Journal of Plant Bioinformatics and Biotechnology

Bioinformatics

1. Biotechnological engineering of bacterium-based fertilizers for improving medicinal plants production: A comprehensive review

Fatemeh Dehghan-Nayeri

Articles in Press, Accepted Manuscript, Available Online from 01 January 2021

Abstract

Background: Bacterium-based fertilizers are functional bio-inoculants comprised different types of soil bacteria widely used for enhancing the growth of plants. The bacterial strains used for crafting biofertilizers mainly isolated from agricultural soils showed potential plant-growth-promoting traits ... Read More Background: Bacterium-based fertilizers are functional bio-inoculants comprised different types of soil bacteria widely used for enhancing the growth of plants. The bacterial strains used for crafting biofertilizers mainly isolated from agricultural soils showed potential plant-growth-promoting traits and could enhance the quality of plant root system development and differentiation. Methods: Up to date, various types of Gram-positive and negative bacterial isolates were characterized that showed differential plant-growth-promoting properties. The only challenge with these strains is that most of PGPRs might lose their functionality after isolation from soil layers, therefore leading to a significant decrease in their biological activity. The application of biotechnological methods for enhancing the gene expression profile of such bacteria can regenerate their potential for regaining their acknowledged properties to affect plant growth. In the case of medicinal plants, lower production of vegetative sections might affect the total synthesis of useful secondary metabolites used for different proposes. Therefore, enriching the soil rhizosphere around root system of medicinal plants using exotic bacteria may change the rate of their growth and metabolite production. Results: The current literature suggested that various types of PGPRs could produce phytohormones like auxin to enhance the growth of plants. Indeed, these strains are also able to provide extra level of natural nutrient in the nearby of medicinal plant roots and therefore have the potential to guarantee their sustainable growth within harsh environment. In this respect, understanding the interaction between medicinal plants root system and soil rhizobacteria can open a new window for engineering different types of PGPRs for medicinal production. Conclusion: In this review, the current trends on the biotechnological advancements for improving plant-growth-promoting traits of soil bacteria will be discussed and possible routes for re-introduce effective isolates into soil were reviewed.

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Bioinformatics

2. A Review of RNA Motifs, Identification Algorithms and their Function on Plants

Davoud Naderi; Raheba Jami; Fazal UR Rehman

Volume 1, Issue 1 , Winter 2021, , Pages 28-40

Abstract

Recent Genomic research has significantly developed human knowledge on structural non-coding RNAs (ncRNAs) which folds into characteristic secondary structures and performs specific-structure dependent biological functions. Hence, RNA secondary structure prediction is among the most commonly evaluated ... Read More Recent Genomic research has significantly developed human knowledge on structural non-coding RNAs (ncRNAs) which folds into characteristic secondary structures and performs specific-structure dependent biological functions. Hence, RNA secondary structure prediction is among the most commonly evaluated issues in computational RNA biology. The aim of the present study is to introduce the key role of RNA motifs in biological processes. Such motifs are specifically effective in regulating gene expression, maintaining structure and strength of RNA molecule, splicing the early mRNA, and providing the most appropriate recognition site for protein binding. Doing research and analyzing RNA motifs requires using several methods and algorithms which can provide the structure and properties of these building blocks in organisms. Generally, the most successful computational methods used in organizing RNA include the QRNA, RNAz, and CMfinder algorithms, which correlate nucleotides and other features of RNA structure formation and maintenance. In plants, RNA Recognition Motif (RRM), an 80- amino acid protected motif, is one of the most abundant protein motifs in eukaryotes. This motif has various important roles like participating in growth processes and responding to stresses in plants, and accelerating different metabolic processes. In addition, further analysis of ORRM family members represented presence of ORRM2, ORRM3 and ORRM4 acting as RNA editing factors in mitochondria as well as ORRM6 which is a chloroplast RNA editing factor. Among the construction motifs, the Pseudoknot motif which contributes to several biological activities such as altering expression of pathogenic genes in some viruses and formation of telomerase and self-truncating introns is of great significance, since these are important breeding factors in biotechnology. Based on the results of the study, it can be proposed that further studies on bioinformatics analysis of plant motifs are required to be implemented to open new windows on controlling pathogens in plants.

Bioinformatics

3. Biofertilizers as promising bioinoculants for enhancing the production of secondary plant metabolites: a review

Fatemeh Dehghan-Nayeri

Volume 1, Issue 1 , Winter 2021, , Pages 60-72

Abstract

Background: Today, the production of plant secondary metabolites has been fastened because of the health value of these products for clinical applications. To date, considerable number of secondary substances have isolated from natural sources through which chemists and biochemists could develop new ... Read More

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Journal of Plant Bioinformatics and Biotechnology

Articles in Press

Current Issue

Volume 1 (2021)

Main Subjects = Bioinformatics
Number of Articles: 3

1. Biotechnological engineering of bacterium-based fertilizers for improving medicinal plants production: A comprehensive review

Abstract

2. A Review of RNA Motifs, Identification Algorithms and their Function on Plants

Abstract

3. Biofertilizers as promising bioinoculants for enhancing the production of secondary plant metabolites: a review

Abstract

Articles in Press

Current Issue

Volume 1 (2021)

Main Subjects = Bioinformatics Number of Articles: 3

1. Biotechnological engineering of bacterium-based fertilizers for improving medicinal plants production: A comprehensive review

Abstract

2. A Review of RNA Motifs, Identification Algorithms and their Function on Plants

Abstract

3. Biofertilizers as promising bioinoculants for enhancing the production of secondary plant metabolites: a review

Abstract

Main Subjects = Bioinformatics
Number of Articles: 3