Ontology highlight
ABSTRACT:
PROVIDER: PRJNA894315 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR22044546.fastq.gz | Fastqsanger.gz | |||
| SRR22044547.fastq.gz | Fastqsanger.gz | |||
| SRR22044548.fastq.gz | Fastqsanger.gz | |||
| SRR22044549.fastq.gz | Fastqsanger.gz | |||
| SRR22044550.fastq.gz | Fastqsanger.gz |
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Project description:Transcriptome profiling of lettuce plants exposed to low temperature (4°C)
2020-04-13 | GSE134012 | GEO
Project description:Bolting is a key process in the growth and development of lettuce (Lactuca sativa L.). High temperature can induce earlier bolting which decreases in both quality and production of lettuce. However, knowledge underlying lettuce bolting is still lacking. To better understand the molecular basis of bolting, a comparative proteomics analysis was conducted on lettuce stems in the bolting period induced by high temperature (33 °C) compared with a control (20 °C) using iTRAQ-based proteomics, phenotypic measures, and biological verifications. High temperature induced lettuce bolting, while control temperature did not. Of the 6656 proteins identified, 758 proteins significantly altered their expression level induced by high-temperature relative to the control, of which 409 were up-regulated and 349 down-regulated. Proteins with abundance level change were mainly involved in photosynthesis, carbohydrate metabolism, stress response, hormone synthesis, and signal transduction. These differential proteins were mainly enriched in pathways associated with photosynthesis and tryptophan metabolism involving in auxin (IAA) biosynthesis. Among the differentially expressed proteins associated with photosynthesis and tryptophan metabolism were up-regulated. Moreover, in gibberellin (GA) biosynthesis pathway, 10 of main enzymes of P450 were up-regulated. Proteins related to SAUR and GRP, implicated in IAA and GA signal transduction were up-regulated, and the phosphorylation and ubiquitination related proteins regulating IAA and GA signal transduction were also induced. These findings indicate that a high temperature enhances the function of photosynthesis, IAA and GA synthesis and signal transduction to promote the process of bolting, which is in line with the physiology and transcription levels of IAA and GA metabolism. Our data provide a first comprehensive dataset for gaining novel understanding of the molecular basis underlying lettuce bolting induced by high temperature. It is potentially important for further functional analysis and genetic manipulation for molecular breeding to breed new cultivar of lettuce to restrain early bolting, which is vital for improving vegetable quality.
2019-11-12 | PXD008610 | Pride
Project description:Lettuce (Lactuca sativa L.) is one of the most important leafy vegetable that is consumed during its vegetative growth. The transition from vegetative to reproductive growth is induced by high temperature, which has significant economic effect on lettuce production. However, the progression of floral transition and the molecular regulation of bolting are largely unknown. Here we morphologically characterized the inflorescence development and functionally analyzed the FLOWERING LOCUS T (LsFT) gene during bolting regulation in lettuce. We described the 8 developmental stages during floral transition process. The expression of LsFT was negatively correlated with bolting in different lettuce varieties, and was promoted by heat treatment. Overexpression of LsFT could recover the late-flowering phenotype of ft-2 mutant. Knockdown of LsFT by RNA interference dramatically delayed bolting in lettuce, and failed to respond to high temperature. Therefore, this study dissects the process of inflorescence development and characterizes the role of LsFT in bolting regulation in lettuce.
2018-02-14 | GSE108260 | GEO
Project description:Exogenous spermidine promotes starch sugar metabolism in wheat grains, thereby promoting grain filling
2019-08-14 | GSE135536 | GEO
Project description:Enzymatic browning on the cut edge of lettuce significantly limits its quality and shelf life. To characterize its molecular mechanisms, we performed comparative transcriptome analysis of three Romaine lettuce cultivars, Parris Island Cos (PC) with low browning potential, Tall Guzmaine (TG) with high degree of browning and Clemente (CL), a medium degree of browning cultivar derived from TG x PC. Before cutting, the phenylpropanoid and oxidative stress genes, such as PAL1, MYB1 and PPO were up-regulated in PC as compared to TG, while the expressions of genes involved in auxin, cytokinin hormone signalings and defense, such as ARF, AHP and PTI in PC were higher than TG. The transcript levels of all these genes in CL were somewhere between TG and PC. On day 3 after cutting when browning was shown up in TG, the expression of these phenylpropanoid and oxidative stress genes were remarkably increased in all three cultivars, even though their levels in TG were still higher than those in PC and CI. In comparison, expressions of the hormone and defense genes were reduced in all three cultivars, but their levels in PC were higher than CI and TG. Exogenous application of IAA and 6-BA inhibited lettuce browning possibly by alleviating the burst of those browning related genes, such as PAL1 and PPO1. These results demonstrate that lettuce tissue browning is controlled by reduced growth hormone (mainly auxin) level and increased phenolics biosynthesis and oxidation. This study provides the useful knowledge and functional markers for lettuce breeders and industry to select low tissue browning cultivar and manage lettuce quality during storage and processing.
2022-12-31 | GSE185049 | GEO
Project description:The draft genome of L. sativa (lettuce) cv. Tizian was sequenced in two Illumina sequencing runs, mate pair and shotgun. This entry contains the RAW sequencing data.
2018-02-09 | E-MTAB-6347 | biostudies-arrayexpress
Project description:This study utilized the HIT-ISOseq method for high-throughput sequencing of RNA isoforms across multiple lettuce samples, generating millions of long reads per PacBio Sequel II SMRT Cell. Analysis of six tissue types revealed tissue-specific gene expression and RNA isoforms, facilitating updates to the lettuce reference genome annotation with expanded functional annotations.
2024-05-23 | GSE264560 | GEO
Project description:Temperature plays an important role in the growth and development of lettuce (Lactuca sativa L.). A high temperature can induce bolting, which decreases both the quality and production of lettuce. However, knowledge of underlying lettuce bolting is still lacking, especially in the molecular basis that high temperature promotes the premature bolting of lettuce at the phosphorylated level. In this study, we analyzed the lettuce stems during the bolting period induced by a high temperature (33oC/25oC, day/ night) and a controlled temperature (20oC/13oC, day/night) using iTRAQ-based phosphoproteome and 987 phosphoproteins were significantly changed after high-temperature treatment and a total of 3814 phosphorylation sites located in 1766 phosphopeptides were identified. Also, we found 216 phosphoproteins significantly regulated, of which 116 up-regulated and 101 down-regulated, and the abundance changed peptides after high-temperature treatment was significantly involved in the biological process (BP) of water homeostasis. Most of these phosphoproteins were associated with metabolic process, correspondingly the main molecular functions are catalytic activity and transporter activity. The top 10 signaling pathways included spliceosome, starch and sucrose metabolism, RNA transport, protein processing in endoplasmic reticulum, phosphatidylinositol signaling system, phospholipase D signaling pathway, apoptosis, protein export, tight junction, and glycerolipid metabolism. For further, we found the high-temperature influence phosphoprotein activity associated with metabolism, especially, starch and sucrose metabolism, glycerolipid metabolism, methane metabolism. The kinases, including proline-directed, acidic, basic, others and tyrosine, were predicted to be involved in signal transduction and metabolism regulation. The proline-directed motif such as ..SP..[s]P, [s]P, [t]P was the dominant class, proline-directed motifs associated with MAK kinase, and several acidic motifs are casein kinase II motif are necessary for lettuce blotting. Our study showed phosphoproteome profiling in response to high temperature and provides a better understanding of the molecular mechanisms regulated in lettuce blotting
2019-06-10 | PXD014208 |
Project description:Lettuce is one of most consumed vegetables globally. This crop is susceptible to abiotic stresses. To understand the molecular mechanisms of stress response in lettuce, global transcriptome analysis was conducted. This analysis revealed distinctive temporal expression patterns among the stress-regulated genes in lettuce plants exposed to abiotic stresses
2023-09-01 | GSE241604 | GEO