|
| Status |
Public on Jan 31, 2023 |
| Title |
Sequence data for annotation and scaffolding of the Lathyrus sativus LS007 Rbp1.0 genome assembly |
| Organism |
Lathyrus sativus |
| Experiment type |
Expression profiling by high throughput sequencing
Other
|
| Summary |
This dataset includes RNAseq data of 7 tissues/developmental stages of Lathyrus sativus genotype LSWT11 and 2 tissues with drought- and well-watered treatments of Lathyrus sativus genotypes LS007 and Mahateora. These data were used in the functional annotation pipeline of the Rbp1.0 genome assembly of LS007. The multi-tissue transcriptome was also used to support gene candidate identification by mRNA abundance. Also included is Hi-C sequencing data used to scaffold the assembly into pseudochromosomes
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| |
|
| Overall design |
RNAseq data to inform a genome annotation pipeline - replication of multi-tissue transcriptome as shown below, three replicates for each genotype/treatment combination in drought experiment; RNAseq for RNA read counting to support gene candidate identification, replication as shown below, HiC for scaffolding of genome assembly
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| |
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| Contributor(s) |
Emmrich P, Sarkar A, Wouters R, Vickers M, Moore J, Higgins J, Kaithakottil GG |
| Citation(s) |
36797319 |
| Submission date |
Jan 29, 2023 |
| Last update date |
Jun 01, 2023 |
| Contact name |
Martin Vickers |
| E-mail(s) |
martin.vickers@jic.ac.uk
|
| Organization name |
John Innes Centre
|
| Street address |
Colney Ln
|
| City |
Norwich |
| State/province |
Norfolk |
| ZIP/Postal code |
NR4 7UH |
| Country |
United Kingdom |
| |
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| Platforms (1) |
| GPL33069 |
Illumina HiSeq 2500 (Lathyrus sativus) |
|
| Samples (35)
|
| GSM7008672 |
LSWT11 seedling shoot tip RNA [Sample_1295_LIB11624_LDI11331] |
| GSM7008673 |
LSWT11 root RNA [Sample_1295_LIB11627_LDI11333] |
| GSM7008674 |
LSWT11 flower RNA [Sample_1295_LIB11628_LDI11334] |
|
| Relations |
| BioProject |
PRJNA929208 |
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