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Norway spruce spatiotemporal programs of conifer reproductive development

ABSTRACT: Conifers are essential components of forest ecosystems; however, their reproductive development remains largely understudied due to their genomes’ complexity. Here, we present a time-resolved spatial transcriptomics (ST) atlas of 88 tissue sections across three time points from developing reproductive and vegetative shoots in wild-type Norway spruce (Picea abies), as well as transition shoots from the acrocona mutant. By studying their different spatiotemporal gene expression dynamics, we identified molecular processes active during the vegetative-to-reproductive shift and their specific spatial domains in the shoots. We also identified and experimentally characterized the MADS-box gene DAL55, which is active during lateral organ development. Moreover, we shed light on the evolutionary relationships between gymnosperm and angiosperm YABBY genes, responsible for inner or outer cell layers in complex structures. Overall, our spatiotemporal atlas identifies genes, pathways, and evolutionary relationships associated with plant reproductive organs, providing a valuable resource for studying conifer reproductive development.

ORGANISM(S): Picea abies

PROVIDER: GSE288244 | GEO | 2026/09/13

REPOSITORIES: GEO

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Project description:Gene expression throughout the reproductive process in rice (Oryza sativa) beginning with primordia development through pollination/fertilization to zygote formation was analyzed. We analyzed 25 stages/organs of rice reproductive development including early microsporogenesis stages with 57,381 probe sets, and identified around 26,000 expressed probe sets in each stage. Fine dissection of 25 reproductive stages/organs combined with detailed microarray profiling revealed dramatic, coordinated and finely tuned changes in gene expression. Decrease of expressed genes in the pollen maturation process was observed in a similar way with Arabidopsis and maize. An almost equal number of ab initio predicted genes and cloned genes appeared or disappeared coordinated with developmental stage progression. A large number of organ-/stage-specific genes were identified; notably 2,593 probe sets for developing anther, including 932 probe sets corresponding to ab initio predicted genes. Analysis of cell cycle-related genes revealed that several CDKs, cyclins and components of SCF E3 ubiquitin ligase complexes were expressed specifically in reproductive organs. Cell wall biosynthesis or degradation protein genes and transcription factor genes expressed specifically in reproductive stages were also newly identified. Rice genes homologous to reproduction-related genes in other plants showed expression profiles both consistent and inconsistent with their predicted functions. The rice reproductive expression atlas is likely to be the deepest and most comprehensive dataset available, indispensable for unraveling functions of many specific genes in plant reproductive processes that have not yet been thoroughly analyzed. This SuperSeries is composed of the following subset Series: GSE13988: Rice expression atlas (1): Anther development GSE14298: Rice expression atlas (2): Pollination - Fertilization GSE14299: Rice expression atlas (3): Early embryogenesis GSE14300: Rice expression atlas (4): Vegetative tissues GSE14301: Rice expression atlas (5): Anther development (Agilent data) Refer to individual Series

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Norway spruce spatiotemporal programs of conifer reproductive development

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