Dempster-Shafer Theory for the Prediction of Auxin-Response Elements (AuxREs) in Plant Genomes

Sghaier, Nesrine; Ayed, Rayda Ben; Marzoug, Riadh Ben; Rebai, Ahmed

doi:10.1155/2018/3837060

Cited by 5 publications

(4 citation statements)

References 77 publications

(71 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Most of the PGRs used are auxins, alone or in combination with other regulators, and it is known that there are auxin-related mechanisms functioning through all of the stages of SE induction (Wójcikowska & Gaj, 2017). Different components are involved in the mechanism of regulation of the auxins’ response genes (Weijers & Wagner, 2016; Sghaier et al, 2018), in which the key proteins are Transport Inhibitor Resistant 1/Auxin signaling F-Box (TIR1/AFB), Auxin/Indole-3-acetic acid (Aux/IAA) transcriptional co-regulators, and Auxin Response Factors (ARF) binding proteins (Weijers & Wagner, 2016).…”

Section: Introductionmentioning

confidence: 99%

Transcriptome analysis of the induction of somatic embryogenesis in Coffea canephora and the participation of ARF and Aux/IAA genes

Quintana-Escobar

Nic-Can

Avalos

et al. 2019

PeerJ

View full text Add to dashboard Cite

Background Somatic embryogenesis (SE) is a useful biotechnological tool to study the morpho-physiological, biochemical and molecular processes during the development of Coffea canephora. Plant growth regulators (PGR) play a key role during cell differentiation in SE. The Auxin-response-factor (ARF) and Auxin/Indole-3-acetic acid (Aux/IAA) are fundamental components involved in the signaling of the IAA. The IAA signaling pathway activates or represses the expression of genes responsive to auxins during the embryogenic transition of the somatic cells. The growing development of new generation sequencing technologies (NGS), as well as bioinformatics tools, has allowed us to broaden the landscape of SE study of various plant species and identify the genes directly involved. Methods Analysis of transcriptome expression profiles of the C. canephora genome and the identification of a particular set of differentially expressed genes (DEG) during SE are described in this study. Results A total of eight ARF and seven Aux/IAA differentially expressed genes were identified during the different stages of the SE induction process. The quantitative expression analysis showed that ARF18 and ARF5 genes are highly expressed after 21 days of the SE induction, while Aux/IAA7 and Aux/IAA12 genes are repressed. Discussion The results of this study allow a better understanding of the genes involved in the auxin signaling pathway as well as their expression profiles during the SE process.

show abstract

Section: Introductionmentioning

confidence: 99%

Transcriptome analysis of the induction of somatic embryogenesis in Coffea canephora and the participation of ARF and Aux/IAA genes

Quintana-Escobar

Nic-Can

Avalos

et al. 2019

PeerJ

View full text Add to dashboard Cite

show abstract

“…The method uses 'belief' rather than probability. Belief function is used to represent the uncertainty of the hypothesis [123]. The hypothesis is represented by a probability mass function m. The amount of belief to a hypothesis (A) is denoted by a belief function [124]:…”

Section: ) Dempster-shafermentioning

confidence: 99%

A Review on Challenges of Autonomous Mobile Robot and Sensor Fusion Methods

2020

View full text Add to dashboard Cite

Autonomous mobile robots are becoming more prominent in recent time because of their relevance and applications to the world today. Their ability to navigate in an environment without a need for physical or electro-mechanical guidance devices has made it more promising and useful. The use of autonomous mobile robots is emerging in different sectors such as companies, industries, hospital, institutions, agriculture and homes to improve services and daily activities. Due to technology advancement, the demand for mobile robot has increased due to the task they perform and services they render such as carrying heavy objects, monitoring, search and rescue missions, etc. Various studies have been carried out by researchers on the importance of mobile robot, its applications and challenges. This survey paper unravels the current literatures, the challenges mobile robot is being faced with. A comprehensive study on devices/sensors and prevalent sensor fusion techniques developed for tackling issues like localization, estimation and navigation in mobile robot are presented as well in which they are organised according to relevance, strengths and weaknesses. The study therefore gives good direction for further investigation on developing methods to deal with the discrepancies faced with autonomous mobile robot.

show abstract

“…In this work, we conducted an in silico prediction of AuxREs in the promoters of six auxin-responsive genes in Z. mays . We used microarray data on the auxin response in Z. mays to predict AuxREs in regulatory regions of these genes by applying a data fusion approach based on the combined use of Dempster-Shafer evidence theory and fuzzy sets to scan the upstream sequences of auxin response genes [ 21 ].…”

Section: Introductionmentioning

confidence: 99%

Application of data fusion modeling for the prediction of Auxin response elements in Zea mays for food security purposes

2022

Self Cite

View full text Add to dashboard Cite

Food security will be affected by climate change worldwide, particularly in the developing world, where the most important food products originate from plants. Plants are often exposed to environmental stresses that may affect their growth, development, yield, and food quality. Auxin is a hormone that plays a critical role in improving plants’ tolerance of environmental conditions. Auxin controls the expression of many stress-responsive genes in plants by interacting with specific cis-regulatory elements called auxin-responsive elements (AuxREs). In this work, we performed an in silico prediction of AuxREs in promoters of five auxin-responsive genes in Zea mays. We applied a data fusion approach based on the combined use of Dempster-Shafer evidence theory and fuzzy sets. Auxin has a direct impact on cell membrane proteins. The short-term auxin response may be represented by the regulation of transmembrane gene expression. The detection of an AuxRE in the promoter of prolyl oligopeptidase (POP) in Z. mays and the 3-fold overexpression of this gene under auxin treatment for 30 min indicated the role of POP in maize auxin response. POP is regulated by auxin to perform stress adaptation. In addition, the detection of two AuxRE TGTCTC motifs in the upstream sequence of the bx1 gene suggests that bx1 can be regulated by auxin. Auxin may also be involved in the regulation of dehydration-responsive element-binding and some members of the protein kinase superfamily.

show abstract

Dempster-Shafer Theory for the Prediction of Auxin-Response Elements (AuxREs) in Plant Genomes

Cited by 5 publications

References 77 publications

Transcriptome analysis of the induction of somatic embryogenesis in Coffea canephora and the participation of ARF and Aux/IAA genes

Transcriptome analysis of the induction of somatic embryogenesis in Coffea canephora and the participation of ARF and Aux/IAA genes

A Review on Challenges of Autonomous Mobile Robot and Sensor Fusion Methods

Application of data fusion modeling for the prediction of Auxin response elements in Zea mays for food security purposes

Contact Info

Product

Resources

About