Use of variability of the fungal ITS2 intergenic region for the identification of medically important yeast species

Biologia ◽  
2009 ◽  
Vol 64 (4) ◽  
Author(s):  
Vladimír Hrabovský ◽  
Leonard Siegfried
Keyword(s):  
Internal Transcribed Spacer ◽  
Yeast Species ◽  
Molecular Genetic ◽  
Infectious Complications ◽  
Yeast Culture ◽  
Sequencing Analysis ◽  
Opportunistic Pathogens ◽  
Its Regions ◽  
Advanced Applications ◽  
Universal Application

AbstractYeasts are common fungal opportunistic pathogens in humans playing a significant role in the morbidity and mortality of immunocompromised patients. Number of resistant yeast species is responsible for infections and consequent infectious complications, but the final microbiological diagnosis can be affected by variability of their phenotype and may result in incorrect identification. For the purposes of this study, advanced applications of molecular genetic methods based on certain up-to-date knowledge of fungal internal transcribed spacer (ITS) regions have been employed, which could support a possibility of universal application of such methods for identification of any pure yeast culture. In this study, the targeted DNA was amplified by a couple of primers, and the products of PCR reaction were divided by capillary electrophoresis. In the cases, in which the measured sizes of fragments did not correspond with the anticipated sizes, fragments were used for the sequencing analysis and compared to the nucleotide databases using the BLAST tool. Out of 208 isolates, 7.2% (n = 16) of cases occurred to be incorrectly determined, particularly in the group of non-albicans Candida species accounting for as many as 21.7%.

Amplifying and Sequencing Analysis the Internal Transcribed Spacer (ITS) Regions of Olpidium Viciae Kusano’s Ribosomal DNA in Broad Bean

2011 ◽  
Vol 271-273 ◽  
pp. 507-513 ◽  
Author(s):  
Ji Ming Yan ◽  
Xiao Hong Shi ◽  
Miao Mei ◽  
Hong Bo Dai ◽  
Hua Zhi Ye
Keyword(s):  
Internal Transcribed Spacer ◽  
Broad Bean ◽  
Its Region ◽  
Rapid Identification ◽  
Sequencing Analysis ◽  
Dna Extraction Method ◽  
Its Gene ◽  
Its Regions ◽  
Polymerase Chain ◽  
Dna Template

Plasmodiophora fire of broad bean is responsible for Olpidium Viciae Kusano, which is a kind of Fungi subdivided into bacteria flagellum amon. We have developed a polymerase chain reaction based method for the rapid identification internal transcribed spacer (ITS) regions of productionally significant fungi Olpidium Viciae Kusano from areas of 2500~3000 metres above sea level. Sequences of the nuclear internal transcribed spacer (ITS) regions ITS1 and ITS4 have been used widely in molecular characteristic studies because of their relatively high variability and facility of amplification. A universal quickly SDS micro-DNA extraction method was used combining a RNaseA pretreatment step to remove PCR interferential RNA. Target sequences in ITS regions genomic were amplified by PCR and sequenced. Using Hanpanchun lesion and healthy bean leaves as template and ITS1, ITS4 as primer to amplify ITS region, the results revealed ITS gene of broad bean genome could be amplified with size of 750bp from healthy leaves, it could be amplified two fragments of 750bp and 500bp from the DNA template extracted from Hanpanchun lesion tissue. The ITS sequence of Olpidium Viciae Kusano is 99% homoeology with Cercospora (grey speck) pathogen. This may lay the foundation for research about classification and analyze evolutionary relationships of Olpidium Viciae Kusano.

scholarly journals Identification of Medically Important Yeast Species by Sequence Analysis of the Internal Transcribed Spacer Regions

2007 ◽  
Vol 45 (3) ◽  
pp. 1079-1079
Author(s):  
S. N. Leaw ◽  
H. C. Chang ◽  
H. F. Sun ◽  
R. Barton ◽  
J.-P. Bouchara ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Internal Transcribed Spacer ◽  
Yeast Species ◽  
Internal Transcribed Spacer Regions

scholarly journals Internal Transcribed Spacer rRNA Gene Sequencing Analysis of Dustborne Fungi in a Water-Damaged Office Building

2016 ◽  
Vol 137 (2) ◽  
pp. AB181
Author(s):  
Brett J. Green ◽  
Angela R. Lemons ◽  
Yeonmi Park ◽  
Jean M. Cox-Ganser ◽  
Ju-Hyeong Park
Keyword(s):  
Internal Transcribed Spacer ◽  
Gene Sequencing ◽  
Office Building ◽  
Rrna Gene ◽  
Sequencing Analysis ◽  
Rrna Gene Sequencing

scholarly journals Species Diversity in Penicillium and Acaulium From Herbivore Dung in China, and Description of Acaulium stericum Sp. Nov.

2021 ◽  
Author(s):  
Lei Su ◽  
Hua Zhu ◽  
Peilin Sun ◽  
Xue Li ◽  
Bochao Yang ◽  
...  
Keyword(s):  
Species Diversity ◽  
Internal Transcribed Spacer ◽  
Food Industry ◽  
Gene Sequencing ◽  
Sequencing Analysis ◽  
Good Source ◽  
Rdna Its ◽  
Herbivorous Animal ◽  
Internal Transcribed Spacer Rdna ◽  
Β Tubulin

Abstract Penicillium and Acaulium species are common in the fresh of herbivore dung and can produce abundant secondary metabolism, which play important roles as decomposers of organic materials, food industry, and enzyme factories. Besides, the well-characterized diversity of dung fungi offers accessible systems for dissecting the function of fungi in gut and for exploring potential to produce high cellulases in herbivorous animal. During a survey of intestinal fungi from herbivorous animal in China, more than 400 were isolated, 38 belonging to Penicillium and 4 belonging to Acaulium were obtained from 12 healthy animals including marmot and chinchilla and selected for detailed study. Putative taxa were characterized by a multi-gene sequencing analysis testing the partial β-tubulin (TUB), the internal transcribed spacer rDNA (ITS), calmodulin (CAM), and RPB2, and a detailed phenotypic study. Penicillium strains were identified as six sections, 12 known species. In addition, four Acaulium isolates were identified as Acaulium album and Acaulium stericum sp. nov. based on morphology and phylogeny of multi-gene sequences. This study shows that the species diversity of Penicillium on herbivore dung has not been widely studied and that seems to be a good source of offers opportunities for discovery of new cellulases from microbial communities.

scholarly journals Gut Microbiota May Not Be Fully Restored in Recovered COVID-19 Patients After 3-Month Recovery

2021 ◽  
Vol 8 ◽  
Author(s):  
Yu Tian ◽  
Kai-yi Sun ◽  
Tian-qing Meng ◽  
Zhen Ye ◽  
Shi-meng Guo ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Bacterial Species ◽  
Short Chain Fatty Acids ◽  
Sequencing Analysis ◽  
Gut Health ◽  
Opportunistic Pathogens ◽  
Recovery Stage ◽  
Β Diversity ◽  
Significant Difference ◽  
Male Patients

Coronavirus disease 2019 (COVID-19) has infected over 124 million people worldwide. In addition to the development of therapeutics and vaccines, the evaluation of the sequelae in recovered patients is also important. Recent studies have indicated that COVID-19 has the ability to infect intestinal tissues and to trigger alterations of the gut microbiota. However, whether these changes in gut microbiota persist into the recovery stage remains largely unknown. Here, we recruited seven healthy Chinese men and seven recovered COVID-19 male patients with an average of 3-months after discharge and analyzed their fecal samples by 16S rRNA sequencing analysis to identify the differences in gut microbiota. Our results suggested that the gut microbiota differed in male recovered patients compared with healthy controls, in which a significant difference in Chao index, Simpson index, and β-diversity was observed. And the relative abundance of several bacterial species differed clearly between two groups, characterized by enrichment of opportunistic pathogens and insufficiency of some anti-inflammatory bacteria in producing short chain fatty acids. The above findings provide preliminary clues supporting that the imbalanced gut microbiota may not be fully restored in recovered patients, highlighting the importance of continuous monitoring of gut health in people who have recovered from COVID-19.

Ceriporia albomellea (Phanerochaetaceae, Basidiomycota), a new species from tropical China based on morphological and molecular evidences

Phytotaxa ◽  
2017 ◽  
Vol 298 (1) ◽  
pp. 20 ◽  
Author(s):  
YUAN YUAN ◽  
XIAO-HONG JI ◽  
FANG WU ◽  
JIA-JIA CHEN
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Ribosomal Rna ◽  
Internal Transcribed Spacer ◽  
Large Subunit ◽  
Morphological Characteristics ◽  
Molecular Evidence ◽  
Its Regions ◽  
Tropical China ◽  
A New Species

A new polypore, Ceriporia albomellea, collected from tropical China, is described and illustrated based on morphological characteristics and molecular evidence. It is characterized by thin, resupinate basidiome with a white subiculum, cottony margin, white to cinnamon-buff pores, clavate cystidia and oblong-ellipsoid basidiospores measured as 3.1–3.8 × 1.7–2 µm. Phylogenetic analysis based on the internal transcribed spacer (ITS) regions and nuclear large subunit (nLSU) ribosomal RNA gene regions supported C. albomellea as a distinctive species belonging to Ceriporia.

Reticulascaceae hyphomycetes from submerged wood in Yunnan, China

Phytotaxa ◽  
2018 ◽  
Vol 348 (3) ◽  
pp. 187 ◽  
Author(s):  
SAJEEWA S.N. MAHARACHCHIKUMBURA ◽  
ZONG-LONG LUO ◽  
HONG-YAN SU ◽  
ABDULLAH M. AL-SADI ◽  
RATCHADAWAN CHEEWANGKOON
Keyword(s):  
Rna Polymerase Ii ◽  
Ribosomal Rna ◽  
Internal Transcribed Spacer ◽  
Yunnan Province ◽  
Large Subunit ◽  
Protein Subunit ◽  
Morphological Examination ◽  
Gene Encoding ◽  
Its Regions ◽  
Taxonomic Novelties

Asexual members of Reticulascaceae (Glomerellales, Hypocreomycetidae) are generally hyphomycetes and usually found as saprobes occurring on various hosts in lentic habitats. A brief survey of the freshwater fungi in Yunnan Province, China, was carried out and four species of Reticulascaceae were isolated. Morphological examination and sequence analysis of large subunit of the nuclear ribosomal RNA (LSU), RNA polymerase II gene encoding the second largest protein subunit (RPB2) and internal transcribed spacer (ITS) regions provide evidence for two taxonomic novelties of Kylindria (K. aquatica and K. chinensis). Two other collections comprised two previously described species of Cylindrotrichum (C. clavatum and C. gorii). Descriptions and illustrations of the above taxa are provided and new species are discussed with comparable taxa.

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