Upcoming progress of transcriptomics studies on plants: An overview

Abstract

Transcriptome sequencing or RNA-Sequencing is a high-resolution, sensitive and high-throughput next-generation sequencing (NGS) approach used to study non-model plants and other organisms. In other words, it is an assembly of RNA transcripts from individual or whole samples of functional and developmental stages. RNA-Seq is a significant technique for identifying gene predictions and mining functional analysis that improves gene ontology understanding mechanisms of biological processes, molecular functions, and cellular components, but there is limited information available on this topic. Transcriptomics research on different types of plants can assist researchers to understand functional genes in better ways and regulatory processes to improve breeding selection and cultivation practices. In recent years, several advancements in RNA-Seq technology have been made for the characterization of the transcriptomes of distinct cell types in biological tissues in an efficient manner. RNA-Seq technologies are briefly introduced and examined in terms of their scientific applications. In a nutshell, it introduces all transcriptome sequencing and analysis techniques, as well as their applications in plant biology research. This review will focus on numerous existing and forthcoming strategies for improving transcriptome sequencing technologies for functional gene mining in various plants using RNA- Seq technology, based on the principles, development, and applications.

Multi‐omics‐driven advances in the understanding of triacylglycerol biosynthesis in oil seeds

“…NGS‐based transcriptome sequencing is a powerful approach in plant functional genomics studies, as it can simultaneously obtain precise information on gene position, splicing events, and expression (Tyagi et al., 2022). Recently, bulked segregant analysis sequencing and RNA profiling were coupled to reveal the genes contributing to kernel row number in maize (Yan et al., 2023), cadmium accumulation in rapeseed (Wang et al., 2023), and plant architecture in peanut and rapeseed (Ye et al., 2022; Yu et al., 2023).…”

De Novo TranscriptomeAnalysis Reveals Novel Insights into Secondary Metabolite Biosynthesis inTylophora indica(Burm. f) Merrill

“…The biosynthesis process of significant phytochemicals from T indica is not well characterized, especially in terms of the genes responsible for their downstream pathways. Next-Generation Sequencing (NGS) technologies can be used to identify genes related to the biosynthesis pathways of secondary metabolites such as phenolics, alkaloids, terpenoids, and glycosides (Younessi Hamzekhanlu et al, 2022; Tyagi et al, 2022; Singh et al, 2024).…”

High-throughput sequencing-based analysis of the composition and diversity of the endophyte community in roots of Stellera chamaejasme

“…With the rapid development of biotechnology, traditional microbial isolation and identification methods can no longer meet the needs of large-scale and diverse microbial groups. As a second-generation sequencing technology, high-throughput sequencing technology can directly sequence large-scale gene sequences, so it has been widely used in studying plant endophyte diversity 35 . Jin et al also analyzed the root endophytic fungi and bacterial communities of S. chamaejasme in Cuiying Mountain and Min County, Gansu Province, by constructing a clone library.…”