Ontology highlight
ABSTRACT:
PROVIDER: PRJNA657160 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR12452700_1.fastq.gz | Fastqsanger.gz | |||
| SRR12452700_2.fastq.gz | Fastqsanger.gz | |||
| SRR12452701_1.fastq.gz | Fastqsanger.gz | |||
| SRR12452701_2.fastq.gz | Fastqsanger.gz | |||
| SRR12452702_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 24 |
Similar Datasets
Project description:Pollen development in angiosperms is one of the most important processes controlling plant reproduction and therefore productivity. At the same time pollen development is highly sensitive to environmental fluctuations including temperature, drought and nutrition. Therefore pollen biology is a major focus in applied studies and breeding approaches for improving plant productivity in a globally changing climate. The most accessible developmental stages of pollen are the mature pollen and the pollen tubes and are, thus, most frequently analyzed. To reveal a complete quantitative proteome map we additionally addressed the very early stages analyzing 8 stages of tobacco pollen development from diploid microsporocytes, meioses, tetrads, microspores, polarized microspores, bipolar pollen and desiccated pollen to pollen tubes. A protocol for the isolation of the early stages was established. Proteins were extracted and analyzed by a new Gel-LC-MS fractionation protocol. In total, 3817 protein groups were identified. Quantitative analysis was performed based on peptide count. Exceedingly stage-specific differential protein regulation was observed during the conversion from the sporophytic to the gametophytic proteome. A map of highly specialized functionality for the different stages could be revealed from metabolic activity, pronounced differentiation of proteasomal and ribosomal protein complex composition up to protective mechanisms such as high levels of heat shock proteins in the very early stages of development.
2014-04-14 | PXD000469 | Pride
Project description:Papaya (Carica papaya) is a trioecious species, with female, male, and hermaphrodite plants. Because of sex segregation, selecting hermaphroditic plants is vital for orchard establishment due to their higher commercial value. In addition to the costly sexing step, environmental stresses can result in abnormal flower development. However, molecular mechanisms that regulate sex differentiation in papaya are still poorly known. Thus, this study aimed to identify proteins associated with sex development in female and hermaphrodite flowers of papaya through comparative proteomic analysis. Proteins from flower buds at the early and late developmental stages of three papaya genotypes (UENF-CALIMAN 01, JS12, and Sunrise Solo 72/12) were studied via proteomic analysis via the combination of the shotgun method and nanoESI-HDMSE technology. In buds at an early stage of development, 496 proteins exhibited significantly different abundances between sexes for the SS72/12 genotype, 139 for the JS12 genotype, and 165 for the UC-01 genotype. At the final stage of development, there were 181 for SS72/12, 113 for JS12, and 125 for UC-01. The large group of differentially accumulated proteins (DAPs) between the sexes was related to metabolism, as shown by the observation of only the proteins that exhibited the same pattern of accumulation in the three genotypes. Specifically, carbohydrate metabolism proteins were up-regulated in hermaphrodite flower buds early in development, while those linked to monosaccharide and amino acid metabolism increased during late development. Enrichment of sporopollenin and phenylpropanoid biosynthesis pathways characterizes hermaphrodite samples across developmental stages, with predicted protein interactions highlighting the crucial role of phenylpropanoids in sporopollenin biosynthesis for pollen wall formation. Most of the DAPs played key roles in pectin, cellulose, and lignin synthesis and were essential for cell wall formation and male flower structure development, notably in the pollen coat. These findings suggest that hermaphrodite flowers require more energy for development, likely due to complex pollen wall formation. Overall, these insights illuminate the molecular mechanisms of papaya floral development, revealing complex regulatory networks and energetic demands in the formation of male reproductive structures.
2024-06-23 | PXD050497 | Pride
Project description:Pollen development in angiosperms is one of the most important processes controlling plant reproduction and thus productivity. At the same time, pollen development is highly sensitive to environmental fluctuations, including temperature, drought, and nutrition. Therefore, pollen biology is a major focus in applied studies and breeding approaches for improving plant productivity in a globally changing climate. The most accessible developmental stages of pollen are the mature pollen and the pollen tubes, and these are thus most frequently analyzed. To reveal a complete quantitative proteome map, we additionally addressed the very early stages, analyzing eight stages of tobacco pollen development: diploid microsporocytes, meiosis, tetrads, microspores, polarized microspores, bipolar pollen, desiccated pollen, and pollen tubes. A protocol for the isolation of the early stages was established. Proteins were extracted and analyzed by means of a new gel LC-MS fractionation protocol. In total, 3817 protein groups were identified. Quantitative analysis was performed based on peptide count. Exceedingly stage-specific differential protein regulation was observed during the conversion from the sporophytic to the gametophytic proteome. A map of highly specialized functionality for the different stages could be revealed from the metabolic activity and pronounced differentiation of proteasomal and ribosomal protein complex composition up to protective mechanisms such as high levels of heat shock proteins in the very early stages of development.
2023-10-09 | PXD045970 | Pride
Project description:The development of viable gametes is especially susceptible to heat in all higher plants, including cotton (Gossypium hirsutum cv. Sicot 71), resulting in substantial reduction in lint quantity and quality at temperatures above 32 °C. Male reproductive cells are especially vulnerable to heat. This study demonstrates a relatively small impact of heat on leaves compared with a profound impact during early and late male gametophyte development. To investigate the mechanisms leading to heat sensitivity, the proteome of pollen was analyzed after two distinct phases of development (tetrads or binucleate microspores) had been exposed for 5 d to 36/25 °C (day/night) or 40/30 °C. The resulting mature pollen grains were collected for quantitative label-free shotgun proteomic analysis. A total of 868 proteins was quantified. Interestingly, Hsp70s were highly induced in response to extreme heat indicating key roles of this family to cope with heat stress.
2020-10-19 | PXD015721 | Pride
Project description:Transcriptome profiling of three developmental stages of immature male gametophyte intobacco (Nicotiana tabacum) Total RNA isolated from tobacco microspores and early and late bicellular pollen was hybridised on Agilent Tobacco Gene Expression Microarray 4x44K in two biological replicates per sample
2014-10-16 | E-GEOD-62349 | biostudies-arrayexpress
Project description:Tomato pollen production and viability is highly vulnerable to higher temperature. Hot summers with temperature reaching above 32°C can disrupt production of viable pollens and fruit set, resulting in yield loss. In recent years, temperature above 35-38oC has become a norm during mid-summer with potential adverse impacts on the production of tomatoes and many other crop species. Pollens are developed through the microsporogenesis and micro-gametogenesis stages. The most heat sensitive period is from the meiotic process of the microsporocytes, at the young microspore stage (uninucleate stage of microspore) to during late pollen development (pollen mitosis). This project studied the heat-induced proteomes in microsporocyte, also called pollen mother cells (PMC). Homogenous PMC samples were collected from cross-sectioned frozen fresh anther tissues of tomato ‘Maxifort’ using laser capture microdissection (LCM). Tandem mass tag (TMT) proteomics analysis was conducted to identify proteomics changes related to heat tolerance during pollen development.
2022-04-07 | PXD018915 | Pride
Project description:In flowering plants, pollen development is under a dynamic and well-orchestrated transcriptional control, characterized by an early phase with high transcript diversity and a late post-mitotic phase skewed to a cell-type specific-transcriptome. Such transcriptional changes require a balance between synthesis and degradation of mRNA transcripts, the latter being initiated by deadenylation. The CCR4-NOT complex is the main evolutionary conserved deadenylase complex in eukaryotes, and its function is essential during germline specification in animals. We hypothesised that the CCR4-NOT complex might play a central role in mRNA turnover during microgametogenesis in Arabidopsis. Disruption of NOT1 gene, which encodes the scaffold protein of the CCR4-NOT complex, showed abnormal seed set. Genetic analysis failed to recover homozygous progeny and reciprocal crosses confirmed reduced transmission through the male and female gametophytes. Concordantly not1 embryo sacs showed delayed development and defects in embryogenesis. not1 pollen grains exhibited abnormal male germ unit configurations and failed to germinate. Transcriptome analysis of pollen from not1/+ mutants revealed that lack of NOT1 leads to an extensive transcriptional deregulation during microgametogenesis. Therefore, our work establishes NOT1 as an important player during gametophyte development in Arabidopsis.
2020-04-24 | GSE133490 | GEO
Project description:Background: Partial pollen and embryo sac sterilities are the two main reasons for low fertility in autotetraploid rice. Our previous study revealed that small RNAs changes may associate with pollen fertility in autotetraploid rice. However, knowledge on comparative analysis between the development of pollen and embryo sac by small RNAs in autotetraploid rice is still unknown. In the present study, WE-CLSM (whole-mount eosin B-staining confocal laser scanning microscopy) and high-throughput sequencing technology was employed to examine the cytological variations and to analyze small RNAs changes during pollen and embryo sac development in autotetraploid rice compared with its diploid counterpart. Results: A total of 321 and 368 differentially expressed miRNAs (DEM) were detected during development of pollen and embryo sac in autotetraploid rice, respectively. Gene Ontology enrichment analysis on the targets of miRNAs-enriched during the development of pollen and embryo sac in autotetraploid rice revealed 30 prominent functional gene classes, such as cell differentiation and signal transduction during embryo sac development. However, only 7 prominent functional gene classes, such as flower development and transcription factor activity, were detected during pollen development. The expression levels of 39 DEM, which revealed interaction with meiosis-related genes, showed opposite expression levels in pollen and embryo sac development. Of these DEM, osa-miR1436_L+3_1ss5CT and osa-miR167h-3p were associated with the female meiosis, while osa-miR159a.1 and osa-MIR159a-p5 were related with the male meiosis. 21nt-phasiRNAs were detected both during pollen and embryo sac development, while 24nt-phasiRNAs were found only in pollen development, which displayed down-regulation in autotetraploid compared to diploid rice and their spatial-temporal expression patterns were similar to osa-miR2275d. 24nt TEs-siRNAs were found to be up-regulated in embryo sac but down-regulated in pollen development. Conclusion: The above results not only provide the small RNAs changes during four landmark stages of pollen and embryo sac development in autotetraploid rice but also have identified specifically expressed miRNAs, especially meiosis-related miRNAs, pollen-24nt-phasiRNAs and TEs-siRNAs in autotetraploid rice. Together, these findings provide a foundation for understanding the effect of polyploidy on small RNAs expression patterns during pollen and embryo sac development that may lead to different abnormalities in autotetraploid rice.
2017-03-09 | GSE90479 | GEO
Project description:Heatwaves resulting from global warming are a leading threat to plants because they specifically impair reproductive (gametophytic) development. We investigated pollen development using proteomics after exposure to heat (38/28 °C; day/night). Sampling enabled the identification of the impact of heat on gene products in tetrads (immediately post-meiosis), uninucleate and binucleate microspores (early mitosis), and mature pollen. A library consisting of 5257 G. hirsutum proteins was constructed using SWATH-MS, which led to quantification of 4501 proteins at the four distinct stages. Data analysis revealed that 880, 360, 307 and 166 proteins were differentially expressed when the tetrad, uninucleate, binucleate and mature pollen stages, respectively, were subjected to heat. Surprisingly, most of these DEPs were identified only at a single developmental stage, indicating translation of stage-specific proteins in response to heat. Especially, high numbers of differentially expressed proteins (DEPs) were identified in tetrads compared with the late developmental stages; these were mainly associated with protein processing in endoplasmic reticulum, oxidative phosphorylation, spliceosome, cytoskeletal response, chaperones and folding catalysts, carbon metabolism and membrane trafficking. We conclude that protein synthesis in tetrad cells responded acutely to heat by supplying cellular components that enable subsequent mitosis and structural changes in the haploid germ cells leading the mature pollen. We hypothesise that fewer DEPs at the later stages might reflect a lower sensitivity to high temperatures. Identifying the stage-specific proteins will lead to the identity of key heat-responsive genes and new genetic tools for improved resilience of all seed and fruit-based crops as climates keep warming.
2021-12-01 | PXD019873 | Pride
Project description:Crop reproductive success is significantly challenged by heatwaves, which are increasing in frequency globally. The main reason is reduced male fertility due to abnormal pollen development, but the mechanism behind the developmental deviation is not well understood. Here, long-term mild heat (LTMH) treatment, mimicking a heatwave, was applied to flowers or whole plants and followed up by cytological, transcriptomic and biochemical analyses. LTMH was shown to act directly on the flowers and not via a systemic effect on other plant tissue. The meiosis to early microspore stage was the most to LTMH and three to four days of LTMH exposure around this period was sufficient to significantly reduce pollen viability. Extensive cytological analysis showed that abnormalities in pollen development could first be observed after pollen mitosis I and tapetum development appeared unaffected. Transcriptomic and biochemical analyses suggested that pollen development suffers from tapetal ER stress, with a limited role for oxidative stress. These characteristics differentiate the response of developing anthers and pollen to LTMH from that to severe heat stress.
2021-07-17 | GSE180168 | GEO