Widespread inspection and comparative analysis of ITS secondary structure conservation and covariation of Coccinellidae

Verma, Chandni; Mishra, Geetanjali; Omkar,

doi:10.1007/s42690-020-00105-y

Cited by 3 publications

(3 citation statements)

References 54 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…These structure motifs impart stability to the ITS2 structure and are reportedly susceptible to polymorphisms that further give rise to non-canonical G-U pairs within the conserved regions of double-stranded helices (Cote and Peculis, 2001;Freire et al, 2012). Above all, closely related species share very similar folding patterns of ITS2 with nearly identical structure motifs (Rampersad, 2014;Verma et al, 2020). Homology search and phylogenetic analysis using ITS as well as ITS2 sequence of the isolate (HCS3) revealed it to be Colletotrichum coccodes as the trees displayed clustering of our isolate under C. coccodes.…”

Section: Discussionmentioning

confidence: 99%

Isolation and Characterization of an Endophytic Fungus Colletotrichum coccodes Producing Tyrosol From Houttuynia cordata Thunb. Using ITS2 RNA Secondary Structure and Molecular Docking Study

Talukdar

Padhi

Kumar

et al. 2021

Front. Bioeng. Biotechnol.

View full text Add to dashboard Cite

An endophytic fungus isolated from healthy leaf tissues of Houttuynia cordata Thunb., an ethnomedicinal plant of North East India, showed a considerable amount of antimicrobial activity. The ethyl acetate extract of the fungal culture filtrates displayed promising antimicrobial activity against a panel of clinically significant pathogens including Candida albicans, Staphylococcus aureus, Escherichia coli, and Pseudomonas aeruginosa. Bioassay guided purification of the organic extract using column and thin layer chromatography yielded a pure homogenous compound which was identified using spectroscopic methods (essentially by 1H NMR and MS) as tyrosol, a well-known phenylethanoid present in several natural sources. Besides, molecular docking studies against tyrosyl tRNA synthetases (TyrRS) of S. aureus (PDB ID: 1JIL) and E. coli (PDB ID: 1VBM), and CYP45014α-lanosterol demethylase (CYP51) of C. albicans (PDB ID: 5FSA) revealed tyrosol has a strong binding affinity with the enzyme active site residues. The fungus was identified as Colletotrichum sp. and characterized by its genomic ITS rDNA and ITS2 sequences. Phylogenetic analyses showed clustering of our isolate with Colletotrichum coccodes. Species of Colletotrichum are also reported to be plant pathogens. Therefore, to confirm the endophytic lifestyle of the isolate, ITS2 RNA secondary structure study was undertaken. The result indicated our isolate exhibited differences in the folding pattern as well as in motif structures when compared to those of pathogenic C. coccodes. The findings indicated that endophytic fungi harboring H. cordata could be explored as a potent source of antimicrobial agents.

show abstract

Section: Discussionmentioning

confidence: 99%

Isolation and Characterization of an Endophytic Fungus Colletotrichum coccodes Producing Tyrosol From Houttuynia cordata Thunb. Using ITS2 RNA Secondary Structure and Molecular Docking Study

Talukdar

Padhi

Kumar

et al. 2021

Front. Bioeng. Biotechnol.

View full text Add to dashboard Cite

show abstract

“…Analyzing DNA (or RNA) sequences is an important method for phylogenetic and taxonomic studies of protistan, plant and animal species (Young & Coleman, 2004;Salvi & Mariottini, 2012;Hong et al, 2019). Given its rapid evolution, ITS2 region is used to phylogenetic analyses of closely related species (Zhao et al, 2018;Verma & Mishra, 2020). Also, it can be used as a molecular marker for species-level phylogeny and molecular clock (Uluar & Çıplak, 2020) like COI (Wagener et al, 2006;Schwarzfeld & Sperling, 2015).…”

Section: Introductionmentioning

confidence: 99%

“…If a CBC occurs between the two organisms, there is a 93% probability that these organisms are different species (Müller et al, 2007;Ruhl et al, 2010;Pawłowska et al, 2013;Torres-Suárez, 2014). Thus, the use of the secondary structure of ITS2 is an important method in phylogeny and species delimitation (Vandivier et al, 2016;Verma & Mishra, 2020). Helix I is variable in sequence unlike Helix II which has more conserved structure and almost represents at least one pyrimidinepyrimidine mismatch (UxU, UxC and CxC).…”

Section: Introductionmentioning

confidence: 99%

Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae)

Gülmez¹,

Budak²,

Korkmaz³

et al. 2022

Turkish Journal of Entomology

View full text Add to dashboard Cite

show abstract

Morphology and phylogeny of Prorocentrum porosum sp. nov. (Dinophyceae): A new benthic toxic dinoflagellate from the Atlantic and Pacific Oceans

et al. 2023

View full text Add to dashboard Cite

Widespread inspection and comparative analysis of ITS secondary structure conservation and covariation of Coccinellidae

Cited by 3 publications

References 54 publications

Isolation and Characterization of an Endophytic Fungus Colletotrichum coccodes Producing Tyrosol From Houttuynia cordata Thunb. Using ITS2 RNA Secondary Structure and Molecular Docking Study

Isolation and Characterization of an Endophytic Fungus Colletotrichum coccodes Producing Tyrosol From Houttuynia cordata Thunb. Using ITS2 RNA Secondary Structure and Molecular Docking Study

Characterization and taxonomic utility of ITS2 in Dolerus Panzer, 1801 (Hymenoptera: Tenthredinidae)

Morphology and phylogeny of Prorocentrum porosum sp. nov. (Dinophyceae): A new benthic toxic dinoflagellate from the Atlantic and Pacific Oceans

Contact Info

Product

Resources

About