Resequencing of Curcuma longa L. cv. Kedaram through transcriptome profiling reveals various novel transcripts
Curcuma longa L. (Turmeric), of the family Zingiberaceae, is one of the economically as well as medicinally important plant species. It is a sterile, polyploid and vegetatively propagated spice crop cultivated usually in Southeast Asia. In the current study, we carried out re-sequencing through tran...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2016-09-01
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| Series: | Genomics Data |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2213596016301064 |
| _version_ | 1818304560916070400 |
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| author | Ambika Sahoo Sudipta Jena Suprava Sahoo Sanghamitra Nayak Basudeba Kar |
| author_facet | Ambika Sahoo Sudipta Jena Suprava Sahoo Sanghamitra Nayak Basudeba Kar |
| author_sort | Ambika Sahoo |
| collection | DOAJ |
| description | Curcuma longa L. (Turmeric), of the family Zingiberaceae, is one of the economically as well as medicinally important plant species. It is a sterile, polyploid and vegetatively propagated spice crop cultivated usually in Southeast Asia. In the current study, we carried out re-sequencing through transcriptome profiling of Curcuma longa cv. Kedaram (Cl_Ked_6). We acquired a total of 1 GB raw data by resequencing through paired-end sequencing using Nextseq 500 platform. The raw data obtained in this study can be accessible in NCBI database with accession number of SRR3928562 with bioproject accession number PRJNA324755. Cufflinks-2.2.1 tool was used for transcriptome assembly which resulted in 39,554 numbers of transcripts. The transcript length ranged from 76 to 15,568, having N50 value of 1221 and median transcript length of 860. We annotated the transcripts using multiple databases. This data will be beneficial for studying sequence variations particularly SNPs between cultivars of turmeric towards authentic identification and discovery of novel functional transcripts in Kedaram. |
| first_indexed | 2024-12-13T06:12:39Z |
| format | Article |
| id | doaj.art-cfd355340cd8409ba7451d0b1f44832b |
| institution | Directory Open Access Journal |
| issn | 2213-5960 |
| language | English |
| last_indexed | 2024-12-13T06:12:39Z |
| publishDate | 2016-09-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Genomics Data |
| spelling | doaj.art-cfd355340cd8409ba7451d0b1f44832b2022-12-21T23:57:03ZengElsevierGenomics Data2213-59602016-09-019C16016110.1016/j.gdata.2016.08.010Resequencing of Curcuma longa L. cv. Kedaram through transcriptome profiling reveals various novel transcriptsAmbika SahooSudipta JenaSuprava SahooSanghamitra NayakBasudeba KarCurcuma longa L. (Turmeric), of the family Zingiberaceae, is one of the economically as well as medicinally important plant species. It is a sterile, polyploid and vegetatively propagated spice crop cultivated usually in Southeast Asia. In the current study, we carried out re-sequencing through transcriptome profiling of Curcuma longa cv. Kedaram (Cl_Ked_6). We acquired a total of 1 GB raw data by resequencing through paired-end sequencing using Nextseq 500 platform. The raw data obtained in this study can be accessible in NCBI database with accession number of SRR3928562 with bioproject accession number PRJNA324755. Cufflinks-2.2.1 tool was used for transcriptome assembly which resulted in 39,554 numbers of transcripts. The transcript length ranged from 76 to 15,568, having N50 value of 1221 and median transcript length of 860. We annotated the transcripts using multiple databases. This data will be beneficial for studying sequence variations particularly SNPs between cultivars of turmeric towards authentic identification and discovery of novel functional transcripts in Kedaram.http://www.sciencedirect.com/science/article/pii/S2213596016301064Curcuma longaKedaramRNA-seqNext seq 500Transcriptome |
| spellingShingle | Ambika Sahoo Sudipta Jena Suprava Sahoo Sanghamitra Nayak Basudeba Kar Resequencing of Curcuma longa L. cv. Kedaram through transcriptome profiling reveals various novel transcripts Genomics Data Curcuma longa Kedaram RNA-seq Next seq 500 Transcriptome |
| title | Resequencing of Curcuma longa L. cv. Kedaram through transcriptome profiling reveals various novel transcripts |
| title_full | Resequencing of Curcuma longa L. cv. Kedaram through transcriptome profiling reveals various novel transcripts |
| title_fullStr | Resequencing of Curcuma longa L. cv. Kedaram through transcriptome profiling reveals various novel transcripts |
| title_full_unstemmed | Resequencing of Curcuma longa L. cv. Kedaram through transcriptome profiling reveals various novel transcripts |
| title_short | Resequencing of Curcuma longa L. cv. Kedaram through transcriptome profiling reveals various novel transcripts |
| title_sort | resequencing of curcuma longa l cv kedaram through transcriptome profiling reveals various novel transcripts |
| topic | Curcuma longa Kedaram RNA-seq Next seq 500 Transcriptome |
| url | http://www.sciencedirect.com/science/article/pii/S2213596016301064 |
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