Ipomoea batatas
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ABSTRACT:
PROVIDER: PRJNA1039563 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:In the process of field production, crops are often affected by a variety of abiotic stresses, among which heat (HT) and drought (DR) stress are the most common co-stresses in summer. Although a large number of studies have been carried out on HT and DR stress respectively, little is known about how their combination (DH) affects plants. In this study, we investigated the responses of sweetpotato to HT, DR or DH stress by RNA-seq and DIA technologies, and set up a controlled experiment and quantified gene expression and protein concentrations from paired samples. A total of 12 cDNA libraries were constructed under HT, DR, DH and control condition. We identified 536, 389 and 907 DEGs in response to HT, DR or DH stress, of which 147 were shared and 447 were specifically identified under DH stress. Proteomic analysis identified 1609, 1168 and 1535 DEPs under HT, DR and DH treatments compared to the control, of which 656 were shared and 358 were exclusively identified under DH stress. Further analysis revealed that some DEGs/DEPs associated with heat shock protein, carbon metabolism, phenylalanine metabolism, starch and cellulose metabolism, plant defense and so on. Correlation analysis identified a number of co-expressed genes and proteins under HT, DR or DH stress. Meanwhile, a cross-comparison of transcriptomics and proteomics data identified 59, 35 and 86 significant co DEGs and DEPs genes under HT, DR and DH stress respectively. This is the first time that studies the differential genes and proteins of sweet potato under DH stress, and hopes that the results of this study will help us to understand the molecular mechanism of sweet potato resistance to heat and drought stress.
2022-10-23 | GSE216152 | GEO
Project description:Two complementary protein extraction methodologies coupled with an automated proteomic platform were employed to analyze tissue-specific proteomes and characterize biological and metabolic processes in sweet potato. A total of 74,255 peptides corresponding to 4,321 nonredundant proteins were successfully identified. Data were compared to predicted protein accessions for Ipomea species and mapped on the sweet potato transcriptome and haplotype-resolved genome. A proteogenomics analysis successfully mapped 12,902 peptides against the transcriptome or genome, representing 90.4% of the total 14,275 uniquely identified peptides, predicted 741 new protein-coding genes, and specified 2726 loci where annotations can be further improved. Overall, 39,916 peptides mapped to 3,143 unique proteins in leaves, and 34,339 peptides mapped to 2,928 unique proteins in roots; 32% and 27% unique identified proteins were leaves- and roots-specific, respectively.
2019-05-30 | PXD012999 | Pride
Project description:Gene expression profiling during storage root formation in sweet potato
| PRJNA110579 | ENA
Project description:Gene expression after SPVD infection in resistant and susceptible sweet potato cultivars
| PRJNA121123 | ENA
Project description:More than 3.5 million raw DGE tags were obtained in each library. The clean tags in each sample ranged from 3.35 to 3.63 million, and the distinct clean tags ranged from 93,593 to 139,389. The 21 bp DGE clean tags were mapped to sweet potato transcripts. Then, we compared 7 libraries pair-wisely so that 21 pairs of comparisons were implemented. Among these comparisons, we found that 4,721 to 12,151 transcripts had significant changes in expression, and the average number was 9,657. We also observed a large number of specifically expressed transcripts between each two libraries. The expression profiles of those genes involved in root development and carbohydrates accumulation were characterized. Moreover, other genes of interest, such as potentially abiotic stress tolerance and insect resistance, were also characterized. 7 samples are examined: young leaves, mature leaves, stems, fibrous roots, initial tuberous roots, expanding tuberous roots and harvest tuberous roots.
2012-02-18 | E-GEOD-35929 | biostudies-arrayexpress
Project description:Sequencing of active retrotransposon (Rtsp-1 and LIb) insertion site in sweet potato
| PRJDB1599 | ENA
Project description:More than 3.5 million raw DGE tags were obtained in each library. The clean tags in each sample ranged from 3.35 to 3.63 million, and the distinct clean tags ranged from 93,593 to 139,389. The 21 bp DGE clean tags were mapped to sweet potato transcripts. Then, we compared 7 libraries pair-wisely so that 21 pairs of comparisons were implemented. Among these comparisons, we found that 4,721 to 12,151 transcripts had significant changes in expression, and the average number was 9,657. We also observed a large number of specifically expressed transcripts between each two libraries. The expression profiles of those genes involved in root development and carbohydrates accumulation were characterized. Moreover, other genes of interest, such as potentially abiotic stress tolerance and insect resistance, were also characterized.
2012-02-18 | GSE35929 | GEO
Project description:Transcriptome profiling and digital gene expression analysis of sweet potato challenged with Fusarium oxysporum f. sp.batatas.
| PRJNA351255 | ENA