The TARANI/ UBIQUITIN PROTEASE 14 protein is required for lateral root development in Arabidopsis

Majumdar, Parinita; Karidas, Premananda; Nath, Utpal

doi:10.1080/15592324.2020.1860386

Cited by 5 publications

(2 citation statements)

References 18 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In addition, RALF-like 33 is a small peptide that causes rapid extracellular alkalinization and acts as an extracellular signal to regulate plant development (Sharma et al, 2016). Ubiquitin-specific protease 14 is required for the lateral root development in Arabidopsis and may be associated with the initiation of fiber development (Majumdar et al, 2021). Note that SS3 and multiple tubulin proteins (tubulin beta 8 and beta-6 tubulin) were identified as hub genes, which is consistent with the results of the DEGs analysis.…”

Section: Hub Genes Identified By Wgcnasupporting

confidence: 79%

Comparative transcriptional and co-expression network analysis of two upland cotton accessions with extreme phenotypic differences reveals molecular mechanisms of fiber development

He,

Xu,

Azhar

et al. 2023

Front. Plant Sci.

View full text Add to dashboard Cite

IntroductionUpland cotton (Gossypium hirsutum) is the main source of natural fiber in the global textile industry, and thus its fiber quality and yield are important parameters. In this study, comparative transcriptomics was used to analyze differentially expressed genes (DEGs) due to its ability to effectively screen candidate genes during the developmental stages of cotton fiber. However, research using this method is limited, particularly on fiber development. The aim of this study was to uncover the molecular mechanisms underlying the whole period of fiber development and the differences in transcriptional levels.MethodsComparative transcriptomes are used to analyze transcriptome data and to screen for differentially expressed genes. STEM and WGCNA were used to screen for key genes involved in fiber development. qRT-PCR was performed to verify gene expression of selected DEGs and hub genes.ResultsTwo accessions of upland cotton with extreme phenotypic differences, namely EZ60 and ZR014121, were used to carry out RNA sequencing (RNA-seq) on fiber samples from different fiber development stages. The results identified 704, 376, 141, 269, 761, and 586 genes that were upregulated, and 1,052, 476, 355, 259, 702, and 847 genes that were downregulated at 0, 5, 10, 15, 20, and 25 days post anthesis, respectively. Similar expression patterns of DEGs were monitored using short time-series expression miner (STEM) analysis, and associated pathways of DEGs within profiles were investigated. In addition, weighted gene co-expression network analysis (WGCNA) identified five key modules in fiber development and screened 20 hub genes involved in the development of fibers.DiscussionThrough the annotation of the genes, it was found that the excessive expression of resistance-related genes in the early fiber development stages affects the fiber yield, whereas the sustained expression of cell elongation-related genes is critical for long fibers. This study provides new information that can be used to improve fibers in newly developed upland cotton genotypes.

show abstract

Section: Hub Genes Identified By Wgcnasupporting

confidence: 79%

Comparative transcriptional and co-expression network analysis of two upland cotton accessions with extreme phenotypic differences reveals molecular mechanisms of fiber development

He,

Xu,

Azhar

et al. 2023

Front. Plant Sci.

View full text Add to dashboard Cite

show abstract

“…The decrease in the activity of TNI, a marker of LR primordium, leads to the delay of LR primordium initiation, thus shortening the LR of tni seedlings. 48 …”

Section: Introductionmentioning

confidence: 99%

Genetic regulation of lateral root development

Zhang

Zhao

et al. 2022

Plant Signaling & Behavior

View full text Add to dashboard Cite

Lateral roots (LRs) are an important part of plant root systems. In dicots, for example, after plants adapted from aquatic to terrestrial environments, filamentous pseudorhizae evolved to allow nutrient absorption. A typical plant root system comprises a primary root, LRs, root hairs, and a root cap. Classical plant roots exhibit geotropism (the tendency to grow downward into the ground) and can synthesize plant hormones and other essential substances. Root vascular bundles and complex spatial structures enable plants to absorb water and nutrients to meet their nutrient quotas and grow. The primary root carries out most functions during early growth stages but is later overtaken by LRs, underscoring the importance of LR development water and mineral uptake and the soil fixation capacity of the root. LR development is modulated by endogenous plant hormones and external environmental factors, and its underlying mechanisms have been dissected in great detail in Arabidopsis, thanks to its simple root anatomy and the ease of obtaining mutants. This review comprehensively and systematically summarizes past research (largely in Arabidopsis) on LR basic structure, development stages, and molecular mechanisms regulated by different factors, as well as future prospects in LR research, to provide broad background knowledge for root researchers.

show abstract