Maize single cell rna-seq

Author: gjnl

August undefined, 2024

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 … WebPubMed

Single-cell RNA sequencing determines the evolutionary age of ...

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. WebAbstract. Since the first publication a decade ago describing the use of single-cell RNA sequencing (scRNA-seq) in the context of cancer, over 200 datasets and thousands of scRNA-seq studies have been published in cancer biology. scRNA-seq technologies have been applied across dozens of cancer types and diverse array of study designs to … sneakers philadelphia eagles

Single-cell RNA sequencing of developing maize ears facilitates ...

WebDec 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 ... WebJan 4, 2024 · To generate a single-cell atlas from developing maize ears, we used the 5–10mm stage, where major developmental and architectural decisions, including meristem initiation, maintenance and determinacy, organ specification and differentiation of vascular and ground tissues, are being made ( Irish, 1997, Vollbrecht and Schmidt, 2009 ). 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 ). sneakers peninsula town center

A cis-regulatory atlas in maize at single-cell resolution: Cell

WebDec 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. 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 … sneakers pcWebApr 19, 2024 · Compared with traditional sequencing, single-cell RNA sequencing (scRNA-seq) technology, as the name implies, refers to the sequencing of a single genome for genomic or transcriptomic information that can reveal heterogeneity between cell populations. scRNA-seq methodologies have overcome the challenges of aggregate … road tour of iceland december 25

"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... " - Maize single cell rna-seq

Maize single cell rna-seq

Single‐cell RNA‐seq describes the transcriptome landscape …

WebDifferential expression (DE) analysis is a necessary step in the analysis of single-cell RNA sequencing (scRNA-seq) and spatially resolved transcriptomics (SRT) data. Unlike traditional bulk RNA-seq, DE analysis for scRNA-seq or SRT data has unique characteristics that may contribute to the difficulty of detecting DE genes. However, the ... WebFeb 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.

Did you know?

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

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 • WebApr 12, 2024 · To fill this knowledge gap, the research team studies the transcriptome age of the nematode C. elegans at the single cell level using RNA sequencing. They look at RNA expression from both whole embryos (or organism) and individual cells to gain a comprehensive understanding of how different genes are used during embryonic and …

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 … WebNov 12, 2015 · Analysis of RNA-seq datasets revealed potential transcription associated ... expand exclusively toward a single direction, either in the short or in the long arm, suggesting that ... Genome-wide and organ-specific landscapes of epigenetic modifications and their relationships to mRNA and small RNA transcriptomes in maize. Plant Cell 21 ...

WebMay 20, 2024 · Here, we adapted novoSpaRc 34, a methodology for spatial reconstruction of single-cell RNA-seq data, to generate a 3D single-cell transcriptome atlas of a floral meristem by integrating single ...

WebFeb 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 … road tour around frisco in winterWebJan 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. sneakers philadelphiaWebJan 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. road to us openWebFeb 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. sneakers pharrell williamsWebOct 1, 2024 · We captured 4577, 5054, and 7241 cells in the AC, MMC1, and MMC2-stage ovule-primordium samples, respectively, for single-cell RNA-seq library construction and sequencing and obtained 192,137 ... sneakers philippe model outletWebMar 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. road to usmleWebNov 12, 2024 · Single-cell RNA-sequencing libraries were prepared using the Chromium Single Cell 3′ reagent kit v3 (10x Genomics, PN-1000075; Pleasanton, CA) following the manufacturer’s protocol. Cells were ... road touts meaning