Molecular Identification of <i>Trichoderma</i> Isolates from Sugarcane Bagasse Based on Internal Transcribed Spacer (ITS) rDNA

Rukmana, Siti Hardianti; Ansori, Arif Nur Muhammad; Kusala, Muhammad K. J.; Utami, Ulfah; Wahyudi, Didik; Mandasari, Andita Ayu

doi:10.5958/0974-360x.2020.00585.5

Cited by 3 publications

(1 citation statement)

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“…A last study showed that NS1 sensitivity was higher in primary (67.6%) compared to secondary infection (48.2%) 1 . In secondary infections, there is a decrease in the sensitivity of the NS1 antigen because NS1 protein is removed in the immune complex when reactive DENV is accompanied by positive Ig G. Low sensitivity is also related to the location of the study, the time of examination of the sample, the method of used, hence, further examination is required and results of the NS1 test should be aware to be interpreted in secondary DVI 17,18 .…”

Section: Discussionmentioning

confidence: 99%

Comparison of Diagnostic Tests for Detection of Nonstructural-1(NS1) Antigen Dengue virus using Immunochromatography and Fluorescence Immunoassay Methods

Zuroidah

Tanzilia

Sunari

et al. 2022

RJPT

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Background : NS1 is currently widely used for diagnosis of dengue virus (DENV) infection. Various methods are used to diagnose DENV infection (DVI), either ELISA, immunochromatography (ICT) or most recently the fluorescence immunoassay (FIA) method which are commercially available. Objective: This study aimed to compare the detection capabilities of dengue NS1 antigens using (1) Dengue NS1 ICT Ag (Standard Q - SD Biosensor, Inc.), (2) Dengue NS1 ICT Ag (SD Bioline - Standard Diagnostic, Inc), and (3) Dengue NS1 Ag FIA (Standard F - SD Biosensor, Inc.) Methods: This study consisted of serum samples (n=80) with the number of DVI patients (n=50), non-DVI (n=30). All samples were examined using all three commercial kits for NS1 antigen testing. All DVI samples showed results of reverse-transcriptase polymerase chain reaction (RT-PCR - SIMPLEXAᵀᴹ Dengue - Focus Diagnostics) and/or positive dengue NS1 (Panbio® Dengue Early ELISA) antigen. Results: Standard F showed the highest sensitivity (82%) compared to Standard Q (74%) and SD Bio line (74%). These three commercial kits had the same specificity 100%. The positive predictive value all of these kits was 100% each. The negative prediction value of Standard F, Standard Q, and SD Bio line were 76.9%, 63.8%, 63.8%, respectively. These three NS1 antigen tests had a good agreement (κ 0.681-0.774). Conclusions: FIA test performance (Standard F SD - Biosensor, Inc.) were a quick and easy examination, showing a higher sensitivity and specificity than ICT for detecting DENV infection. Further research is needed to confirm the diagnosis of primary or secondary infection.

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Section: Discussionmentioning

confidence: 99%

Comparison of Diagnostic Tests for Detection of Nonstructural-1(NS1) Antigen Dengue virus using Immunochromatography and Fluorescence Immunoassay Methods

Zuroidah

Tanzilia

Sunari

et al. 2022

RJPT

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Interrelationship amongst varieties of edible mushroom through Molecular marker Study

Roy¹,

Roy²

2022

RJPT

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The information regarding the DNA sequences of plant is very limited. When knowledge of the DNA sequence of the targeted genome is unavailable several PCR based techniques (RAPD, ITS, AFLP, SSR markers, SNP markers) are utilized to accumulate information about the genetic adaptability. Random Amplification of Polymorphic DNA is a technique by which the random segments of DNA are amplified. Short nucleotide primers (8–12 nucleotides) are used to proceed with the PCR using genomic DNA, for fragments to amplify. The primers bind somewhere in the sequence. By comparing the banding matrix the DNA patterns can be ascertained. RAPD has been utilized to characterize, trace the phylogeny of diverse plant species. Internal transcribed spacer (ITS) is to a non-functional RNA situated between structural ribosomal RNAs (rRNA) on a transcript. The sequence of rRNA precursor transcript is the 5' external transcribed sequence (5' ETS), 18S rRNA, ITS1, 5.8S rRNA, ITS2, 28S rRNA and the 3'ETS read from 5' to 3' direction. The complete sequence repeats themselves in tandem array for thousands of copies separated by regions of non-transcribed DNA termed non-transcribed spacer (NTS) or intergenic spacer (IGS). There is the presence of two ITS regions in eukaryotes. The first one located between 18S and 5.8S rRNA genes is called ITS1, while the next in the sequence is ITS2 that lies between 5.8S and 26S rRNA genes in plants. Each eukaryotic ribosomal cluster follows the sequence of the 5' external transcribed sequence (5' ETS), trailed by the 18S rRNA gene, the ITS1 and the 5.8S rRNA gene, the ITS2, the 28S rRNA gene, and finally the 3' ETS. ETS and ITS pieces are excised and rapidly degraded during rRNA maturation. In our study four different gilled mushrooms were analyzed for RAPD and ITS study.

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Biotechnology and Environmental applications of Trichoderma spp.

Elkhateeb

Elnahas

Daba

et al. 2021

RJPP

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The genus Trichoderma is multicultural soil-borne fungi found in different ecosystems. They are highly successful colonizers of their habitats. Genus Trichoderma is capable of dealing with various environments such as compost, agricultural soils, rhizosphere, and waste material. Therefore, different strains of Trichoderma have been applied in agriculture, bioremediation, waste management, and biotechnology. Many Trichoderma species act as biological control agents and plant growth promoters. Additionally, the genus Trichoderma is a new fungal source for the production of cyclosporin A as well as various hydrolytic enzymes with industrial importance.

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Molecular Identification of Trichoderma Isolates from Sugarcane Bagasse Based on Internal Transcribed Spacer (ITS) rDNA

Cited by 3 publications

References 0 publications

Comparison of Diagnostic Tests for Detection of Nonstructural-1(NS1) Antigen Dengue virus using Immunochromatography and Fluorescence Immunoassay Methods

Comparison of Diagnostic Tests for Detection of Nonstructural-1(NS1) Antigen Dengue virus using Immunochromatography and Fluorescence Immunoassay Methods

Interrelationship amongst varieties of edible mushroom through Molecular marker Study

Biotechnology and Environmental applications of Trichoderma spp.

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