scholarly journals Computational identification of miRNAs and their targets from Crocus sativus L.

2012 ◽  
Vol 64 (1) ◽  
pp. 65-70 ◽  
Author(s):  
Praveen Guleria ◽  
Deepmala Goswami ◽  
Kumar Yadav
Keyword(s):  
Posttranslational Modifications ◽  
Stress Responses ◽  
Mrna Export ◽  
Crocus Sativus ◽  
Est Database ◽  
Computational Approaches ◽  
Export Protein ◽  
Identification And Characterization ◽  
Crocus Sativus L

miRNAs are smaller known entities that perform several crucial regulatory roles in plants. Identification and characterization of miRNAs has been a challenging task which has become simplified with the development of computational approaches. In the present study, three novel miRNAs were predicted from Crocus sativus by computational approaches. A total 6767 ESTs were mined from the EST database available at NCBI. The software MicroPC was utilized which resulted with the prediction of three miRNAs, csa-miR1, csa-miR2 and csa-miR3. Targets were predicted for the respective miRNAs using the miRU2 program. The identified targets have a role in plant growth, senescence, disease resistance and various stress responses. In addition, some targets are involved in mRNA export, protein synthesis and posttranslational modifications.

scholarly journals Sequencing and Computational Approaches to Identification and Characterization of Microbial Organisms

2013 ◽  
Vol 5 ◽  
pp. BECB.S10886 ◽  
Author(s):  
Brijesh Singh Yadav ◽  
Venkateswarlu Ronda ◽  
Dinesh P. Vashista ◽  
Bhaskar Sharma
Keyword(s):  
Sequence Data ◽  
Microbial Interactions ◽  
Microbial Pathogens ◽  
Nucleotide Sequence Data ◽  
Computational Approaches ◽  
Microbial Detection ◽  
Sequencing Technologies ◽  
Sequencing Platforms ◽  
Identification And Characterization

The recent advances in sequencing technologies and computational approaches are propelling scientists ever closer towards complete understanding of human-microbial interactions. The powerful sequencing platforms are rapidly producing huge amounts of nucleotide sequence data which are compiled into huge databases. This sequence data can be retrieved, assembled, and analyzed for identification of microbial pathogens and diagnosis of diseases. In this article, we present a commentary on how the metagenomics incorporated with microarray and new sequencing techniques are helping microbial detection and characterization.

scholarly journals N-glycan chitobiose core biosynthesis by Agl24 strengthens the hypothesis of an archaeal origin of the eukaryal N-glycosylation

2021 ◽  
Author(s):  
Benjamin H. Meyer ◽  
Ben A. Wagstaff ◽  
Panagiotis S. Adam ◽  
Sonja-Verena Albers ◽  
Helge C. Dorfmueller
Keyword(s):  
Posttranslational Modifications ◽  
Biochemical Characterization ◽  
Similar Process ◽  
List Type ◽  
Histidine Residue ◽  
Functional Importance ◽  
Domains Of Life ◽  
Distant Relation ◽  
Identification And Characterization

AbstractProtein N-glycosylation is the most common posttranslational modifications found in all three domains of life. The crenarchaeal N-glycosylation begins with the synthesis of a lipid-linked chitobiose core structure, identical to that in eukaryotes. Here, we report the identification of a thermostable archaeal beta-1,4-N-acetylglucosaminyltransferase, named archaeal glycosylation enzyme 24 (Agl24), responsible for the synthesis of the N-glycan chitobiose core. Biochemical characterization confirmed the function as an inverting β-D-GlcNAc-(1→4)-α-D-GlcNAc-diphosphodolichol glycosyltransferase. Substitution of a conserved histidine residue, found also in the eukaryotic and bacterial homologs, demonstrated its functional importance for Agl24. Furthermore, bioinformatics and structural modeling revealed strong similarities between Agl24 and both the eukaryotic Alg14/13 and a distant relation to the bacterial MurG, which catalyze the identical or a similar process, respectively. Our data, complemented by phylogenetic analysis of Alg13 and Alg14, revealed similar sequences in Asgardarchaeota, further supporting the hypothesis that the Alg13/14 homologs in eukaryotes have been acquired during eukaryogenesis.HighlightsFirst identification and characterization of a thermostable β-D-GlcNAc-(1→4)-α-D-GlcNAc-diphosphodolichol glycosyltransferase (GT family 28) in Archaea.A highly conserved histidine, within a GGH motif in Agl24, Alg14, and MurG, is essential for function of Agl24.Agl24-like homologs are broadly distributed among Archaea.The eukaryotic Alg13 and Alg14 are closely related to the Asgard homologs, suggesting their acquisition during eukaryogenesis.

Identification and characterization of apocarotenoid modifiers and carotenogenic enzymes for biosynthesis of crocins in Buddleja davidii flowers

2021 ◽  
Vol 72 (8) ◽  
pp. 3200-3218
Author(s):  
Gianfranco Diretto ◽  
Alberto José López-Jiménez ◽  
Oussama Ahrazem ◽  
Sarah Frusciante ◽  
Jingyuan Song ◽  
...  
Keyword(s):  
Flower Development ◽  
Expression Patterns ◽  
Transcript Level ◽  
Crocus Sativus ◽  
Buddleja Davidii ◽  
Gardenia Jasminoides ◽  
Carotenoid Cleavage Dioxygenases ◽  
Identification And Characterization ◽  
Carotenoid Pathway

Abstract Crocetin biosynthesis in Buddleja davidii flowers proceeds through a zeaxanthin cleavage pathway catalyzed by two carotenoid cleavage dioxygenases (BdCCD4.1 and BdCCD4.3), followed by oxidation and glucosylation reactions that lead to the production of crocins. We isolated and analyzed the expression of 12 genes from the carotenoid pathway in B. davidii flowers and identified four candidate genes involved in the biosynthesis of crocins (BdALDH, BdUGT74BC1, BdUGT74BC2, and BdUGT94AA3). In addition, we characterized the profile of crocins and their carotenoid precursors, following their accumulation during flower development. Overall, seven different crocins, crocetin, and picrocrocin were identified in this study. The accumulation of these apocarotenoids parallels tissue development, reaching the highest concentration when the flower is fully open. Notably, the pathway was regulated mainly at the transcript level, with expression patterns of a large group of carotenoid precursor and apocarotenoid genes (BdPSY2, BdPDS2, BdZDS, BdLCY2, BdBCH, BdALDH, and BdUGT Genes) mimicking the accumulation of crocins. Finally, we used comparative correlation network analysis to study how the synthesis of these valuable apocarotenoids diverges among B. davidii, Gardenia jasminoides, and Crocus sativus, highlighting distinctive differences which could be the basis of the differential accumulation of crocins in the three species.

CHARACTERIZATION OF A CLASS I CHITINASE FROM SAFFRON (CROCUS SATIVUS L.)

2004 ◽  
pp. 165-171 ◽  
Author(s):  
R. Castillo ◽  
L.G. Gómez ◽  
J.-A. Fernández
Keyword(s):  
Class I ◽  
Crocus Sativus ◽  
Crocus Sativus L

scholarly journals Characterization of Bacteria Isolated from the Saffron (Crocus sativus L.) Rhizosphere

2017 ◽  
Vol 25 (2) ◽  
pp. 5-14
Author(s):  
Majid Jami Al-Ahmadi ◽  
Abbas Mohammadi ◽  
Esmaeil Salehi Kohabadi
Keyword(s):  
Dry Weight ◽  
Plant Growth Promoting Rhizobacteria ◽  
Crocus Sativus ◽  
Phenotypic Traits ◽  
Rdna Sequences ◽  
16S Rdna Sequences ◽  
Plant Growth Promoting ◽  
Sequences Analysis ◽  
Crocus Sativus L

Abstract One purpose of assessing the soil alive and active community is the identification of beneficial bacteria to use them as biological fertilizers, replacing or supplementing synthetic fertilizers. Such biofertilizers are predicted for the sustainability of agricultural production, especially for low input systems such as saffron fields. The aim of this work was to isolate and identify saffron rhizobacteria and to evaluate their possible effects on saffron growth. During 2013/14, some bacteria were isolated from the rhizosphere of the saffron plantations of different age in Gol village, Birjand, Iran. In total, 12 bacteria species were identified based on phenotypic traits and 16S rDNA sequences analysis. The strains were identified as B. subtilis, B. anthracis, B. cereus, B. megaterium, Bacillus sp., Paenibacillus, Pseudomonas fluorescens, P. putida, Escherichia coli, Pectobacterium sp. and Pantoea sp., with the dominant population belonging to the genus Bacillus. In the field study, inoculation of soil with these strains did not affect the leaf dry weight of the cultivated saffron, however, the strains of P. fluorescens increased the leaf area while P. fluorescens, Paenibacillus, Pectobacterium and B. megaterium increased the number of daughter corms and Azotobacter, B. cereus, B. subtilis and B. megaterium increased the corm weight. Our finding revealed that some bacteria present in the soil of perennial saffron plantations have a promising potential for developing as a plant growth promoting rhizobacteria.

scholarly journals Genome-wide identification and characterization of long non-coding RNAs responsive to Dickeya zeae in rice

RSC Advances ◽  
2018 ◽  
Vol 8 (60) ◽  
pp. 34408-34417 ◽  
Author(s):  
Wen Qi Li ◽  
Yu Lin Jia ◽  
Feng Quan Liu ◽  
Fang Quan Wang ◽  
Fang Jun Fan ◽  
...  
Keyword(s):  
Stress Responses ◽  
Critical Role ◽  
Non Coding Rna ◽  
Genome Wide ◽  
Epigenetic Regulator ◽  
Non Coding Rnas ◽  
Growth Development ◽  
Long Non Coding Rna ◽  
Identification And Characterization

Plant long non-coding RNA (lncRNA) is a type of newly emerging epigenetic regulator playing a critical role in plant growth, development, and biotic stress responses.

Sign in / Sign up

Export Citation Format

Share Document