Recent advances in exploring transcriptional regulatory landscape of crops

Frontiers in Plant Science, Год журнала: 2024, Номер 15

Опубликована: Июнь 5, 2024

Crop breeding entails developing and selecting plant varieties with improved agronomic traits. Modern molecular techniques, such as genome editing, enable more efficient manipulation of phenotype by altering the expression particular regulatory or functional genes. Hence, it is essential to thoroughly comprehend transcriptional mechanisms that underpin these In multi-omics era, a large amount omics data has been generated for diverse crop species, including genomics, epigenomics, transcriptomics, proteomics, single-cell omics. The abundant resources emergence advanced computational tools offer unprecedented opportunities obtaining holistic view profound understanding processes linked desirable This review focuses on integrated network approaches utilize investigate gene regulation. Various types networks their inference methods are discussed, focusing recent advancements in plants. integration proven be crucial construction high-confidence networks. With refinement methodologies, they will significantly enhance efforts contribute global food security.

Язык: Английский

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Rewiring gene circuitry for plant improvement

Nature Genetics, Год журнала: 2024, Номер 56(8), С. 1574 - 1582

Опубликована: Июль 29, 2024

Язык: Английский

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A single-cell and spatial wheat root atlas with cross-species annotations delineates conserved tissue-specific marker genes and regulators

Cell Reports, Год журнала: 2025, Номер 44(2), С. 115240 - 115240

Опубликована: Фев. 1, 2025

Despite the broad use of single-cell/nucleus RNA sequencing in plant research, accurate cluster annotation less-studied species remains a major challenge due to lack validated marker genes. Here, we generated single-cell atlas soil-grown wheat roots and annotated identities by transferring annotations from publicly available datasets wheat, rice, maize, Arabidopsis. The predictions our orthology-based approach were next using untargeted spatial transcriptomics. These results allowed us predict evolutionarily conserved tissue-specific markers generate cell type-specific gene regulatory networks for root tissues other used analysis. In summary, transcriptomics resource apical meristems, including numerous known uncharacterized genes developmental regulators. data analyses will facilitate future type non-model species.

Язык: Английский

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Studying plant vascular development using single-cell approaches

Current Opinion in Plant Biology, Год журнала: 2024, Номер 78, С. 102526 - 102526

Опубликована: Март 12, 2024

Язык: Английский

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