspot, Etroplus suratensis Scientific Data |
| title | Genome assembly at chromosome scale with telomere ends for Pearlspot, Etroplus suratensis |
| title_full | Genome assembly at chromosome scale with telomere ends for Pearlspot, Etroplus suratensis |
| title_fullStr | Genome assembly at chromosome scale with telomere ends for Pearlspot, Etroplus suratensis |
| title_full_unstemmed | Genome assembly at chromosome scale with telomere ends for Pearlspot, Etroplus suratensis |
| title_short | Genome assembly at chromosome scale with telomere ends for Pearlspot, Etroplus suratensis |
| title_sort | genome assembly at chromosome scale with telomere ends for pearlspot etroplus suratensis |
| url | https://doi.org/10.1038/s41597-024-04096-0 |
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