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Journal articles on the topic 'ITS1 and 2'

Author: Grafiati

Published: 4 June 2021

Last updated: 7 February 2022

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1

Vierna, Joaquín, Andrés Martínez-Lage, and Ana M. González-Tizón. "Analysis of ITS1 and ITS2 sequences in Ensis razor shells: suitability as molecular markers at the population and species levels, and evolution of these ribosomal DNA spacers." Genome 53, no. 1 (2010): 23–34. http://dx.doi.org/10.1139/g09-080.

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Internal transcribed spacer 1 and 2 (ITS1 and ITS2) sequences were analysed in Ensis razor shells (Mollusca: Bivalvia: Pharidae). We aimed to (1) test ITS1 and ITS2 as molecular markers at the population level in the successful alien E. directus (Conrad, 1843); (2) test these spacers at the species level in E. directus and three other Ensis species, E. siliqua (L., 1758), E. macha (Molina, 1782), and E. magnus (Schumacher, 1817); and (3) analyse the evolutionary processes that may be shaping Ensis ITS1 and ITS2 extant variation. In E. directus, despite the intragenomic divergence detected, ITS

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Lee, Chao-Hung, Jannik Helweg-Larsen, Xing Tang, et al. "Update on Pneumocystis carinii f. sp.hominis Typing Based on Nucleotide Sequence Variations in Internal Transcribed Spacer Regions of rRNA Genes." Journal of Clinical Microbiology 36, no. 3 (1998): 734–41. http://dx.doi.org/10.1128/jcm.36.3.734-741.1998.

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Pneumocystis carinii f. sp. hominisisolates from 207 clinical specimens from nine countries were typed based on nucleotide sequence variations in the internal transcribed spacer regions I and II (ITS1 and ITS2, respectively) of rRNA genes. The number of ITS1 nucleotides has been revised from the previously reported 157 bp to 161 bp. Likewise, the number of ITS2 nucleotides has been changed from 177 to 192 bp. The number of ITS1 sequence types has increased from 2 to 15, and that of ITS2 has increased from 3 to 14. The 15 ITS1 sequence types are designated types A through O, and the 14 ITS2 typ

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Hausner, Georg, and Xi Wang. "Unusual compact rDNA gene arrangements within some members of the Ascomycota: evidence for molecular co-evolution between ITS1 and ITS2." Genome 48, no. 4 (2005): 648–60. http://dx.doi.org/10.1139/g05-037.

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The internal transcribed spacers of the ribosomal DNA tandem repeat were examined in members of the ascomycetous genus Sphaeronaemella. Species of Sphaeronaemella and its mitotic counterpart Gabarnaudia, have a compact rDNA gene arrangement due to unusually short internal transcribed spacer (ITS) regions. Examination of these regions from phylogenetically related taxa, Cornuvesica, Gondwanamyces, and Ceratocystis, showed that their ITS1 and ITS2 regions could be folded into central hairpin-like structures with the size reduction in species of Sphaeronaemella being due to length reduction of th

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Fenille, Roseli C., Maísa B. Ciampi, Eiko E. Kuramae, and Nilton L. Souza. "Identification of Rhizoctonia solani associated with soybean in Brazil by rDNA-ITS sequences." Fitopatologia Brasileira 28, no. 4 (2003): 413–19. http://dx.doi.org/10.1590/s0100-41582003000400011.

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The aim of this study was to identify isolates of Rhizoctonia solani causing hypocotyl rot and foliar blight in soybean (Glycine max) in Brazil by the nucleotide sequences of ITS-5.8S regions of rDNA. The 5.8S rDNA gene sequence (155 bp) was highly conserved among all isolates but differences in length and nucleotide sequence of the ITS1 and ITS2 regions were observed between soybean isolates and AG testers. The similarity of the nucleotide sequence among AG-1 IA isolates, causing foliar blight, was 95.1-100% and 98.5-100% in the ITS1 and ITS2 regions, respectively. The nucleotide sequence sim

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Yurkov, Andrey P., Alexey A. Kryukov, Anastasia O. Gorbunova, Andrey V. Shcherbakov, and Peter M. Zhurbenko. "Identification of arbuscular mycorrhizal fungi in soils of the North Caucasus based on Illumina MiSeq data for ITS1 and ITS2 regions." BIO Web of Conferences 23 (2020): 02013. http://dx.doi.org/10.1051/bioconf/20202302013.

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The objective of our research was to analyze the efficiency of identification of arbuscular mycorrhizal fungi (AMF) for 2 regions: ITS1 and ITS2 regions of AMF DNA isolated from the soils of the North Caucasus (Karachay-Cherkessia). For the first time the necessity of different AMF species identification using both ITS regions was revealed, but not one region. The research demonstrated: 1) the set of taxa is different using ITS1- and ITS2-based identification; 2) analysis of the ITS1 region reveals a greater number of operational taxonomic units; 3) ITS2 allows identification of AMF at the spe

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Bhinder, Preety, Asha Chaudhry, and Aditi Soni. "Nimbecidine induced gene mutations in internal transcribed spacers 1 and 2 of Anopheles stephensi." Journal of Applied and Natural Science 4, no. 1 (2012): 23–29. http://dx.doi.org/10.31018/jans.v4i1.216.

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The genotoxic effects of nimbecidine, a commercial botanical pesticide derived from the neem tree were assessed by PCR assay on a mosquito Anopheles stephensi taken as an experimental model. After treatment with LC20 of the nimbecidine, the sequence variations in the internal transcribed spacers 1 and 2 (ITS1 and ITS2) of control and treated individuals were studied from their sequence alignment data and the mutations in the form of insertions, deletions, and substitutions were analyzed. Nimbecidine treatment induced 16 deletions, 13 insertions, 93 transitions and 140 transversions in the ITS1

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7

Martínez-Aquino, Andrés, Victor M. Vidal-Martínez, and M. Leopoldina Aguirre-Macedo. "A molecular phylogenetic appraisal of the acanthostominesAcanthostomumandTimoniellaand their position within Cryptogonimidae (Trematoda: Opisthorchioidea)." PeerJ 5 (December 11, 2017): e4158. http://dx.doi.org/10.7717/peerj.4158.

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The phylogenetic position of three taxa from two trematode genera, belonging to the subfamily Acanthostominae (Opisthorchioidea: Cryptogonimidae), were analysed using partial 28S ribosomal DNA (Domains 1–2) and internal transcribed spacers (ITS1–5.8S–ITS2). Bayesian inference and Maximum likelihood analyses of combined 28S rDNA and ITS1 + 5.8S + ITS2 sequences indicated the monophyly of the genusAcanthostomum(A.cf.americanumandA. burminis) and paraphyly of the Acanthostominae.These phylogenetic relationships were consistent in analyses of 28S alone and concatenated 28S + ITS1 + 5.8S + ITS2 seq

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Yurtseva, O. V., та E. V. Mavrodiev. "Caelestium genus novum (Polygonaceae, Polygoneae): evidence bаsed on the results of molecular phylogenetic analyses of tribe Polygoneae, established with consideration of the secondary structure of the ITS rDNA regions". Novitates Systematicae Plantarum Vascularium, № 50 (2019): 47–79. http://dx.doi.org/10.31111/novitates/2019.50.47.

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The genus Bactria, recently described to house Atraphaxis ovczinnikovii from the Pamirs and Bactria lazkovii from the Central Tien Shan, may also include Polygonum tianschanicum from the Eastern Tien Shan. In order to re-circumscribe Bactria and to clarify the place of Polygonum tianschanicum in tribe Polygoneae, we performed Maximum Likelihood (ML) and Bayesian analyses of combined regions of the plastid genome and ITS1–2 regions of nrDNA for 58 species of tribe Polygoneae, with special attention to the secondary structure of pre-rRNA of the ITS1 and ITS2 loci. In all our analyses, Bactria la

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Mbareche, Hamza, Marc Veillette, and Guillaume J. Bilodeau. "In Silico Study Suggesting the Bias of Primers Choice in the Molecular Identification of Fungal Aerosols." Journal of Fungi 7, no. 2 (2021): 99. http://dx.doi.org/10.3390/jof7020099.

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This paper presents an in silico analysis to assess the current state of the fungal UNITE database in terms of the two eukaryote nuclear ribosomal regions, Internal Transcribed Spacers 1 and 2 (ITS1 and ITS2), used in describing fungal diversity. Microbial diversity is often evaluated with amplicon-based high-throughput sequencing approaches, which is a target enrichment method that relies on the amplification of a specific target using particular primers before sequencing. Thus, the results are highly dependent on the quality of the primers used for amplification. The goal of this study is to

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Su, X., Y. Zhang, X. Zheng, et al. "Characterization of the complete nuclear ribosomal DNA sequences of Eurytrema pancreaticum." Journal of Helminthology 92, no. 4 (2017): 484–90. http://dx.doi.org/10.1017/s0022149x17000554.

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AbstractEurytrema pancreaticum is one of the most common trematodes of cattle and sheep, and also infects humans occasionally, causing great economic losses and medical costs. In this study, the sequences of the complete nuclear ribosomal DNA (rDNA) repeat units of five E. pancreaticum individuals were determined for the first time. They were 8306–8310 bp in length, including the small subunit (18S) rDNA, internal transcribed spacer 1 (ITS1), 5.8S rDNA, internal transcribed spacer 2 (ITS2), large subunit (28S) rDNA and intergenic spacer (IGS). There were no length variations in any of the inve

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Zheng, Xu, Qiao-Cheng Chang, Yan Zhang, et al. "Characterization of the Complete Nuclear Ribosomal DNA Sequences ofParamphistomum cervi." Scientific World Journal 2014 (2014): 1–11. http://dx.doi.org/10.1155/2014/751907.

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Sequences of the complete nuclear ribosomal DNA (rDNA) gene from five individualParamphistomum cerviwere determined for the first time. The five complete rDNA sequences, which included the 18S rDNA, the internal transcribed spacer 1 (ITS1), the 5.8S rDNA, the internal transcribed spacer 2 (ITS2), the 28S rDNA, and the intergenic spacer (IGS) regions, had a length range of 8,493–10,221 bp. The lengths of the investigated 18S, ITS1, 5.8S, ITS2, and 28S rDNA sequences, which were 1,994 bp, 1,293 bp, 157 bp, 286 bp, and 4,186 bp, respectively, did not vary. However, the IGS rDNA sequences had a le

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Choudhary, K., and N. Agrawal. "Ribosomal DNA analysis of isolates of the liver fluke Opisthorchis pedicellata (Verma, 1927) from two siluroid fish species in India." Journal of Helminthology 91, no. 3 (2016): 302–11. http://dx.doi.org/10.1017/s0022149x16000390.

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AbstractThe aim of this paper was to evaluate the genetic relationship between two isolates of Opisthorchis (O. pedicellata sp. 1, O. pedicellata sp. 2) from two siluroid fish hosts, based on three nuclear DNA (18S, internal transcribed spacer 1 (ITS1) and ITS2). Molecular analysis revealed that both isolates of 18S sequences showed low intraspecific variability (1.6%), while this was 1.9% for ITS1 and 2.6% for ITS2. The secondary structure of the ITS2 region exhibited a remarkable four-helix model, with helices 1 and 4 being relatively short, three U–U mismatches in helix 2 and the longest he

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Li, Jiamei, Weiwei Liu, Shan Gao, Alan Warren, and Weibo Song. "Multigene-Based Analyses of the Phylogenetic Evolution of Oligotrich Ciliates, with Consideration of the Internal Transcribed Spacer 2 Secondary Structure of Three Systematically Ambiguous Genera." Eukaryotic Cell 12, no. 3 (2013): 430–37. http://dx.doi.org/10.1128/ec.00270-12.

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ABSTRACT Oligotrichs are ciliates of great abundance, but their molecular systematics are rarely studied. In this study, nine species representing three genera ( Strombidium , Novistrombidium , and Omegastrombidium ) of marine oligotrich ciliates were collected from coastal waters of China. The small subunit (SSU) rRNA gene of two species and the internal transcribed spacers and 5.8S region (ITS1-5.8S-ITS2) for all nine species were sequenced for the first time. Phylogenetic trees using both the SSU rRNA gene and ITS1-5.8S-ITS2 region sequences were generated. In addition, the secondary struct

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Kuramae, Eiko Eurya, and Nilton Luiz De Souza. "Variabilidade genética entre formae speciales de Fusarium oxysporum e raças 1 e 2 de F. oxysporum f. sp. lycopersici através de RAPD e sequências de regiões ITS e rDNA." Acta Scientiarum. Agronomy 24 (April 30, 2008): 1481. http://dx.doi.org/10.4025/actasciagron.v24i0.2409.

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Diferenciação de formae speciales e raças de Fusarium oxysporum através de características morfológicas e culturais é bastante difícil e muitas vezes duvidosa. Marcadores moleculares RAPD e sequenciamento das regiões ITS1 e ITS2 (internal transcribed spacer) e o gene 5.8S rDNA foram utilizados para estimar a variabilidade genética existente entre quatro formae speciales de Fusarium oxysporum (F. o. cubense, F. o. lycopersici, F. o. phaseoli and F. o. vasinfectum) e entre 2 raças de F. o. lycopersici. A variabilidade genética em nível de DNA genômico utilizando-se marcadores moleculares RAPD fo

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Apostolova, Elena, Krasimir Todorov, Ivanka Dimitrova-Dyulgerova, et al. "Analysis of the sequence of ITS1 and ITS2 regions of Three Mentha species." Plant Genetic Resources 15, no. 6 (2016): 563–65. http://dx.doi.org/10.1017/s1479262116000289.

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AbstractMentha (Nepetoideae, Lamiaceae) is a taxonomically complex genus consisting of 29 species and 11 different hybrids including a number of economically important species among them medical plants used for more than 250 years. Because of its high incidence of polyploidy, diverse morphology, high degree of chromosome number variations and interspecies hybridization, Mentha is considered to be a taxonomical challenge. In this paper, we describe cloning and sequencing of internal transcribed spacers (ITS) 1 and 2 of three mint species: Mentha aquatic L., Mentha longifolia L. (Huds) and Menth

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Unuk Nahberger, Tina, Hojka Kraigher, and Tine Grebenc. "PCR primers comparisons for a successful Tuber spp. DNA region amplification in routine identifications / Primerjava PCR začetnih oligonukleotidov za uspešno pomnoževanje DNA regije Tuber spp. pri rutinski identifikaciji." Folia biologica et geologica 61, no. 2 (2020): 229–38. http://dx.doi.org/10.3986/fbg0076.

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Since late 20th century DNA sequencing became the method of choice method in precision species identification. The ITS region is one of the official fungal barcoding DNA markers, although in some cases sequencing of the ITS region may, due to misidentification, mislabeling or nomenclature errors in public databases, lead to incorrect or insufficient identification, as is currently a case in the genus Tuber. The aim of this study was to test, which ITS primer pairs are most appropriate and optimal for Tuber species DNA region amplification. Thereby we (1) compared amplification success for diff

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Iyanyi, N. G., A. E. Ataga, I. S. Rotimi, and I. Blessing. "Molecular identification of fungi associated with avocado (Persea americana Mill.) fruits." Agro-Science 20, no. 1 (2021): 80–86. http://dx.doi.org/10.4314/as.v20i1.13.

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Avocado (Persea americana Mill.) is grown for its nutritious fruit. However, the quantity and quality of these fruits are threatened by some fungal organisms which can cause health complications when it is consumed by man. DNA extraction provides a unique tool for identification of organisms. This study was conducted to isolate and identify fungal species associated with avocado fruit using both morphological and molecular techniques. Fungal species were isolated from Persea americana purchased from Choba market, Port Harcourt, Rivers State, Nigeria using Potato Dextrose Agar (PDA) as a growth

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Sulaiman, Irshad M., Emily Jacobs, and Steven Simpson. "Application of Ribosomal Internal Transcribed Spacer 1, Internal Transcribed Spacer 2, and Large-Subunit D1–D2 Regions as the Genetic Markers to Identify Fungi Isolated from Different Environmental Samples: A Molecular Surveillance Study of Public Health Importance." Journal of AOAC INTERNATIONAL 103, no. 3 (2020): 843–50. http://dx.doi.org/10.1093/jaocint/qsz012.

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Abstract Background In September 2012, a multistate fungal meningitis outbreak started across 20 states in the United States. It affected 753 individuals and caused 64 deaths who received contaminated spinal injections. In a previous study, we analyzed 26 environmental samples collected from the manufacturing premises of a compounding company to determine the possible cause of an outbreak and identified 14 distinct fungal species. Objectives In this follow-up study, we have analyzed 198 environmental samples collected from three additional compounding company premises located in the United Sta

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Su, H. R., H. He, Q. Z. Huang, N. H. Lu, and Y. B. Zhang. "First Report of Black Spot of Acanthus ilicifolius Caused by Fusarium solani in China." Plant Disease 98, no. 10 (2014): 1438. http://dx.doi.org/10.1094/pdis-04-14-0432-pdn.

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Acanthus ilicifolius (family Acanthaceae) grows mainly in tropical coastal areas and is an important medicinal plant that can be used to treat asthma, rheumatism, etc. In July 2013, symptoms of black spots on the leaves of A. ilicifolius were observed in the Mangrove Conservation Area of Shenzhen Futian (22°32′ N, 114°03′ E) and Leizhou peninsula (20°12′~21°35′ N, 109°30′~110°55′ E), Guangdong Province, China. Initial symptoms of the disease were a small, dark brown spots (4 to 5 × 4 to 6 mm) surrounded by a yellow halo (1 to 2 mm in diameter), that would later extend to round or irregular bla

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El-Banhawy, Ahmed, Deniz Aygören Uluer, Abdel Aziz Fayed, Mona Mohamed, and Ahmed Faried. "DNA Barcoding and Phylogenetic Placement of the Genus Euphorbia L. (Euphorbiaceae) in Egypt." Biology and Life Sciences Forum 4, no. 1 (2020): 58. http://dx.doi.org/10.3390/iecps2020-08620.

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(1) Background: The genus Euphorbia L. in Egypt is represented by 40 species, one subspecies, and three varieties which are distributed in almost all phytogeographical regions in Egypt. The genus is well known for its medicinal importance; however, various and sometimes anomalous morphological characters make the identification of the genus a problematic case. (2) Methods: In this study, six DNA markers: matK, rbcL, ETS, trnL intron, trnL spacer, and the entire ITS region (ITS1 + 5.8S + ITS2), as well as subunits ITS1 and ITS2 were evaluated singly and in combination to investigate their usage

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KUTISOVA, K., J. KULDA, I. CEPICKA, et al. "Tetratrichomonads from the oral cavity and respiratory tract of humans." Parasitology 131, no. 3 (2005): 309–19. http://dx.doi.org/10.1017/s0031182005008000.

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To clarify the taxonomy of trichomonads associated with human respiratory diseases, we examined a collection of axenic trichomonad strains isolated from the oral cavity and bronchi of patients from pulmonary diseases clinics in Tallin, Estonia. The oral and bronchial strains were compared mutually as well as with a reference strain of Trichomonas tenax, a common inhabitant of the human oral cavity, and other trichomonad species from humans and animals. Unexpectedly, the morphological studies, as well as DNA sequencing of ITS1-5.8S rRNA-ITS2 regions revealed that the Estonian strains belong to

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Fungaro, Maria Helena Pelegrinelli, Marciane Magnani, Laurival Antônio Vilas-Boas, et al. "Genetic relationships among Brazilian strains of Aspergillus ochraceus based on RAPD and ITS sequences." Canadian Journal of Microbiology 50, no. 11 (2004): 985–88. http://dx.doi.org/10.1139/w04-093.

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Ochratoxin A (OA) is a mycotoxin that has been found in coffee beans and coffee beverages. Its toxicological profile includes carcinogenicity, nephrotoxicity, and immunotoxicity. Aspergillus ochraceus is the major species responsible for OA production in Brazilian coffee beans. The genetic relationships among 25 A. ochraceus strains collected from Brazilian coffee-bean samples were determined based on RAPD and internal transcribed spacer (ITS) sequence data. The isolates were resolved into 2 distinct groups, one with 4 strains (group A) and the other with 21 strains (group B). Specific nucleot

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Huang, Jie, Zhenzhen Yi, Miao Miao, Khaled A. S. Al-Rasheid, and Weibo Song. "Phylogenetic relationships within the genus Aspidisca (Protozoa, Ciliophora, Euplotida) revealed by ITS1-5.8S-ITS2 region sequences." Chinese Journal of Oceanology and Limnology 29, no. 2 (2011): 277–83. http://dx.doi.org/10.1007/s00343-011-0127-2.

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Mishra, Priyanka, Amit Kumar, Vereena Rodrigues, Ashutosh K. Shukla, and Velusamy Sundaresan. "Feasibility of nuclear ribosomal region ITS1 over ITS2 in barcoding taxonomically challenging genera of subtribe Cassiinae (Fabaceae)." PeerJ 4 (December 15, 2016): e2638. http://dx.doi.org/10.7717/peerj.2638.

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Premise of the StudyThe internal transcribed spacer (ITS) region is situated between 18S and 26S in a polycistronic rRNA precursor transcript. It had been proved to be the most commonly sequenced region across plant species to resolve phylogenetic relationships ranging from shallow to deep taxonomic levels. Despite several taxonomical revisions in Cassiinae, a stable phylogeny remains elusive at the molecular level, particularly concerning the delineation of species in the generaCassia, SennaandChamaecrista. This study addresses the comparative potential of ITS datasets (ITS1, ITS2 and concate

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VAN HERWERDEN, L., D. BLAIR, and T. AGATSUMA. "Intra- and inter-specific variation in nuclear ribosomal internal transcribed spacer 1 of the Schistosoma japonicum species complex." Parasitology 116, no. 4 (1998): 311–17. http://dx.doi.org/10.1017/s003118209800242x.

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The first internal transcribed spacer (ITS1) of the nuclear ribosomal DNA repeat was sequenced for members of the Schistosoma japonicum species complex (S. malayensis, S. mekongi and 2 geographical isolates of S. japonicum). The ITS1 is composed of 3 distinct regions: the 5′ end (23 nucleotides); a tract of approximately 90–140 nucleotides, which occurs up to 7 times in tandem, the number varying even within an individual in all species investigated in this study; the 3′ region (378 nucleotides), which lacks repeats. There is size and sequence variation among copies of the ITS1 repeat within a

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Palanna, K. B., S. Basavaraj, K. R. Shreenivasa, and T. Narendrappa. "Species diversity of Ganoderma causing foot rot of arecanut in southern dry tracts of Karnataka." Journal of Environmental Biology 42, no. 2 (2021): 192–202. http://dx.doi.org/10.22438/jeb/jeb/42/2/mrn-1467.

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Aim: The present study was undertaken to study the morphological and molecular diversity of Ganoderma spp. causing foot rot of arecanut in dry tracts of Southern Karnataka. Methodology: A total of 20 samples isolated from diseased areca palms in three districts of Karnataka were identified based on morphological and molecular characteristics. Qualitative data of cultural characteristics were transformed into code and a binary matrix was generated. Total genomic DNA was isolated and ITS region was amplified using universal primers ITS1 and ITS4. PCR amplicon was directly sequenced and phylogene

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Wick, R. L., and N. J. Brazee. "First Report of Downy Mildew Caused by a Peronospora Species on Sweet Basil (Ocimum basilicum) in Massachusetts." Plant Disease 93, no. 3 (2009): 318. http://dx.doi.org/10.1094/pdis-93-3-0318b.

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In September of 2008, downy mildew was discovered to be causing a serious foliar blight of sweet basil at several farms and greenhouses in Massachusetts. Infected leaves had chlorotic vein-bounded patches and diffuse chlorosis, and a characteristic gray, fuzzy growth was on the abaxial surface. Microscopic observations revealed branched sporangiophores that measured 187.5 to 325 μm (average 285 μm) long. Sporangia measured 22.5 to 30 × 20 to 22.5 μm (average 26.7 × 20.9 μm). No oospores were found. Sporangium measurements are comparable to unnamed Peronospora species reported previously on bas

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NGAMRIABSAKUL, C., M. F. NEWMAN, and Q. C. B. CRONK. "PHYLOGENY AND DISJUNCTION IN ROSCOEA (ZINGIBERACEAE)." Edinburgh Journal of Botany 57, no. 1 (2000): 39–61. http://dx.doi.org/10.1017/s0960428600000032.

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A phylogenetic study of Roscoea (Zingiberaceae), a high-altitude genus of an otherwise tropical plant family, was undertaken using sequence data from the internal transcribed spacers (ITS) of the nuclear ribosomal DNA (nrDNA). Two species of Cautleya and two species of Curcuma were used as outgroups. This resulted in an aligned matrix of 436bp (ITS1, 203bp; ITS2, 233bp). Sequence divergence of ITS1 and ITS2 within the ingroup ranged from 0–13.9% and 0–7.6% respectively. The results suggest that Roscoea is monophyletic (BS=99%; DI=>3) with the genus Cautleya as sister group. Roscoea itself i

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Ali, Mac Aogáin, Morales, Tiew, and Chotirmall. "Optimisation and Benchmarking of Targeted Amplicon Sequencing for Mycobiome Analysis of Respiratory Specimens." International Journal of Molecular Sciences 20, no. 20 (2019): 4991. http://dx.doi.org/10.3390/ijms20204991.

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(1) Background: Firm consensus has yet to be established in relation to taxonomic classification and primer choice in targeted amplicon sequencing of the mycobiome. While the nuclear ribosomal internal transcribed spacer (ITS) region are recognized as the formal fungal taxonomic barcode, appraisal of different ITS sub-regions and the influence of DNA extraction methods have not been comprehensively undertaken using human respiratory specimens. (2) Methods: We performed ITS analysis of respiratory (sputum) samples by assessing (a) the effect of alternate DNA extraction techniques and (b) an eva

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BARSON, MAXWELL, IVA PŘIKRYLOVÁ, MAARTEN P. M. VANHOVE, and TINE HUYSE. "Parasite hybridization in African Macrogyrodactylus spp. (Monogenea, Platyhelminthes) signals historical host distribution." Parasitology 137, no. 10 (2010): 1585–95. http://dx.doi.org/10.1017/s0031182010000302.

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SUMMARYMacrogyrodactylus spp. from the gills of Clarias gariepinus in Zimbabwe and Kenya, and C. anguillaris in Senegal were identified using haptoral sclerite morphology and by sequencing the nuclear ribosomal DNA internal transcribed spacers (ITS) 1 and 2, partial 18S and the complete 5·8S rRNA gene. A molecular phylogeny was constructed using all sequenced Macrogyrodactylus species to date. Based on morphology, Macrogyrodactylus congolensis, M. heterobranchii, M. clarii, and M. karibae were identified, with one specimen from Zimbabwe displaying morphological features that were intermediate

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Thanh Hoa, Le, Nguyen Thi Bich Nga, Doan Thi Thanh Huong, Le Thi Kim Xuyen, and Nguyen Thi Khue. "Structure and characterization of the ribosomal transcription units of small liver flukes, Opisthorchis viverrini, O. Felineus and Clonorchis sinensis." Vietnam Journal of Biotechnology 17, no. 3 (2020): 441–47. http://dx.doi.org/10.15625/1811-4989/17/3/13538.

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Opisthorchiasis is a zoonotic parasitic infection caused by small liver fluke species, Opisthorchis viverrini,O. felineus and Clonorchis sinensis, in the family Opisthorchiidae. Vietnam has both species, of which C.sinensis is distributed in the northern and O. viverrini in the central provinces. In addition to the mitochondrialgenomes, the ribosomal DNA sequences (rDNA) of these species are highly needed to obtain for providingmolecular markers in species identification, classification, phylogeny and evolutionary studies. In this study,the near/complete nucleotide sequences of ribosomal trans

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Zurita, Antonio, Rocío Callejón, Manuel de Rojas, and Cristina Cutillas. "Morphological and molecular study of the genus Nosopsyllus (Siphonaptera: Ceratophyllidae). Nosopsyllus barbarus () as a junior synonym of Nosopsyllus fasciatus (Bosc d’Antic, 1800)." Insect Systematics & Evolution 49, no. 1 (2017): 81–101. http://dx.doi.org/10.1163/1876312x-00002164.

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In the present work, a comparative morphological and molecular study of Nosopsyllus barbarus (Jordan & Rothschild 1912) and Nosopsyllus fasciatus (Bosc, d’Antic 1800) isolated from rodents from different geographical regions (Spain, Morocco, Belgium, France and Portugal) has been carried out. The Internal Transcribed Spacers 1 and 2 (ITS1, ITS2) and partial 18S rRNA, and partial cytochrome c oxidase 1 (cox1) and cytochrome b (cytb) mtDNA sequences were determined to clarify the taxonomic status of these two species and to assess intraspecific variation and inter-specific sequence differenc

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Zittel, Maike, Daniel Grabner, Andre Wlecklik, et al. "Cryptic species and their utilization of indigenous and non-indigenous intermediate hosts in the acanthocephalanPolymorphus minutus sensu lato(Polymorphidae)." Parasitology 145, no. 11 (2018): 1421–29. http://dx.doi.org/10.1017/s0031182018000173.

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AbstractThe bird-infecting acanthocephalanPolymorphus minutushas been suggested to comprise different lineages or even cryptic species using different intermediate hosts. To clarify this open question, we investigatedPolymorphuscf.minutuscystacanths originating from amphipod intermediate hosts from 27 sites in Germany and France. Parasites and hosts were identified using integrated datasets (COI and/or morphology for hosts and COI + ITS1-5.8S-ITS2 for parasites).Mitochondrial and nuclear data (ITS1) strongly support the existence of three cryptic species inPolymorphuscf.minutus(type 1-3). Thes

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Duan, Y. B., Y. B. Kang, and Z. Z. Yu. "First Report of Pilidium concavum on Paeonia suffruticosa in China." Plant Disease 94, no. 2 (2010): 271. http://dx.doi.org/10.1094/pdis-94-2-0271b.

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Paeonia suffruticosa Andrews, a deciduous perennial shrub, is known for its beautiful and charming flowers. It is regarded as the flower symbol of China and cultivated throughout the country. Since 2006, large, brown necrotic spots have been observed on numerous P. suffruticosa plants in gardens in Luoyang, China. Spots appeared each year and were observed on more than 50% of the plants, sometimes affecting more than half of the leaf. Initial symptoms appeared as small, round, water-soaked lesions in the middle or on the margin of leaves. These areas enlarged up to 1 to 3 cm in diameter and we

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CALLEJÓN, ROCÍO, MANUEL DE ROJAS, CARLOS FELIÚ, et al. "Phylogeography of Trichuris populations isolated from different Cricetidae rodents." Parasitology 139, no. 13 (2012): 1795–812. http://dx.doi.org/10.1017/s0031182012001114.

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SUMMARYThe phylogeography of Trichuris populations (Nematoda) collected from Cricetidae rodents (Muroidea) from different geographical regions was studied. Ribosomal DNA (Internal Transcribed Spacers 1 and 2, and mitochondrial DNA (cytochrome c- oxidase subunit 1 partial gene) have been used as molecular markers. The nuclear internal transcribed spacers (ITSs) 1 and 2 showed 2 clear-cut geographical and genetic lineages: one of the Nearctic region (Oregon), although the second was widespread throughout the Palaearctic region and appeared as a star-like structure in the minimum spanning network

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Mafra, Cláudio, Cynthia Mantovani, Juliana Novo Borges, Rafael Mazioli Barcelos, and Cláudia Portes Santos. "Morphological and molecular diagnosis of Pseudoterranova decipiens (sensu stricto) (Anisakidae) in imported cod sold in Brazil." Revista Brasileira de Parasitologia Veterinária 24, no. 2 (2015): 209–15. http://dx.doi.org/10.1590/s1984-29612015037.

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An anisakid nematode larva found in cod sold in the state of Minas Gerais, Brazil was studied by light and scanning electron microscopy and by a molecular approach. Mitochondrial cytochrome c-oxidase subunit 2 (mtDNA cox-2), 28S rRNA and ITS1, 5.8S and ITS2 regions were amplified using the polymerase chain reaction and sequenced to evaluate the phylogenetic relationships of the larva. The genetic profile confirmed that this larva belongs to the species Pseudoterranova decipiens (sensu stricto). This is the first molecular and ultrastructural study of Pseudoterranova decipiens (sensu stricto) i

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Hermosa, M. R., I. Grondona, E. A. Iturriaga, et al. "Molecular Characterization and Identification of Biocontrol Isolates of Trichoderma spp." Applied and Environmental Microbiology 66, no. 5 (2000): 1890–98. http://dx.doi.org/10.1128/aem.66.5.1890-1898.2000.

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ABSTRACT The most common biological control agents (BCAs) of the genusTrichoderma have been reported to be strains ofTrichoderma virens, T. harzianum, and T. viride. Since Trichoderma BCAs use different mechanisms of biocontrol, it is very important to explore the synergistic effects expressed by different genotypes for their practical use in agriculture. Characterization of 16 biocontrol strains, previously identified as “Trichoderma harzianum” Rifai and one biocontrol strain recognized asT. viride, was carried out using several molecular techniques. A certain degree of polymorphism was detec

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Xu, Yumei, Kai Guo, Weimin Ye, Jianming Wang, Jingwu Zheng, and Zengqi Zhao. "Morphological and molecular characterisation of Longidorus juglans sp. nov. and a sister species L. fangi Xu & Cheng, 1991 (Nematoda: Longidoridae) from China." Nematology 19, no. 8 (2017): 951–70. http://dx.doi.org/10.1163/15685411-00003099.

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Longidorus juglanssp. nov. is a new needle nematode detected from the rhizosphere of a walnut tree in Shanxi Province, P.R. China. It was distinguished by female body length of 3.9-5.2 mm; lip region 14-18 μm wide, rounded and continuous, amphidial fovea pocket-shaped without distinct basal lobes; moderately long odontostyle (125-140 μm); guide ring at mid-odontostyle and situated 69-78 μm from anterior end; short and blunt conoid tail (30-41 μm long, c = 118-147, c′ = 0.6-0.9), bearing 2-3 caudal pores on each side. The male ofL. juglanssp. nov. is 5.1 mm long, with 13 ventro-median supplemen

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Schnabel, G., P. K. Bryson, and M. A. Williamson. "First Report of Armillaria tabescens Causing Armillaria Root Rot of Pindo Palm in South Carolina." Plant Disease 90, no. 8 (2006): 1106. http://dx.doi.org/10.1094/pd-90-1106a.

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A Pindo palm tree (Butia capitata) declined in a commercial landscape setting in Georgetown, SC during June of 2005. In the spring, after looking healthy the previous year, the entire canopy collapsed with leaves attached. The canopy defoliated shortly thereafter. A cross section through primary and secondary roots of the wilting plant revealed necrotic areas with the presence of white mycelial fans. Diseased roots containing mycelial fans were collected and small sections were transferred to benomyl dichloran streptomycin (BDS) selective medium. Fungal cultures grew approximately 1 mm in diam

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KWAŚNA, Hanna, Elaine WARD, and Geoffrey L. BATEMAN. "Phylogenetic relationships among Zygomycetes from soil based on ITS1/2 rDNA sequences." Mycological Research 110, no. 5 (2006): 501–10. http://dx.doi.org/10.1016/j.mycres.2006.02.004.

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Iliushin, Vadim Alexandrovich. "First find of Cadophora antarctica Rodr.-Andrade, Stchigel, Mac Cormack & Cano in the Arctic." Czech Polar Reports 10, no. 2 (2020): 147–52. http://dx.doi.org/10.5817/cpr2020-2-11.

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Cadophora antarctica Rodr.-Andrade, Stchigel, Mac Cormack & Cano was isolated from spoil tip of coal mine in the Arctic, on the territory of the Svalbard archipelago, and is represented by strain IVA-206. Macro- and micromorphology of the isolate were examined along with partial sequences of Internal transcribed spacer rDNA region (ITS1-5.8S-ITS2) and D1/D2 region of 28S rDNA (LSU). The isolate C. antarctica IVA-206 had a number of features that distinguished it from the strain C. antarctica CBS 143035 from Antarctica. Colonies of Arctic strain had darker pigmentation, ramoconidia and coni

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Rodriguez-Lanetty, Mauricio. "Evolving lineages of Symbiodinium-like dinoflagellates based on ITS1 rDNA." Molecular Phylogenetics and Evolution 28, no. 1 (2003): 152–68. http://dx.doi.org/10.1016/s1055-7903(03)00033-2.

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POPLSTEIN, MARTIN, and VLADIMIR VRBA. "Description of the two strains of turkey coccidia Eimeria adenoeides with remarkable morphological variability." Parasitology 138, no. 10 (2011): 1211–16. http://dx.doi.org/10.1017/s0031182011001090.

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SUMMARYAlthough oocyst morphology was always considered as a reliable parameter for coccidian species discrimination we describe strain variation of turkey coccidia, Eimeria adenoeides, which remarkably exceeds the variation observed in any other Eimeria species. Two strains have been isolated – the first strain maintains the typical oocyst morphology attributed to this species – large and ellipsoidal – while the second strain has small and ovoid oocysts, never described before for this species. Other biological parameters including pathogenicity were found to be similar. Cross-protection betw

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Hung, Nguyen Manh, Loan Thi Ho, and Yulia V. Tatonova. "Genetic data of the ITS1-5.8S rDNA sequences of small liver flukes (Opisthorchiidae) from cats in Northern Vietnam." Vietnam Journal of Biotechnology 17, no. 4 (2020): 621–28. http://dx.doi.org/10.15625/1811-4989/17/4/13848.

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Domestic cats and humans are favorite final hosts for some hepatic trematodes of Opisthorchiidae. The present study examined the sequence variation in the nuclear ribosomal DNA (rDNA) region, including the internal transcribed spacer (ITS1) and the 5.8S gene, of two human opisthorchiid species Clonorchis sinensis (Cobbold, 1875) Looss, 1907 and Opisthorchis viverrini (Poirier, 1886) Stiles & Hassal, 1896, in cats sampled in Northern Vietnam. The length of 30 partial ITS1‒5.8S rDNA sequences of C. sinensis from different hosts and localities varied from 761 to 766 bp. The results showed com

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FONG, MUN-YIK, RAHMAH NOORDIN, YEE-LING LAU, FEI-WEN CHEONG, MUHAMMAD HAFIZNUR YUNUS, and ZULKARNAIN MD IDRIS. "Comparative analysis of ITS1 nucleotide sequence reveals distinct genetic difference between Brugia malayi from Northeast Borneo and Thailand." Parasitology 140, no. 1 (2012): 39–45. http://dx.doi.org/10.1017/s0031182012001242.

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SUMMARYBrugia malayi is one of the parasitic worms which causes lymphatic filariasis in humans. Its geographical distribution includes a large part of Asia. Despite its wide distribution, very little is known about the genetic variation and molecular epidemiology of this species. In this study, the internal transcribed spacer 1 (ITS1) nucleotide sequences of B. malayi from microfilaria-positive human blood samples in Northeast Borneo Island were determined, and compared with published ITS1 sequences of B. malayi isolated from cats and humans in Thailand. Multiple alignment analysis revealed th

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LABES, E. M., N. WIJAYANTI, P. DEPLAZES, and A. MATHIS. "Genetic characterization of Strongyloides spp. from captive, semi-captive and wild Bornean orangutans (Pongo pygmaeus) in Central and East Kalimantan, Borneo, Indonesia." Parasitology 138, no. 11 (2011): 1417–22. http://dx.doi.org/10.1017/s0031182011001284.

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SUMMARYOrangutans (Pongo spp.), Asia's only great apes, are threatened in their survival due to habitat loss, hunting and infections. Nematodes of the genus Strongyloides may represent a severe cause of death in wild and captive individuals. In order to better understand which Strongyloides species/subspecies infect orangutans under different conditions, larvae were isolated from fecal material collected in Indonesia from 9 captive, 2 semi-captive and 9 wild individuals, 18 captive groups of Bornean orangutans and from 1 human working with wild orangutans. Genotyping was done at the genomic rD

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Al-Hemaid, Fahad M. A., M. Ajmal Ali, Joongku Lee, Soo-Yong Kim, and Md Oliur Rahman. "Molecular evolutionary relationships of Euphorbia scordifolia Jacq. within the genus inferred from analysis of internal transcribed spacer sequences." Bangladesh Journal of Plant Taxonomy 22, no. 2 (2015): 111–18. http://dx.doi.org/10.3329/bjpt.v22i2.26072.

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The present study explored molecular phylogenetic analysis of 28 species of Euphorbia L. for the identification and establishment of molecular evolutionary relationships of Euphorbia scordifolia Jacq. within the genus based on the internal transcribed spacers (ITS) sequences (ITS1-5.8S-ITS2) of nuclear ribosomal DNA (nrDNA). The sequence similarity search using Basic Local Alignment Search Tool (BLAST) of the ITS sequence of E. scordifolia showed the closest sequence similarity to E. supina Raf. The analysis of ITS sequence data revealed four major clades consistent with subgeneric classificat

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Wang, Y. L., Q. Lu, X. Z. Jia, J. Liang, and X. Y. Zhang. "First Report of Branch Canker Caused by Cytospora atrocirrhata on Populus sp. and Salix sp. in China." Plant Disease 97, no. 3 (2013): 426. http://dx.doi.org/10.1094/pdis-09-12-0854-pdn.

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Cytospora Ehrenb. species and their related teleomorphs are common inhabitants on over 85 species of plants throughout the world, and some of these pathogens have been associated with stem canker and dieback diseases. In July to August of 2011, samples of Cytospora canker were collected from Populus and Salix trees in Aershan City of Xingan League (46.51° N, 120.21° E) and Genhe (50.54° N, 120.30° E) (Inner Mongolia, China), the northeast part of the Chinese mainland, where the forests were frequently stressed by drought and cold springs and seriously suffered from Cytospora canker outbreaks,

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Ha, Le Thi Viet, Nguyen Thi Khue, Dong Van Quyen, and Le Thanh Hoa. "Comparative analysis of the characteristics of Haplorchis taichui mitochondrial genome with Metagonimus yokogawai and its ribosomal transcription unit with H. pumilio (family Heterophyidae)." Vietnam Journal of Biotechnology 19, no. 1 (2021): 69–84. http://dx.doi.org/10.15625/1811-4989/15493.

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Minute intestinal flukes, Haplorchis taichui and H. pumilio, belong to the family Heterophyidae (Trematoda: Platyhelminthes), which have been studied very limited, especially the molecular markers of the mitochondrial genomes (mtDNA) and the ribosome transcription units (rTU or rDNA). We have obtained the complete mitochondrial genome of H. taichui and the coding part of ribosome transcription unit of H. taichui and H. pumilio of Vietnam. Nucleotide and amino acid data were compared between H. taichui and Metagonimus yokogawai for genomic/gene composition, codon usage (skew/skewness), and tand

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Zurita, A., R. Callejón, M. de Rojas, and C. Cutillas. "Morphological, biometrical and molecular characterization of Archaeopsylla erinacei (Bouché, 1835)." Bulletin of Entomological Research 108, no. 6 (2017): 726–38. http://dx.doi.org/10.1017/s0007485317001274.

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AbstractIn the present work, we carried out a morphological, biometrical and molecular study of the species Archaeopsylla erinacei (Bouché, 1835) and their subspecies: Archaeopsylla erinacei erinacei (Bouché, 1835) and Archaeopsylla erinacei maura (Jordan & Rothschild, 1912) isolated from hedgehogs (Erinaceus europaeus) from different geographical regions (Seville and Corse). We have found morphological differences in females of A. erinacei from the same geographical origin that did not correspond with molecular differences. We suggest that some morphological characters traditionally used

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