Genome-Wide Identification, Characterization, and Transcriptomic Analysis of the Cyclin Gene Family in Brassica rapa

Abstract

Cyclins are involved in cell division and proliferation by activating enzymes required for the cell cycle progression. Our genome-wide analysis identified 76 cyclin genes in Brassica rapa, which were divided into nine different types (A-, B-, C-, D-, H-, L-, P-, T-, and SDS-type). Cyclin genes were unevenly scattered on all chromosomes, with a maximum of 10 on A08 and a minimum of 2 on A04. The gene structure and conserved motif analysis showed that the cyclins which belonged to the same type or subgroup have a comparable intron/exon pattern or motif. A total of 14 collinear gene pairs suggested that the B. rapa cyclin genes experienced a mass of segmental duplication. The Ka/Ks analysis revealed that the Brcyclin gene family has undergone an extensive purifying pressure. By analyzing the cis-elements in the promoters, we identified 11 cis-elements and five of them are related to the hormone response. We observed 48 potential miRNAs targeting 44 Brcyclin genes, which highlighted the involvement of miRNAs in the regulation of cyclin genes. An association analysis between the leaf size and SNPs in mutants and a transcriptome analysis of two Chinese cabbage-cabbage translocation lines also showed that the Brcyclin gene family was involved in the development of the leaves. The functional characterization of the B. rapa cyclin gene family will provide the foundation for future physiological and genetic studies in the regulation of leaf growth.

A Guide to Cannabis Virology: From the Virome Investigation to the Development of Viral Biotechnological Tools

“…Moreover, the insertion of exogenous sequences into the VIGS vector may limit the fitness of the recombinant virus, which can result in genomic deletions after a few replicative cycles. Despite these potential limitations, it is expected that the VIGS technique will increase its scope in the cannabis system by exploiting the ability of VIGS-mediated down expression to be inherited by the infected plant progeny through RNA-directed DNA methylation (RdDM) [62]. RdDM experiments are still in their very early days but may represent a future tool for the genetic improvement of cannabis through stable epigenetic modifications.…”

Transcriptomic Complexity of Culm Growth and Development in Different Types of Moso Bamboo

“…In this study, a large amount of plant growth and development associated genes lost their functional domains, which were caused by these three types of events regulation. Cyclin domains were considered as core elements of cyclin families and played crucial roles in controlling the cell progression via activating cyclin-dependent kinase enzymes [ 33 ]. Five out of six non-domain isoforms showed much higher concentrations in rhizome than others, indicating that AS event might exert a certain extent of negative influence on rhizome growth.…”

Exploring the frontier of rapid prototyping technologies for plant synthetic biology and what could lie beyond

“…Plant RNA virus‐based vectors present a potential solution to these challenges. Historically, these vectors were used for virus‐induced gene silencing (VIGS), which exploits antiviral gene silencing to rapidly phenotype gene knockdowns without the need to generate transgenic plants (Zulfiqar et al ., 2023: Rössner et al ., 2022). Recent work has demonstrated that RNA viruses can also be used to deliver genetic cargos to somatic tissues across a range of plants (Torti et al ., 2021).…”