Maize single cell rna-seq

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August undefined, 2024

WebOct 9, 2024 · Using the maize protoplast system, we have successfully performed over 200 ChIP-seq experiments for 104 TFs that are expressed in the developing section of the maize leaf, based on previous... WebDec 8, 2024 · To gain better analysis and understanding of the different cell types, Single-Cell RNA-Seq is widely being used in recent times. It helps in providing a better understanding of the clonal evolution as well as tumor heterogeneity. It can include the study of metastatic clones, cancer stem cells, lineage analysis, as well as drug-resistant clones.

The evolution of single-cell RNA sequencing technology and …

WebJun 26, 2024 · In recent times, scRNA-seq has been utilized to dissect the transcriptome profile of stomatal lineage cell development in Arabidopsis (Liu et al., 2024b), to decipher the transcriptional landscape of maize stem-cell reorganization at single-cell resolution (Satterlee et al., 2024) and also in functional analysis and gene discovery in the ... frd specific

Gene Expression and Chromatin Modifications Associated with Maize ...

WebSingle-cell RNA sequencing of developing maize ears facilitates functional analysis and trait candidate gene discovery. / Xu, Xiaosa; Crow, Megan; Rice, Brian R et al. In: Developmental cell, Vol. 56, No. 4, 22.02.2024, p. 557-568.e6. Research output: Contribution to journal › Article › peer-review WebMay 7, 2024 · Using single-cell genomics in six maize organs, we determined the cis - and trans -regulatory factors defining diverse cell identities and coordinating chromatin organization by profiling … WebApr 1, 2024 · Synergetic elongation of mesocotyl and coleoptile are crucial in governing maize seedlings emergence, especially for the maize sown in deep soil. Studying the genomic regions controlling maize deep-sowing tolerance would aid the development of new varieties that are resistant to harsh conditions, such as drought and low temperature … blender material output

Single‐cell RNA‐seq describes the transcriptome landscape and ...

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WebDec 1, 2024 · Single-cell RNA-seq of maize root tips and identification of cell types To perform scRNA-seq on maize inbred line B73, sterilized seeds were germinated with nitrate (nitrate+) or without nitrate (nitrate-) for four days. The primary root length was greater under N-deficit than under N-sufficient conditions (Fig. S1). WebJan 4, 2024 · To ask if scRNA-seq data was required for these insights, we also calculated a list of “whole ear” specific genes from bulk tissue RNA-seq data (Walley et al., 2016), and found a low overlap with our scRNA-seq markers (4%, Table S3), indicating that the bulk tissue RNA-seq lacked cell or developmental domain specific information, as expected. frd software developmentWebJan 15, 2024 · Xu et al. used single cell RNA sequencing (scRNA-seq) to identify spatial regulators of maize ear development. Over 12,500 individual cells and 28,900 genes were analyzed. 12 meta-clusters were predicted, with inflorescence markers from maize or Arabidopsis used to predict the cell or domain identities of these clusters. blender material library plugin

"WebSingle-cell RNA sequencing of developing maize ears facilitates functional analysis and trait candidate gene discovery Highlights • scRNA-seq of developing maize ears reveals major cell types and developmental markers • scRNA-seq co-expression networks predict genetic redundancy • " - Maize single cell rna-seq

Maize single cell rna-seq

Large-scale integration of single-cell transcriptomic data …

WebMar 17, 2024 · The sequencing data included 0B, 1B, and 2B samples. RNA sequencing (RNA-seq) was performed for three tissues: brain, muscle, and gonads. Within each tissue, six samples were 1B and six 0B. Each B condition (1B or 0B) had three males and three females, with 36 total RNA-seq samples. All data are available in SaciBase … WebCrafting a blueprint for single-cell RNA sequencing Highlights High-throughput single-cell RNA sequencing (scRNA-Seq) offers huge potential to plant research. Optimization of a cell-isolation procedure is critical. Cell numbers and sequencing depth per cell must be balanced to maximize results.

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WebJan 4, 2024 · Aside from rice, several studies have applied scRNA-seq toward crop improvement in maize by highlighting the transcriptional differentiation in maize cells at high resolution. For instance,... WebMay 7, 2024 · Using single-cell genomics in six maize organs, we determined the cis - and trans -regulatory factors defining diverse cell identities and coordinating chromatin organization by profiling …

WebFeb 15, 2024 · Single-nucleus RNA sequencing (snRNA-seq) has subsequently been used in the analysis of fresh and preserved samples of tissues and organs, and has proved to be a powerful and popular platform for discovering the priority of critical regulators in animals ( Liang et al., 2024; Kalish et al., 2024 ). WebNov 16, 2024 · Single-cell genomics has slowly advanced in plant research. Here, we introduce a generic procedure for plant nuclei isolation and nanowell-based library preparation for short-read sequencing. This plant-nuclei sequencing (PN-seq) method allows for analyzing several thousands of genes in thousands of individual plant cells. In …

WebPubMed WebSingle-cell RNA-seq (scRNA-seq) has been highlighted as a powerful tool for the description of human cell transcriptome, but the technology has not been broadly applied in plant cells. ... transcriptional landscape of maize stem-cell reorganization at single-cell resolution (Satterlee et al., 2024) and also in functional

WebMar 1, 2024 · Single cell RNA‐seq (scRNA‐seq) has been highlighted as a powerful tool for the description of the human cell transcriptome, but the technology has not been broadly applied in plant cells.

WebHere, we investigated the transcriptional profiles of 12,525 single cells from developing maize ears. The resulting developmental atlas provides a single-cell RNA sequencing (scRNA-seq) map of an inflorescence. We validated our results by mRNA in situ hybridization and by fluorescence-activated cell sorting (FACS) RNA-seq, and we show … frd tests from governmentWebFeb 20, 2024 · Background: Maize mesophyll (M) cells play important roles in various biological processes such as photosynthesis II and secondary metabolism. Functional differentiation occurs during M-cell development, but the underlying mechanisms for regulating M-cell development are largely unknown. frd usmcWebFeb 4, 2024 · Single-cell RNA sequencing (scRNA-seq) technology has recently been used to examine the cellular identity and heterogeneity of several complex plant tissues in maize ( Zea mays) (Nelms & Walbot, 2024; Satterlee et al ., 2024; Marand et al ., 2024; Xu et al ., 2024 ), Arabidopsis (Denyer et al ., 2024; Zhang et al ., 2024, 2024b; Satterlee et … frd softwareWebFeb 4, 2024 · Single-cell RNA sequencing (scRNA-seq) has been used extensively to study cell-specific gene expression in animals, but it has not been widely applied to plants. frd waferWebDec 14, 2024 · The Mount Sinai researchers used single cell transcriptomic analysis of cell type diversity and lineage choice, followed by validation in primary human autopsy tissue to uniquely capture the transience, diversity and lineage choice of cells as the brain grows in middle and late prenatal development, including novel glial progenitor signatures ... frd tr2 wheelsWebSingle-cell RNA sequencing reveals the landscape of maize root tips and assists in identification of cell type-specific nitrate-response genes Author: ... We profiled the transcriptomes of >7000 cells derived from root tips of maize seedlings grown on media with or without nitrate, and identified 11 major cell types or tissues and 85 cell type ... blender material showing blackWebDec 14, 2024 · These single-cell transcriptomic analyses of the shoot apex yield insight into the processes of stem-cell function and cell-fate acquisition in the maize seedling and provide a valuable scaffold on which to better dissect the genetic control of plant shoot morphogenesis at the cellular level. frdw cbc testing