Ontology highlight
ABSTRACT:
PROVIDER: PRJEB80286 | ENA |
REPOSITORIES: ENA
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Project description:Dioecy is an important sexual system wherein, male and female flowers are borne on separate unisexual plants. Knowledge of sex-related differences can enhance our understanding in molecular and developmental processes leading to unisexual flower development. Coccinia grandis is a dioecious species belonging to Cucurbitaceae, a family well-known for diverse sexual systems. Male and female plants of C. grandis have 22A+XY and 22A+XX chromosomes respectively. Previously, we have reported a gynomonoecious form (GyM) (22A+XX) of C. grandis bearing morphologically hermaphrodite flowers (GyM-H) and female flowers (GyM-F). Also, we showed that foliar spray of silver nitrate on female C. grandis plant induces development of morphologically hermaphrodite buds (Ag-H) despite the absence of Y chromosome. To identify sex-related differences, total protein from the flower buds of male, female, GyM-H and Ag-H of C. grandis at early and middle stages of development were analysed by a powerful label-free proteomics approach on ABSCIEX Triple TOF 5600 platform.
2019-07-29 | PXD011064 | Pride
Project description:Coccinia grandis de novo transcriptome to understand sex expression and modification
| PRJNA393268 | ENA
Project description:The evolutionary plasticity of higher-order genome organization in vertebrates—and its transmission through the germ line—is central to understanding genome function and evolution. Yet, the mechanisms regulating these processes remain poorly characterized across lineages. Here, we integrate fluorescence-activated cell sorting, in situ Hi-C, and single-cell RNA sequencing to investigate germ line genome architecture in eutherians, marsupials, and reptiles, —lineages that last shared a common ancestor ~320 million years ago. We uncover lineage-specific chromatin folding patterns in germ cells, shaped by chromosome morphology and genome size, which constrain DNA loop formation and inter-chromosomal interactions during meiosis. We also explore the relationship between 3D genome remodeling and gene regulation in the context of meiotic sex chromosome inactivation. In the tammar wallaby, we identify regions of the X that escape MSCI, suggesting incomplete silencing in marsupials. These findings provide high-resolution insights into the evolution of germ line chromatin architecture and the co-evolution of genome structure and function across vertebrates.
2026-06-22 | GSE320131 | GEO
Project description:The evolutionary plasticity of higher-order genome organization in vertebrates—and its transmission through the germ line—is central to understanding genome function and evolution. Yet, the mechanisms regulating these processes remain poorly characterized across lineages. Here, we integrate fluorescence-activated cell sorting, in situ Hi-C, and single-cell RNA sequencing to investigate germ line genome architecture in eutherians, marsupials, and reptiles, —lineages that last shared a common ancestor ~320 million years ago. We uncover lineage-specific chromatin folding patterns in germ cells, shaped by chromosome morphology and genome size, which constrain DNA loop formation and inter-chromosomal interactions during meiosis. We also explore the relationship between 3D genome remodeling and gene regulation in the context of meiotic sex chromosome inactivation. In the tammar wallaby, we identify regions of the X that escape MSCI, suggesting incomplete silencing in marsupials. These findings provide high-resolution insights into the evolution of germ line chromatin architecture and the co-evolution of genome structure and function across vertebrates.
2026-06-22 | GSE320128 | GEO
Project description:Coccinia grandis Transcriptome or Gene expression
| PRJNA321965 | ENA
Project description:<p><strong>BACKGROUND:</strong> Plants exhibit wide chemical diversity due to the production of specialized metabolites that function as pollinator attractants, defensive compounds, and signaling molecules. Lamiaceae (mints) are known for their chemodiversity and have been cultivated for use as culinary herbs, as well as sources of insect repellents, health-promoting compounds, and fragrance.</p><p><strong>FINDINGS:</strong> We report the chromosome-scale genome assembly of Callicarpa americana L. (American beautyberry), a species within the early-diverging Callicarpoideae clade of Lamiaceae, known for its metallic purple fruits and use as an insect repellent due to its production of terpenoids. Using long-read sequencing and Hi-C scaffolding, we generated a 506.1-Mb assembly spanning 17 pseudomolecules with N50 contig and N50 scaffold sizes of 7.5 and 29.0 Mb, respectively. In all, 32,164 genes were annotated, including 53 candidate terpene synthases and 47 putative clusters of specialized metabolite biosynthetic pathways. Our analyses revealed 3 putative whole-genome duplication events, which, together with local tandem duplications, contributed to gene family expansion of terpene synthases. Kolavenyl diphosphate is a gateway to many of the bioactive terpenoids in C. americana; experimental validation confirmed that CamTPS2 encodes kolavenyl diphosphate synthase. Syntenic analyses with Tectona grandis L. f. (teak), a member of the Tectonoideae clade of Lamiaceae known for exceptionally strong wood resistant to insects, revealed 963 collinear blocks and 21,297 C. americana syntelogs.</p><p><strong>CONCLUSIONS:</strong> Access to the C. americana genome provides a road map for rapid discovery of genes encoding plant-derived agrichemicals and a key resource for understanding the evolution of chemical diversity in Lamiaceae.</p>
2020-12-04 | MTBLS1983 | MetaboLights
Project description:Sex chromosome evolution of liverworts
| PRJNA1056839 | ENA