Identification and characterization of drought responsive microRNAs and their target genes in cardamom (Elettaria cardamomum Maton)

Anjali, N.; Nadiya, F.; Thomas, Jinu; Sabu, K. K.

doi:10.1007/s10725-018-0462-9

Cited by 21 publications

(8 citation statements)

References 83 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In recent years, miRNAs have been identified in some plants species through cloning and computational approaches (Saliminejad et al, 2019;Smoczynska et al, 2019), and it has also been shown that miRNAs may be predicted using modern machine learning approaches (Parveen et al, 2019;Esposito et al, 2020). Recent reports have identified hundreds of miRNAs in several species, including Fragaria vesca (Han et al, 2019), cardamom (Anjali et al, 2019), sweet cherry (Wang et al, 2019), and Brazilian pine (Galdino et al, 2019) through highthroughput sequencing. Currently, 38,589 entries representing hairpin precursor miRNAs and 48,860 mature miRNAs have been discovered from 271 organisms, and these are available in the public miRNA database miRbase (Release 22.1, October 2018) 1 (Kozomara et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

Identification of Known and Novel MicroRNAs in Raspberry Organs Through High-Throughput Sequencing

et al. 2020

View full text Add to dashboard Cite

MicroRNAs (miRNAs) are a class of small endogenous RNAs that play important regulatory roles in plants by negatively affecting gene expression. Studies on the identification of miRNAs and their functions in various plant species and organs have significantly contributed to plant development research. In the current study, we utilized high-throughput sequencing to detect the miRNAs in the root, stem, and leaf tissues of raspberry (Rubus idaeus). A total of more than 35 million small RNA reads ranging in size from 18 to 35 nucleotides were obtained, with 147 known miRNAs and 542 novel miRNAs identified among the three organs. Sequence verification and the relative expression profiles of the six known miRNAs were investigated by stemloop quantitative real-time PCR. Furthermore, the potential target genes of the known and novel miRNAs were predicted and subjected to Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes pathway annotation. Enrichment analysis of the GO-associated biological processes and molecular functions revealed that these target genes were potentially involved in a wide range of metabolic pathways and developmental processes. Moreover, the miRNA target prediction revealed that most of the targets predicted as transcription factor-coding genes are involved in cellular and metabolic processes. This report is the first to identify miRNAs in raspberry. The detected miRNAs were analyzed by cluster analysis according to their expression, which revealed that these conservative miRNAs are necessary for plant functioning. The results add novel miRNAs to the raspberry transcriptome, providing a useful resource for the further elucidation of the functional roles of miRNAs in raspberry growth and development.

show abstract

Section: Introductionmentioning

confidence: 99%

Identification of Known and Novel MicroRNAs in Raspberry Organs Through High-Throughput Sequencing

et al. 2020

View full text Add to dashboard Cite

show abstract

“…However, contrary to the sequencing result, the qPCR data showed that the novel miRNA mko-miRN5-3p resulted in negative relative expression. This could be attributed to either low-quality primers or probable low abundance of the miRNA, as previously reported in G. max (miR393a), Elettaria cardamomum (miR477e), and Catharanthus roseus (cro-novel-71, cro-novel-98, cro-novel-43, cro-novel-38, and cro-novel-58) [ 58 , 59 , 60 ].…”

Section: Discussionmentioning

confidence: 81%

Identification of microRNAs from Medicinal Plant Murraya koenigii by High-Throughput Sequencing and Their Functional Implications in Secondary Metabolite Biosynthesis

Gutiérrez-García

Ahmed

Ramalingam

et al. 2021

Plants

View full text Add to dashboard Cite

MicroRNAs (miRNAs) are small noncoding RNA molecules that play crucial post-transcriptional regulatory roles in plants, including development and stress-response signaling. However, information about their involvement in secondary metabolism is still limited. Murraya koenigii is a popular medicinal plant, better known as curry leaves, that possesses pharmaceutically active secondary metabolites. The present study utilized high-throughput sequencing technology to investigate the miRNA profile of M. koenigii and their association with secondary metabolite biosynthesis. A total of 343,505 unique reads with lengths ranging from 16 to 40 nt were obtained from the sequencing data, among which 142 miRNAs were identified as conserved and 7 as novel miRNAs. Moreover, 6078 corresponding potential target genes of M. koenigii miRNAs were recognized in this study. Interestingly, several conserved and novel miRNAs of M. koenigii were found to target key enzymes of the terpenoid backbone and the flavonoid biosynthesis pathways. Furthermore, to validate the sequencing results, the relative expression of eight randomly selected miRNAs was determined by qPCR. To the best of our knowledge, this is the first report of the M. koenigii miRNA profile that may provide useful information for further elucidation of the involvement of miRNAs in secondary metabolism. These findings might be crucial in the future to generate artificial-miRNA-based, genetically engineered M. koenigii plants for the overproduction of medicinally highly valuable secondary metabolites.

show abstract

“…To sum up, in response to drought stress, plants manifested different regulations in the same species to adapt to hydronic conditions. It is worth mentioning that as miR396d and miR396e were observed only in cardamom, miR528 as a monocot-specific miRNAs also was detected in rice, sorghum, and maize (Anjali et al, 2018).…”

Section: Mirnas Response To Drought Stress In Plantsmentioning

confidence: 95%

“…To enhance the performance of plant and better understanding the molecular mechanism under drought, the research of miRNA is highly desired. Increasing evidence suggests that drought-responsive miRNA has been investigated in several dicotyledonous and monocotyledonous species, for instance, Arabidopsis (Ni et al, 2012;Li et al, 2016;Yang et al, 2019;Yu et al, 2019), maize (Das and Mondal, 2021), alfalfa (Arshad et al, 2018), cereals (Geng et al, 2021;Singroha et al, 2021), cardamom (Anjali et al, 2018), barley (Ferdous et al, 2017), soybean (Zhou et al, 2020), and potato (Yang et al, 2014).…”

Section: Mirnas Response To Drought Stress In Plantsmentioning

confidence: 99%

Roles of microRNAs in abiotic stress response and characteristics regulation of plant

Zhang

Yang²,

Zhang³

et al. 2022

Front. Plant Sci.

View full text Add to dashboard Cite

MicroRNAs (miRNAs) are a class of non-coding endogenous small RNAs (long 20–24 nucleotides) that negatively regulate eukaryotes gene expression at post-transcriptional level via cleavage or/and translational inhibition of targeting mRNA. Based on the diverse roles of miRNA in regulating eukaryotes gene expression, research on the identification of miRNA target genes has been carried out, and a growing body of research has demonstrated that miRNAs act on target genes and are involved in various biological functions of plants. It has an important influence on plant growth and development, morphogenesis, and stress response. Recent case studies indicate that miRNA-mediated regulation pattern may improve agronomic properties and confer abiotic stress resistance of plants, so as to ensure sustainable agricultural production. In this regard, we focus on the recent updates on miRNAs and their targets involved in responding to abiotic stress including low temperature, high temperature, drought, soil salinity, and heavy metals, as well as plant-growing development. In particular, this review highlights the diverse functions of miRNAs on achieving the desirable agronomic traits in important crops. Herein, the main research strategies of miRNAs involved in abiotic stress resistance and crop traits improvement were summarized. Furthermore, the miRNA-related challenges and future perspectives of plants have been discussed. miRNA-based research lays the foundation for exploring miRNA regulatory mechanism, which aims to provide insights into a potential form of crop improvement and stress resistance breeding.

show abstract

Identification and characterization of drought responsive microRNAs and their target genes in cardamom (Elettaria cardamomum Maton)

Cited by 21 publications

References 83 publications

Identification of Known and Novel MicroRNAs in Raspberry Organs Through High-Throughput Sequencing

Identification of Known and Novel MicroRNAs in Raspberry Organs Through High-Throughput Sequencing

Identification of microRNAs from Medicinal Plant Murraya koenigii by High-Throughput Sequencing and Their Functional Implications in Secondary Metabolite Biosynthesis

Roles of microRNAs in abiotic stress response and characteristics regulation of plant

Contact Info

Product

Resources

About