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internal transcribed spacers

Runlai Hang, Zhen Wang, Xian Deng, Chun Yan Liu, Bin Yan, Chao Yang, Xianwei Song, Beixin Mo, XiaoFeng Cao
Ribosome biogenesis is crucial for plant growth and environmental acclimation. Processing of ribosomal RNAs (rRNAs) is an essential step in ribosome biogenesis and begins with transcription of the rDNA. The resulting pre-rRNA transcript undergoes systematic processing, where multiple endonucleolytic and exonucleolytic cleavages remove the external and internal transcribed spacers (ETS and ITS). The processing sites and pathways for pre-rRNA processing have been deciphered in Saccharomyces cerevisiae and, to some extent, in Xenopus, mammalian cells, and Arabidopsis thaliana...
March 19, 2018: Plant Physiology
Maayan Margalit Levi, Yaarit Nachum-Biala, Roni King, Gad Baneth
BACKGROUND: Babesia spp. and Hepatozoon spp. are apicomplexan parasites that infect a variety of animals, including canids. Their life-cycle includes an invertebrate hematophagous vector as a definitive host and vertebrates as intermediate hosts. The aims of this study were to investigate the prevalence and risk factors for Babesia spp. and Hepatozoon spp. infections in wild golden jackals (Canis aureus) and red foxes (Vulpes vulpes) in Israel and to compare spleen with blood sample polymerase chain reaction (PCR) for the detection of infection...
March 20, 2018: Parasites & Vectors
Tonya L Ward, Maria Gloria Dominguez-Bello, Tim Heisel, Gabriel Al-Ghalith, Dan Knights, Cheryl A Gale
With the advent of next-generation sequencing and microbial community characterization, we are beginning to understand the key factors that shape early-life microbial colonization and associated health outcomes. Studies characterizing infant microbial colonization have focused mostly on bacteria in the microbiome and have largely neglected fungi (the mycobiome), despite their relevance to mucosal infections in healthy infants. In this pilot study, we characterized the skin, oral, and anal mycobiomes of infants over the first month of life ( n = 17) and the anal and vaginal mycobiomes of mothers ( n = 16) by internal transcribed spacer 2 (ITS2) amplicon sequencing...
May 2018: MSystems
Gustavo F Paz, Jeronimo M N Rugani, Andreza P Marcelino, Célia M F Gontijo
The aim of this study was to evaluate the relationship between naturally occurring Leishmania spp. infections in dogs (Canis familiaris) and the practical implications of the use of serological and molecular methods to confirm diagnoses. The study population consisted of 96 domestic dogs in southeastern Brazil. Serum samples were tested for the presence of anti-Leishmania immunoglobulin G (IgG) antibodies using four commercial canine visceral leishmaniasis kits. Dogs confirmed positive by immunofluorescence antibody test (IFAT) were culled and samples from mesenteric lymph nodes, spleen border, bone marrow and ear skin were taken and submitted to DNA extraction...
March 12, 2018: Acta Tropica
Mohammad Bagher Ghavami, Habibeh Mirzadeh, Jamshid Mohammadi, Asghar Fazaeli
The human flea is an important ectoparasite causing serious public health problems worldwide. Planning and monitoring the control programs against this vector require the knowledge of population structure and vector competence. This study was carried out to identify molecular structure of internal transcribed spacer 1 (ITS1) of ribosomal gene and its capability in the survey of Pulex irritans populations as well as to investigate Rickettsia infection in these populations. Flea samples were collected via human baits from animal farms in two districts of Zanjan Province, northwest of Iran...
March 14, 2018: Parasitology Research
Abdullah M S Al-Hatmi, Sarah A Ahmed, Anne D van Diepeningen, Miranda Drogari-Apiranthitou, Paul E Verweij, Jacques F Meis, G Sybren de Hoog
The Fusarium solani species complex (FSSC) is the most common group of fusaria associated with superficial and life-threatening infections in humans. Here we formally introduce Fusarium metavorans sp. nov., widely known as FSSC6 (Fusarium solani species complex lineage 6), one of the most frequent agents of human opportunistic infections. The species is described with multilocus molecular data including sequences of internal transcribed spacer region (ITS), portions of the translation elongation factor 1-a gene (TEF1), and the partial RNA polymerase II gene (rPB2)...
April 1, 2018: Medical Mycology: Official Publication of the International Society for Human and Animal Mycology
Na Jia, Yuan-Chun Zheng, Jia-Fu Jiang, Rui-Ruo Jiang, Bao-Gui Jiang, Ran Wei, Hong-Bo Liu, Qiu-Bo Huo, Yi Sun, Yan-Li Chu, Hang Fan, Qiao-Cheng Chang, Nan-Nan Yao, Wen-Hui Zhang, Hong Wang, Dong-Hui Guo, Xue Fu, Ya-Wei Wang, Peter J Krause, Ju-Liang Song, Wu-Chun Cao
Background: Human babesiosis is an emerging health problem in China. Methods: Babesia were identified in ticks, sheep, and humans in northeastern China using PCR followed by genetic sequencing. We enrolled residents of Heilongjiang and Jilin provinces between 2015 and 2016 who reported a recent tick bite and experienced a viral like illness after recent tick bite or were healthy residents. We evaluated them for Babesia infection using history; physical examination; and blood smear, PCR, and genetic sequencing...
March 10, 2018: Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America
Teresa Iturriaga, Katherine F LoBuglio, Donald H Pfister
Bulgariella pulla (Leotiomycetes) is redescribed with the addition of characters of the ascus, spores, and habitat that were previously unconsidered. The ascus dehiscence mechanism in Bulgariella is unusual among Leotiomycetes. In this genus, asci lack a pore and open by splitting to form valves. Phylogenetic analyses of partial sequences of translation elongation factor 1-α (TEF1-α), the second largest subunit of RNA polymerase II (RPB2), and the 18S and 28S nuc rRNA genes determined that Bulgariella belongs within Leotiomycetes but without conclusive assignment to an order or family...
March 9, 2018: Mycologia
Maryam Ramezany, Iraj Sharifi, Zahra Babaei, Pooya Ghasemi Nejad Almani, Amireh Heshmatkhah, Alireza Keyhani, Mohammad Reza Aflatoonian, Mohammad Ali Mohammadi, Fatemeh Sharifi, Mehdi Bamorovat
This study aimed to explore geographic distribution and molecular characterization of cutaneous leishmaniasis (CL) species by amplifying two popular markers in kinetoplast DNA and internal transcribed spacer 1 loci by nested-PCR, and characterized by sequencing and phylogenetic analyses. Findings demonstrated that two species co-existed in the province: L. tropica (88.5%) and L. major (11.5%). All gender and age groups were equally infected, although males, 21-30 years old, exhibited a significantly higher infection...
March 14, 2018: Pathogens and Global Health
Rim Mtibaà, Dario Rafael Olicón-Hernández, Clementina Pozo, Moncef Nasri, Tahar Mechichi, Jesus González, Elisabet Aranda
Four different laccase-producing strains were isolated from arid soils and used for bisphenol A (BPA) degradation. These strains were identified as Chaetomium strumarium G5I, Thielavia arenaria CH9, Thielavia arenaria HJ22 and Thielavia arenaria SM1(III) by internal transcribed spacer 5.8 S rDNA analysis. Residual BPA was evaluated by HPLC analysis during 48 h of incubation. A complete removal of BPA was observed by the whole cell fungal cultures within different times, depending on each strain. C. strumarium G5I was the most efficient degrader, showing 100% of removal within 8 h of incubation...
March 13, 2018: Ecotoxicology and Environmental Safety
Mostafa Ramadhan Dokhan, Kaouther Jaouadi, Sadok Salem, Osama Zenbil, Jean Paul Gonzalez, Afif Ben Salah, Badreddin Bashir Annajar
Cutaneous leishmaniasis (CL) is a public health concern caused by Leishmania ( L. ) major and ( L. ) tropica in Libya. Information on sandfly vectors, as well as their associated Leishmania species, is of paramount importance because vector dispersion is one of the major factors responsible for pathogen dissemination. A number of 515 sandflies (275 males and 240 females) were collected during June-November 2012 using the CDC miniature light traps from Al Rabta, northwest of Libya. Two hundred and forty unfed females were identified; Phlebotomus ( Ph...
March 12, 2018: American Journal of Tropical Medicine and Hygiene
Chuanxiang Tang, Min Cai, Lin Wang, Yaqiong Guo, Na Li, Yaoyu Feng, Lihua Xiao
BACKGROUND: Cattle are commonly infected with the microsporidian parasite Enterocytozoon bieneusi. Sequence characterization of E. bieneusi in these animals at the ribosomal internal transcribed spacer (ITS) locus had identified I, J and BEB4 as the dominant genotypes. However, current studies on E. bieneusi in dairy cattle are mostly on infection rates and genotype distribution. This study aims to examine the intragenotypic diversity within dominant E. bieneusi genotypes in pre-weaned dairy calves in Shanghai, China...
March 12, 2018: Parasites & Vectors
Bouchra Trari, Mohamed Dakki
The Anopheles maculipennis complex has been implicated in the transmission of malaria, which was endemic in Morocco until 2010. Climate change, intensification of international travel and the permanent presence of the vector increase the risk of malaria re-emergence. Using polymerase chain reaction assay (PCR), this study attempts to identify the possible presence of the Maculipennis complex in several areas of Morocco, based on the concept of risk. Eighty-six mosquito specimens were analyzed using PCR amplification of the ITS2 (Internal Transcribed Spacer 2) sequence of ribosomal DNA...
March 5, 2018: Eastern Mediterranean Health Journal, la Revue de Santé de la Méditerranée Orientale
Haiying Cai, Ting Zhang, Qi Zhang, Jie Luo, Chenggang Cai, Jianwei Mao
Chinese sweet rice wine (CSRW) is a popular alcoholic drink in China. To investigate the effect of the microbial composition in CSRW starters on the final quality of the alcoholic drink, high-throughput sequencing on the fungal internal transcribed spacer II and bacterial 16S rRNA gene of the microflora in 8 starter samples was performed. The sequencing data analysis showed that 10 genera of yeasts and mold, and 11 genera of bacteria were identified. Fungal diversity analyses showed the significant variances in the fungal compositions among the starter samples...
August 2018: Food Microbiology
Marina O Cesar, Eliana R Matushima, Ticiana Zwarg, Alice S de Oliveira, Thaís C Sanches, Adriana M Joppert, Lara B Keid, Trícia Maria F S Oliveira, Helena L Ferreira, Horwald Alexander Bedoya Llano, Guilherme Konradt, Matheus Viezzer Bianchi, Fábio Gregori, Luís Fernando P Gondim, Rodrigo M Soares
In a previous study in Brazil, six isolates of Sarcocystis spp. recovered from budgerigars fed sporocysts excreted by opossums of the genus Didelphis were characterized by means of sequencing fragments of gene coding cytochrome B (CYTB), internal transcribed spacer 1 (ITS1), and surface antigen genes (SAG2, SAG3 and SAG4). The isolates shared identical ITS1 and CYTB sequences, but differed at SAG2, SAG3 and SAG4: three allele variants of SAG2, 3 allele variants of SAG3 and 2 allele variants of SAG4 were encountered in three multilocus genotypes (MLGs) (MLG1, MLG2, and MLG3)...
March 6, 2018: Experimental Parasitology
Amer Al-Jawabreh, Kamal Dumaidi, Suheir Ereqat, Abdelmajeed Nasereddin, Kifaya Azmi, Hanan Al-Jawabreh, Nahed Al-Laham, Ziad Abdeen
In human cutaneous leishmaniasis (CL), the success of positive diagnoses and species identifications depends, primarily, on how biopsies are taken and then processed and examined. The efficiency of three methods of taking skin biopsies from suspect cases of CL was compared using the classical methods of microscopy of stained smears, in vitro culture of tissue aspirate, and internal transcribed spacer region 1 (ITS1)-polymerase chain reaction in diagnosing positive cases and identifying the species of Leishmania causing them...
March 6, 2018: Acta Tropica
Vu Nguyen Thanh, Dinh Duc Hien, Takashi Yaguchi, Jose Paulo Sampaio, Marc-André Lachance
The presence of yeasts at different steps of Vietnamese soy paste production was studied. Yeast growth occurred during primary soybean fermentation, with the cell density reaching 4.106 c.f.u. ml-1 , and terminated during brine fermentation. The dominant species were Pichia kudriavzevii and Millerozyma farinosa. Over the span of 14 years, nine strains of Moniliella were isolated. The strains had identical PCR fingerprints generated with primer (GAC)5 and identical D1/D2 and internal transcribed spacer (ITS) sequences...
March 9, 2018: International Journal of Systematic and Evolutionary Microbiology
Ave Suija, Pieter van den Boom, Erich Zimmermann, Mikhail P Zhurbenko, Paul Diederich
The lichenicolous taxa currently included in the genus Hainesia were studied based on the nuclear rDNA (18S, 28S, and internal transcribed spacer [ITS]) genes. The authors found that lichenicolous taxa form a distinct lineage sister to Epiglia gloeocapsae (Phacidiales, Leotiomycetes), only distantly related to the type species of Hainesia (Chaetomellaceae, Helotiales). Owing to morphological similarities, the authors include the lichenicolous species into the previously monotypic genus Epithamnolia. A new species, Epithamnolia rangiferinae, is described, several names are reduced into synonymy, and a key to the species of Epithamnolia is provided...
December 13, 2017: Mycologia
Laura Rindi, Nicoletta Lari, Carlo Garzelli
Background: Mycobacterium avium subsp. hominissuis (MAH) is an environmental opportunistic pathogen for humans and swine worldwide; in humans, the vast majority of MAH infections is due to strains belonging to specific genotypes, such as the internal transcribed spacer (ITS)-sequevars Mav-A and Mav-B that mostly cause pulmonary infections in elderly patients and severe disseminated infections in acquired immunodeficiency syndrome patients, respectively. To test whether the different types of infections in distinct patients' populations might reflect a different virulence of the infecting genotypes, MAH human isolates, genotyped by ITS sequencing and MIRU-VNTR minisatellite analysis, were studied for the capacity to infect and replicate in human macrophages in vitro...
January 2018: International Journal of Mycobacteriology
Lais Lovison Sturaro, Tohru Gonoi, Ariane Fidelis Busso-Lopes, Cibele Aparecida Tararam, Carlos Emilio Levy, Luzia Lyra, Plinio Trabasso, Angélica Zaninelli Schreiber, Katsuhiko Kamei, Maria Luiza Moretti
A DNA microarray platform, based on the nucleotide sequences of the internal transcribed spacer regions (ITS1, ITS2) of the rRNA gene, was developed to identify 32 fungal pathogens at the species level. The probe sequences were spotted onto polycarbonate slides with a mini-microarray printer, and after the hybridization, the results were visible with the naked eye. The performance of the microarray platform was evaluated against the commercial automated systems (Vitek ® 2 and BD Phoenix™ systems) and DNA sequencing (gold standard)...
March 7, 2018: Journal of Clinical Microbiology
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