scholarly journals Practical identification of eight medically importantTrichosporonspecies by reverse line blot hybridization (RLB) assay and rolling circle amplification (RCA)

2013 ◽  
Vol 51 (3) ◽  
pp. 300-308 ◽  
Author(s):  
Meng Xiao ◽  
Li-Na Guo ◽  
Fanrong Kong ◽  
He Wang ◽  
Tania C. Sorrell ◽  
...  
2017 ◽  
Vol 28 (2) ◽  
pp. 477 ◽  
Author(s):  
Ántony Solórzano Morales ◽  
Ruth Castro Vásquez ◽  
Natalia Barboza Vargas ◽  
Eduardo Hernández Jiménez ◽  
Rosemarie W. Hammond ◽  
...  

The aim of this work was to detect plant infections caused by Tomato chlorosis virus (ToCV) and begomovirus in tomato plantlets, and in growing weeds around nursery greenhouses. During one year, starting in April 2008, 168 leaf tissue samples were collected, 90 tomato plantlets and 78 weeds from three different nurseries in Cartago province, Costa Rica. Reverse transcription and real time polymerase chain reaction (qRT-PCR) was used to determine that 18,9% of tomato plantlets and 7,7% of weeds were infected with ToCV virus. Begomoviruses were detected using Dot Blot hybridization and non-radioactive probe. Next, hybridization results were confirmed using Rolling Circle Amplification (RCA) followed by PCR, using universal primers. None tomato plantlet resulted positive when tested, but there were six weeds infected; in fact, Phytolacca icosandra and Brassica sp. were both coinfected with ToCV virus. These results suggest that ToCV infected tomato plantlets when commercialized, could serve as way of virus introduction to other country regions. Finally, weeds growing around greenhouses have shown to be potential viral sources of ToCV and begomovirus. 


2017 ◽  
Author(s):  
Bo Tian ◽  
Peter Svedlindh ◽  
Mattias Strömberg ◽  
Erik Wetterskog

In this work, we demonstrate for the first time, a ferromagnetic resonance (FMR) based homogeneous and volumetric biosensor for magnetic label detection. Two different isothermal amplification methods, <i>i.e.</i>, rolling circle amplification (RCA) and loop-mediated isothermal amplification (LAMP) are adopted and combined with a standard electron paramagnetic resonance (EPR) spectrometer for FMR biosensing. For RCA-based FMR biosensor, binding of RCA products of a synthetic Vibrio cholerae target DNA sequence gives rise to the formation of aggregates of magnetic nanoparticles. Immobilization of nanoparticles within the aggregates leads to a decrease of the net anisotropy of the system and a concomitant increase of the resonance field. A limit of detection of 1 pM is obtained with an average coefficient of variation of 0.16%, which is superior to the performance of other reported RCA-based magnetic biosensors. For LAMP-based sensing, a synthetic Zika virus target oligonucleotide is amplified and detected in 20% serum samples. Immobilization of magnetic nanoparticles is induced by their co-precipitation with Mg<sub>2</sub>P<sub>2</sub>O<sub>7</sub> (a by-product of LAMP) and provides a detection sensitivity of 100 aM. The fast measurement, high sensitivity and miniaturization potential of the proposed FMR biosensing technology makes it a promising candidate for designing future point-of-care devices.<br>


IMA Fungus ◽  
2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Shan Shen ◽  
Shi-Liang Liu ◽  
Ji-Hang Jiang ◽  
Li-Wei Zhou

Abstract“Sanghuang” refers to a group of important traditionally-used medicinal mushrooms belonging to the genus Sanghuangporus. In practice, species of Sanghuangporus referred to in medicinal studies and industry are now differentiated mainly by a BLAST search of GenBank with the ITS barcoding region as a query. However, inappropriately labeled ITS sequences of “Sanghuang” in GenBank restrict accurate species identification and, to some extent, the utilization of these species as medicinal resources. We examined all available 271 ITS sequences related to “Sanghuang” in GenBank including 31 newly submitted sequences from this study. Of these sequences, more than half were mislabeled so we have now corrected the corresponding species names. The mislabeled sequences mainly came from strains utilized by non-taxonomists. Based on the analyses of ITS sequences submitted by taxonomists as well as morphological characters, we separate the newly described Sanghuangporus subbaumii from S. baumii and treat S. toxicodendri as a later synonym of S. quercicola. Fourteen species of Sanghuangporus are accepted, with intraspecific distances up to 1.30% (except in S. vaninii, S. weirianus and S. zonatus) and interspecific distances above 1.30% (except between S. alpinus and S. lonicerinus, and S. baumii and S. subbaumii). To stabilize the concept of these 14 species of Sanghuangporus, their taxonomic information and reliable ITS reference sequences are provided. Moreover, ten potential diagnostic sequences are provided for Hyperbranched Rolling Circle Amplification to rapidly confirm three common commercial species, viz. S. baumii, S. sanghuang, and S. vaninii. Our results provide a practical method for ITS barcoding-based species identification of Sanghuangporus and will promote medicinal studies and commercial development from taxonomically correct material.


Biosensors ◽  
2021 ◽  
Vol 11 (7) ◽  
pp. 222
Author(s):  
Chenxin Fang ◽  
Ping Ouyang ◽  
Yuxing Yang ◽  
Yang Qing ◽  
Jialun Han ◽  
...  

A microRNA (miRNA) detection platform composed of a rolling circle amplification (RCA) system and an allosteric deoxyribozyme system is proposed, which can detect miRNA-21 rapidly and efficiently. Padlock probe hybridization with the target miRNA is achieved through complementary base pairing and the padlock probe forms a closed circular template under the action of ligase; this circular template results in RCA. In the presence of DNA polymerase, RCA proceeds and a long chain with numerous repeating units is formed. In the presence of single-stranded DNA (H1 and H2), multi-component nucleic acid enzymes (MNAzymes) are formed that have the ability to cleave substrates. Finally, substrates containing fluorescent and quenching groups and magnesium ions are added to the system to activate the MNAzyme and the substrate cleavage reaction, thus achieving fluorescence intensity amplification. The RCA–MNAzyme system has dual signal amplification and presents a sensing platform that demonstrates broad prospects in the analysis and detection of nucleic acids.


2021 ◽  
Vol 93 (15) ◽  
pp. 6169-6177
Author(s):  
Sara Horta ◽  
Felix Neumann ◽  
Shu-hao Yeh ◽  
Christoffer Mattsson Langseth ◽  
Kadri Kangro ◽  
...  

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