Plant genomics

26 important questions on Plant genomics

What can single cell methods be used for?

To focus on specific smaller parts of plants to find out functions, interactions and symbiosis of cells.

What is bulkRNA sequencing?

A method to measure the expression levels of genes in a mixed cell sample.

What does bulkRNA sequencing provide?

An averaged expression profile from a collection of cells.
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What is Single Cell RNA sequencing?

A method used for the detection and quantification of mRNA molecules in a sample.

What does scRNA sequencing focus on?

Gene expression of individual cells.

What can scRNA sequencing be used for?

For studying cellular responses.

What is spatial transciptomics?

A method that counts the number of transcripts of a gene at distinct spatial locations in a tissue.

What is droplet-based scRNA sequencing?

A method that captures RNA from cells by encapsulating individual cells into oil droplets with barcode beads.

Where can droplet-based scRNA sequencing be used for?

Sequencing live cells or nuclei from tissue samples.

What is plate-based RNA sequencing?

A method to sequence single-cell transcriptomes.

What is cell clustering?

A computational analysis method to group similar cells into clusters.

What is cell clustering used for?

To identify different cell types and biological processes within a population.

How does spatial transcriptomics work?

mRNA is captured directly from tissue using spatially barcoded arrays. Each spot captures transcripts from a specific location.

How does droplet based scRNA sequencing work?

Single cells are encapsulated in oil droplets with barcoded beads, after that the RNA is captured, reverse-transcribed and sequenced.

How does plate-based scRNA sequencing work?

Single cells are sorted into individual wells and each cell is processed separately.

What can NHEJ-based editing be used for?

To create loss-of-function mutations to remove susceptibility genes or to control invasive or over-dominant species.

What can homology-directed repair based editing be used for?

Restore lost alleles in endangered plants or to introduce adaptive alleles for stress tolerance or disease resistance.

What can base editing be used for?

To fine-tune genes related to stress response or metabolic efficiency.

What can prime editing be used for?

To correct point mutations that lead to deletions in small, isolated populations.

What can targeted DNA methylation be used for?

To adapt plants to changing environments without altering DNA sequence.

What is Non-Homologous End Joining (NHEJ) based editing?

A method that introduces small insertions or deletions that can knock out or modify gene function.

What is Homology-Directed Repair (HDR) based editing?

A method that uses a repair template to insert or replace DNA sequences.

What is base editing?

A method that converts one base to another without double strand breaks.

What is prime editing?

A method that writes new genetic informations directly into the genome with minimal off-target effects.

What is targeted DNA methylation?

A method that modifies gene expression by changing methylation patterns.

What are two EFSA areas of concern in plant conservation?

Persistence/invasiveness and gene transfer.

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