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Journal articles on the topic 'ITS 16S-23S'

Author: Grafiati

Published: 4 June 2025

Last updated: 1 August 2025

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1

Song, Jaekyeong, Seong-Chan Lee, Jun-Won Kang, Hyung-Jin Baek, and Joo-Won Suh. "Phylogenetic analysis of Streptomyces spp. isolated from potato scab lesions in Korea on the basis of 16S rRNA gene and 16S–23S rDNA internally transcribed spacer sequences." International Journal of Systematic and Evolutionary Microbiology 54, no. 1 (2004): 203–9. http://dx.doi.org/10.1099/ijs.0.02624-0.

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The 16S rRNA gene sequences for 34 strains, including 11 isolates, were determined to classify scab-causing Streptomyces spp. and relatives isolated from potato scab lesions collected in Jeju, Korea. The 16S–23S rDNA internally transcribed spacer (ITS) sequences were determined to investigate whether the 16S–23S ITS region is useful for analysing intra- and interspecific relationships in these bacteria. On the basis of phylogenetic analysis of 16S rRNA gene sequences, most of the isolates were classified as Streptomyces scabiei and Streptomyces acidiscabies. Isolate KJO61 was placed in an ambi

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2

Cuscó, Anna, Carlotta Catozzi, Joaquim Viñes, Armand Sanchez, and Olga Francino. "Microbiota profiling with long amplicons using Nanopore sequencing: full-length 16S rRNA gene and the 16S-ITS-23S of the rrn operon." F1000Research 7 (August 1, 2019): 1755. http://dx.doi.org/10.12688/f1000research.16817.2.

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Background: Profiling the microbiome of low-biomass samples is challenging for metagenomics since these samples are prone to contain DNA from other sources (e.g. host or environment). The usual approach is sequencing short regions of the 16S rRNA gene, which fails to assign taxonomy to genus and species level. To achieve an increased taxonomic resolution, we aim to develop long-amplicon PCR-based approaches using Nanopore sequencing. We assessed two different genetic markers: the full-length 16S rRNA (~1,500 bp) and the 16S-ITS-23S region from the rrn operon (4,300 bp). Methods: We sequenced a

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3

Man, Si Ming, Nadeem O. Kaakoush, Sophie Octavia, and Hazel Mitchell. "The Internal Transcribed Spacer Region, a New Tool for Use in Species Differentiation and Delineation of Systematic Relationships within the Campylobacter Genus." Applied and Environmental Microbiology 76, no. 10 (2010): 3071–81. http://dx.doi.org/10.1128/aem.02551-09.

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ABSTRACT The Campylobacter genus consists of a number of important human and animal pathogens. Although the 16S rRNA gene has been used extensively for detection and identification of Campylobacter species, there is currently limited information on the 23S rRNA gene and the internal transcribed spacer (ITS) region that lies between the 16S and 23S rRNA genes. We examined the potential of the 23S rRNA gene and the ITS region to be used in species differentiation and delineation of systematic relationships for 30 taxa within the Campylobacter genus. The ITS region produced the highest mean pairw

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Huang, Y., G. W. Stemke, and J. A. Robertson. "An unusual rRNA gene organization in Mycoplasma fermentans (incognitus strain)." Canadian Journal of Microbiology 41, no. 4-5 (1995): 424–27. http://dx.doi.org/10.1139/m95-056.

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The macro-restriction map of Mycoplasma fermentans (incognitus strain) was constructed and its rRNA genes were located on the map. It was found that this organism contains two sets of rRNA genes. The 16S and 23S rRNA genes were closely linked as two clusters. However, both 5S rRNA genes were separated from the 16S and 23S genes. The two 16S–23S rRNA gene clusters were arranged in an unusual tail to tail orientation.Key words: physical map, rRNA, Mycoplasma fermentans, genome, gene organization.

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MIKHAILYUK, TATIANA, OKSANA VINOGRADOVA, ANDREAS HOLZINGER, KARIN GLASER, YURI AKIMOV, and ULF KARSTEN. "Timaviella dunensis sp. nov. from sand dunes of the Baltic Sea, Germany, and emendation of Timaviella edaphica (Elenkin) O.M. Vynogr. & Mikhailyuk (Synechococcales, Cyanobacteria) based on an integrative approach." Phytotaxa 532, no. 3 (2022): 192–208. http://dx.doi.org/10.11646/phytotaxa.532.3.1.

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Timaviella Sciuto & Moro is a recently established cryptic genus of cyanobacteria separated from the morphologically close Leptolyngbya due to clear differences in the 16S rRNA gene sequence and the 16S-23S ITS region secondary structure. Conducting research on biological soil crusts in coastal ecotopes of Ukraine and Germany, we repeatedly observed thin filamentous cyanobacteria morphologically corresponding to the common terrestrial species Leptolyngbya edaphica (Elenkin) Anagnostidis & Komárek. Molecular data based on 16S rRNA gene sequence comparison of the original strains of the

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6

Wolde-meskel, Endalkachew, Zewdu Terefework, Åsa Frostegård, and Kristina Lindström. "Genetic diversity and phylogeny of rhizobia isolated from agroforestry legume species in southern Ethiopia." International Journal of Systematic and Evolutionary Microbiology 55, no. 4 (2005): 1439–52. http://dx.doi.org/10.1099/ijs.0.63534-0.

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The genetic diversity within 195 rhizobial strains isolated from root nodules of 18 agroforestry species (15 woody and three herbaceous legumes) growing in diverse ecoclimatic zones in southern Ethiopia was investigated by using PCR–RFLP of the ribosomal operon [16S rRNA gene, 23S rRNA gene and the internal transcribed spacer (ITS) region between the 16S rRNA and 23S rRNA genes] and 16S rRNA gene partial sequence (800 and 1350 bp) analyses. All of the isolates and the 28 reference strains could be differentiated by using these methods. The size of the ITS varied among test strains (500–1300 bp

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7

Gaysina, Lira A., Jeffrey R. Johansen, Aniket Saraf, Rezeda Z. Allaguvatova, Sagarika Pal, and Prashant Singh. "Roholtiella volcanica sp. nov., a New Species of Cyanobacteria from Kamchatkan Volcanic Soils." Diversity 14, no. 8 (2022): 620. http://dx.doi.org/10.3390/d14080620.

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During a study of biodiversity of cyanobacteria in Gorely volcano soils (Kamchatka Peninsula), a strain of heterocytous, a false branching cyanobacterium with gradually tapered filaments, was isolated. Prominent features of the strain were purplish-grey trichomes and firm, distinct multilayered sheaths. Based on the results obtained from the morphological, ecological, and phylogenetic analysis using the 16S rRNA and 16S–23S ITS region, 16S–23S ITS secondary structure analysis, comparison of flanking regions of BoxB and V3 helices, and the p-distance between the 16S–23S ITS region, we describe

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Molinares-Pacheco, Cristian, Julieta Mariana Muñoz-Morales, Adriana Carbajal-Armenta, Ana Laura Hernández-Tenorio, Alejandro Cueto-Becerra, and Jesús Muñoz-Rojas. "Métodos de identificación molecular para Gluconacetobacter diazotrophicus." Alianzas y Tendencias BUAP 6, no. 21 (2021): 28–44. https://doi.org/10.5281/zenodo.5104709.

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<strong>RESUMEN</strong> Los métodos para la identificación de microorganismos se valen de sus características morfológicas, fisiológicas, proteómicas y genómicas. En la identificación tradicional se emplean técnicas dependientes de cultivo que pueden presentar inconvenientes según el tipo de microorganismo a identificar, su capacidad de crecimiento, su parecido con algún otro microbio y el tiempo total para su identificación. El uso de PGPB en la agricultura ha repercutido positivamente reduciendo costos de pr

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9

Morandi, Stefano, Paola Cremonesi, Milena Povolo, and Milena Brasca. "Enterococcus lactis sp. nov., from Italian raw milk cheeses." International Journal of Systematic and Evolutionary Microbiology 62, Pt_8 (2012): 1992–96. http://dx.doi.org/10.1099/ijs.0.030825-0.

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Ten atypical Enterococcus strains were isolated from Italian raw milk cheeses. The 16S rRNA gene, phenylalanyl-tRNA synthase alpha subunit (pheS), RNA polymerase alpha subunit (rpoA) and the 16S–23S rRNA intergenic transcribed spacer (ITS) sequences, randomly amplified polymorphic DNA (RAPD) PCR and the phenotypic properties revealed that the isolates represent a novel enterococcal species. On the basis of 16S rRNA gene sequence analysis, the isolates were closely related to Enterococcus hirae ATCC 8043T, Enterococcus durans CECT 411T and Enterococcus faecium ATCC 19434T, with 98.8, 98.9 and 9

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Asil, A., No author No author, S. Sanousi, et al. "Molecular identification of nontuberculous mycobacteria isolated from pyogenic bovine tissues in South Darfur State and Alsabalouga slaughterhouse at Omdurman area, Sudan." Open Veterinary Journal 5, no. 2 (2014): 16. http://dx.doi.org/10.5455/ovj.2014.v4.i1.p16.

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This study identified nontuberculous mycobacteria (NTM) recovered from bovine pyogenic affections obtained at necropsy using the molecular target 16S-23S rDNA internal transcribed spacer region. Postmortem inspection of cattle was conducted at South Darfur State abattoirs and Alsabalouga Slaughterhouse at Omdurman area during 2007-2009. Specimens were examined for the presence of acid fast bacteria (AFB) using microscopic and standard culturing techniques. AFB were identified phenotypically and confirmed by 16S-23S rDNA ITS. Fifty nine NTM were recovered and confirmed as acid fast filaments ou

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11

SHALYGIN, SERGEI, REGINA R. SHALYGINA, VERA V. REDKINA, CORY B. GARGAS, and JEFFREY R. JOHANSEN. "Description of Stenomitos kolaenensis and S. hiloensis sp. nov. (Leptolyngbyaceae, Cyanobacteria) with an emendation of the genus." Phytotaxa 440, no. 2 (2020): 108–28. http://dx.doi.org/10.11646/phytotaxa.440.2.3.

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Stenomitos is a recently established cyanobacterial genus, some species of which appear to be cryptic. Here we describe two new species in this genus, Stenomitos kolaensis sp. nov. isolated from the Al-Fe humic podzols of a boreal forest near Nikel town, Murmansk region, Russia and S. hiloensis sp. nov. isolated from a basaltic seep wall on Akeola Road, Hilo, Hawaii, USA. Phylogenetic analyses were conducted on the 16S and 16S-23S ITS rRNA gene regions using Bayesian Inference, and Maximum Likelihood. Phylogenetic analysis of the 16S-23S ITS rRNA region resulted in both S. kolaensis and S. hil

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12

Canino, Alexis, Clarisse Lemonnier, Benjamin Alric, et al. "Which barcode to decipher freshwater microalgal assemblages? Tests on mock communities." International Journal of Limnology 59 (2023): 8. http://dx.doi.org/10.1051/limn/2023008.

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DNA metabarcoding can be a promising alternative to microscopy for analysing phytoplankton, a key ecological indicator for freshwater ecosystems. The aim of this study was to evaluate the performance of different barcodes and associated primer pairs to assess microalgal diversity with DNA metabarcoding using a single barcode targeting all microalgae. We investigated barcodes in 16S and 23S rRNA genes, encoding for prokaryotic ribosomal sub-units, that are present in Cyanobacteria as well as in chloroplasts. In silico PCR tests were carried out on eight 16S and five 23S primer pairs using the P

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13

Lee, Nam-Ju, Do-Hyun Kim, Jee-Hwan Kim, An Suk Lim, and Ok-Min Lee. "Trichotorquatus salinus sp. nov. (Oculatellaceae, Cyanobacteria) from a Saltern of Gomso, Republic of Korea." Diversity 15, no. 1 (2023): 65. http://dx.doi.org/10.3390/d15010065.

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Six strains of subaerial cyanobacteria were isolated from a Gomso saltern in the Republic of Korea, all of which were studied using morphological and molecular traits. Trichotorquatus salinus sp. nov. was studied using a light microscope (LM), transmission electron microscope (TEM), 16S rRNA, 16S–23S ITS region, and ecological data. T. salinus is a thin and simple filament with a false branch and a firm collar sheath. The phylogenetic analyses of 16S rRNA revealed that Trichotorquatus formed a monophyletic lineage and the strains of T. salinus formed a distinct clade among the species in the g

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14

Ogarkov, O. B., S. N. Zhdanova, E. A. Orlova, et al. "16S-ITS-23S rRNA operon segment sequencing provides necessary and sufficient conditions for bacterial species-specific identification." Russian Journal of Infection and Immunity 12, no. 5 (2022): 976–80. http://dx.doi.org/10.15789/2220-7619-ros-1871.

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Introduction. Sequencing of the 16S rRNA gene is the predominant method for assessing microbial communities and strain molecular identification. The short reads (2nd generation sequencing)-based technology does not allow analysis beyond the 16S rRNA gene. The taxonomic verification level of samples usually remains at the genus or even family level. Currently, there have been proposed the latest versions of long-read technologies (Oxford Nanopore MinION, PacBio) for amplicon sequencing of near-complete ribosomal operon, including genes 16S, 23S, 5S, and internal transcribed spacer (ITS). At the

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Hinrikson, Hans Peter, Fabrizio Dutly, and Martin Altwegg. "Homogeneity of 16S-23S Ribosomal Intergenic Spacer Regions of Tropheryma whippelii in Swiss Patients with Whipple’s Disease." Journal of Clinical Microbiology 37, no. 1 (1999): 152–56. http://dx.doi.org/10.1128/jcm.37.1.152-156.1999.

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The current genetic strategies used to identify Tropheryma whippelii, the putative agent of Whipple’s disease, are based on PCR-mediated amplification of a part of its 16S rRNA gene (16S rDNA). Because there is very little intraspecies variation in these molecules, they are not suitable as targets for epidemiologic investigations. However, the intergenic spacer region between the 16S and 23S rDNAs is usually much more variable and has repeatedly been used for epidemiologic purposes. We have therefore amplified the spacer region of T. whippelii directly from clinical specimens from nine indepen

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Kommanee, Jintana, Somboon Tanasupawat, Pattaraporn Yukphan, et al. "Gluconobacter nephelii sp. nov., an acetic acid bacterium in the class Alphaproteobacteria." International Journal of Systematic and Evolutionary Microbiology 61, no. 9 (2011): 2117–22. http://dx.doi.org/10.1099/ijs.0.026385-0.

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Three strains, RBY-1T, PHD-1 and PHD-2, were isolated from fruits in Thailand. The strains were Gram-negative, aerobic rods with polar flagella, produced acetic acid from ethanol and did not oxidize acetate or lactate. In phylogenetic trees based on 16S rRNA gene sequences and 16S–23S rRNA gene internal transcribed spacer (ITS) sequences, the strains formed a cluster separate from the type strains of recognized species of the genus Gluconobacter. The calculated 16S rRNA gene sequence and 16S–23S rRNA gene ITS sequence similarities were respectively 97.7–99.7 % and 77.3–98.1 %. DNA G+C contents

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Christodoulou, Maria, Matti Wahlsten, and Kaarina Sivonen. "Morphological and Molecular Evaluation of Pseudanabaena epilithica sp. nov. and P. suomiensis sp. nov. (Pseudanabaenaceae, Cyanobacteria) from Finland." Diversity 15, no. 8 (2023): 909. http://dx.doi.org/10.3390/d15080909.

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Cyanobacteria represent a cosmopolitan group of oxyphototrophic bacteria. Although free-living cyanobacteria thriving in aquatic habitats as well as cyanobacteria in terrestrial symbiotic systems (lichens) have been extensively studied in Finland, the diversity of terrestrial rock-inhabiting cyanobacteria is overlooked. As part of an ongoing effort to study terrestrial epilithic cyanobacteria from Finland, we isolated two Pseudanabaena-like cyanobacterial strains and characterized them using a polyphasic approach. Although the two strains were firmly placed within the Pseudanabaena clade in th

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Hinrikson, Hans Peter, Fabrizio Dutly, and Martin Altwegg. "Evaluation of a Specific Nested PCR Targeting Domain III of the 23S rRNA Gene of “Tropheryma whippelii” and Proposal of a Classification System for Its Molecular Variants." Journal of Clinical Microbiology 38, no. 2 (2000): 595–99. http://dx.doi.org/10.1128/jcm.38.2.595-599.2000.

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“Tropheryma whippelii”-associated infections are usually confirmed histopathologically by using light microscopy. PCR assays targeting the 16S rRNA gene (16S rDNA) of “T. whippelii” are increasingly being applied for this purpose. Compared to microscopic analysis, PCR seems to be more sensitive, as indicated by the fact that several cases of Whipple's disease with negative histopathological findings but positive PCR results have been reported. Considering the lack of pathognomonic clinical features for this disease and the fact that “T. whippelii” DNA has repeatedly been found in patients with

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19

Pérez, Néstor-Octavio, Hiram Olivera, Luis Vásquez, and María Valdés. "Genetic characterization of MexicanFrankiastrains nodulatingCasuarina equisetifolia." Canadian Journal of Botany 77, no. 9 (1999): 1214–19. http://dx.doi.org/10.1139/b99-075.

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There is a need to increase the utilization of the Casuarina equisetifolia J.R. Forst. & G. Forst. - Frankia symbiosis and be sure of its effectiveness in Mexico. This may be facilitated by selecting appropriate bacterial strains for which ecological characteristics are known. We tested various typing methods to develop genetic markers for ecological studies. DNA, extracted from clonal cultures of native strains or from reference cultures of Casuarina-infective Frankia strains, was used as the template in polymerase chain reactions (PCR) with primers targeting different DNA regions. nifH a

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Wu, Xueling, Hong Duan, Hongwei Fan, Zhenzhen Zhang, and Lili Liu. "Comparative Study of PCR-Based Approaches for the Genetic Characterization of Three Strains of Acidithiobacillus caldus Isolated from Different Sites in China." Polish Journal of Microbiology 62, no. 4 (2013): 351–58. http://dx.doi.org/10.33073/pjm-2013-048.

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Comparative study of the genetic characteristics among three Acidithiobacillus caldus strains isolated from different typical environments in China was performed using a combination of molecular methods, namely sequencing analysis of PCR-amplified 16S rRNA genes and 16S-23S rRNA gene intergenic spacers (ITS), repetitive element PCR (rep-PCR), arbitrarily primed PCR (AP-PCR) fingerprinting and random amplified polymorphic DNA (RAPD). Both of the 16S rRNA gene and 16S-23S rRNA gene intergenic spacers sequences of the three strains exhibited small variations, with 99.9-100%, 99.7-100% identity re

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TEKDAL, DİLEK, İLKNUR AKÇA, ASLI KÜÇÜKRECEP, SELİM ÇETİNER, and RÜŞTÜ HATİPOĞLU. "Characterization of root-associated bacterial species of Leklek variety of common bean (Phaseolus sp.)." Romanian Biotechnological Letters 26, no. 5 (2021): 3008–13. http://dx.doi.org/10.25083/rbl/26.5/3008.3013.

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The common bean is a valuable food source in the human diet. Leklek is a local variety of common bean (Phaseolus sp.) widely grown in Mersin's Gülnar district, but little is known about this variety. In the present study, bacterial species from root nodules of this common bean variety were identified by PCR-amplified 16S ribosomal RNA (rRNA) gene and 16S-23S ribosomal RNA (rRNA) Internal Transcribed Spacer (ITS) region and sequencing. The partial 16S rRNA gene and 16S-23S rRNA ITS region sequences were submitted to the NCBI database (accession numbers MT967369, MT968518, respectively). Amplifi

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Zaporojets, Dmitry, Sarah French, and Catherine L. Squires. "Products Transcribed from Rearranged rrn Genes of Escherichia coli Can Assemble To Form Functional Ribosomes." Journal of Bacteriology 185, no. 23 (2003): 6921–27. http://dx.doi.org/10.1128/jb.185.23.6921-6927.2003.

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ABSTRACT To examine the flexibility of rRNA operons with respect to fundamental organization, transcription, processing, and assembly of ribosomes, operon variations were introduced by a plasmid into an Escherichia coli strain that has deletions of all chromosomal copies of rRNA genes. In the reconstructed operons, a Salmonella intervening sequence (IVS) from 23S helix 45 was introduced into the E. coli 23S gene at the same position. Three different constructs of the E. coli 16S gene were then placed wholly within the IVS sequence, and the 16S gene was deleted from its normal position. The res

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Papaleo, Stella, Riccardo Nodari, Lodovico Sterzi, et al. "Comparison of qPCR protocols for quantification of “Candidatus Saccharibacteria”, belonging to the Candidate Phyla Radiation, suggests that 23S rRNA is a better target than 16S rRNA." PLOS ONE 19, no. 12 (2024): e0310675. https://doi.org/10.1371/journal.pone.0310675.

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Background Candidate Phyla Radiation (CPR) is a large monophyletic group encompassing about 25% of bacterial diversity. Among CPR, “Candidatus Saccharibacteria” is one of the most clinically relevant phyla. Indeed, it is enriched in the oral microbiota of subjects suffering from immune-mediated disorders and it has been found to have immunomodulatory activities. For these reasons, it is crucial to have reliable methods to detect and quantify this bacterial lineage in human samples, including saliva. Methods and results Four qPCR protocols for quantifying “Ca. Saccharibacteria” (one targeting t

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Lee, Nam-Ju, Do-Hyun Kim, Eun-Chan Yang, and Ok-Min Lee. "Katagnymene terrestris sp. nov. (Gomontiellaceae, Cyanobacteria) Isolated from the Soil between Rocks in the Republic of Korea." Diversity 15, no. 8 (2023): 926. http://dx.doi.org/10.3390/d15080926.

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Soil cyanobacterium, FBCC-A195 were isolated from the soil underneath the Jangnak Bridge, Republic of Korea. The FBCC-A195 was studied using light microscopy (LM), transmission electron microscopy (TEM), 16S rRNA, 16S–23S ITS, and ecological data. FBCC-A195 showed the circular cross-section of the trichome, broad mucilaginous envelopes, a swirl-like pattern of thylakoids inside the cell, and the lowest length/width ratio within the genus. In the 16S rRNA phylogeny, FBCC-A195 showed a sister relationship of Hormoscilla and belonged to the family Gomontiellaceae. The p-distance of FBCC-A195 rang

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Tokajian, Sima, Dominik Haddad, Rana Andraos, Fuad Hashwa, and George Araj. "Toxins and Antibiotic Resistance in Staphylococcus aureus Isolated from a Major Hospital in Lebanon." ISRN Microbiology 2011 (September 18, 2011): 1–9. http://dx.doi.org/10.5402/2011/812049.

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Molecular characterization of Staphylococcus aureus is of both clinical and infection control importance. Virulence determinants using PCR and multiple drug resistance profiles were studied in 130 S. aureus isolates. PCR-RFLP analysis of the 16S–23S DNA spacer region was done to investigate the level of 16S–23S ITS (internal transcribed spacer) polymorphism. Methicillin-resistant S. aureus (MRSA), which represented 72% of the studied isolates, showed multiple drug resistance with 18% being resistant to 10–18 of the drugs used compared to a maximum resistance to 9 antibiotics with the methicill

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Noon, Kathleen R., Eveline Bruenger, and James A. McCloskey. "Posttranscriptional Modifications in 16S and 23S rRNAs of the Archaeal Hyperthermophile Sulfolobus solfataricus." Journal of Bacteriology 180, no. 11 (1998): 2883–88. http://dx.doi.org/10.1128/jb.180.11.2883-2888.1998.

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ABSTRACT Posttranscriptional modification is common to many types of RNA, but the majority of information concerning structure and function of modification is derived principally from tRNA. By contrast, less is known about modification in rRNA in spite of accumulating evidence for its direct participation in translation. The structural identities and approximate molar levels of modifications have been established for 16S and 23S rRNAs of the archaeal hyperthermophile Sulfolobus solfactaricus by using combined chromatography-mass spectrometry-based methods. Modification levels are exceptionally

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CHANTER, N., N. COLLIN, N. HOLMES, M. BINNS, and J. MUMFORD. "Characterization of the Lancefield group C streptococcus 16S-23S RNA gene intergenic spacer and its potential for identification and sub-specific typing." Epidemiology and Infection 118, no. 2 (1997): 125–35. http://dx.doi.org/10.1017/s0950268896007285.

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The 16S-23S RNA gene intergenic spacers of isolates of Streptococcus equi (n=5), S. zooepidemicus (n=5), S. equisimilis (n=3) and S. dysgalactiae (n=2) were sequenced and compared. There were distinct regions within the spacer, arranged in the order 1–9 for all S. equi and one S. zooepidemicus isolate and 1,2 and 4–9 for the remaining isolates. Region 4 was identical to the tRNAala gene found in the 16S-23S intergenic spacers of other streptococci. Regions 1, 5, 6 and 7 had distinct variations, each conserved in different isolates. However, amongst the intergenic spacers there were different c

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Banerjee, Sreemanti, Akanksha Singh, and Ruma Pal. "Taxonomic interpretation of non-heterocystous Cyanobacteria (Oscillatoriales) from eastern India with particular emphasis on Lyngbya Plectonema complex." Bionatura Journal 1 1, no. 1 (2024): 1–22. http://dx.doi.org/10.21931/bj/2024.01.01.66.

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Filamentous non-heterocystous cyanobacterial taxa from 8 genera were collected from different ecological niches like high altitudes, plains and estuaries of eastern India. The systematic accounts of 23 taxa were investigated with a polyphasic approach considering morpho taxonomy, cultural behavior, and molecular phylogenetic analysis with 16S and 16S-23S Internal Transcribed Spacer (ITS) regions as molecular markers. The collected taxa were from the families Oscillatoriaceae, Phormidiaceae and Pseudanabaenaceae with 8 representative genera viz. Lyngbya, Plectonema, Oscillatoria, Limnothrix, Le

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Banerjee, Sreemanti, Akanksha Singh, and Ruma Pal. "Taxonomic interpretation of non-heterocystous Cyanobacteria (Oscillatoriales) from eastern India with particular emphasis on Lyngbya Plectonema complex." Bionatura 9, no. 1 (2024): 1–22. http://dx.doi.org/10.21931/rb/2024.09.01.66.

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Filamentous non-heterocystous cyanobacterial taxa from 8 genera were collected from different ecological niches like high altitudes, plains and estuaries of eastern India. The systematic accounts of 23 taxa were investigated with a polyphasic approach considering morpho taxonomy, cultural behavior, and molecular phylogenetic analysis with 16S and 16S-23S Internal Transcribed Spacer (ITS) regions as molecular markers. The collected taxa were from the families Oscillatoriaceae, Phormidiaceae and Pseudanabaenaceae with 8 representative genera viz. Lyngbya, Plectonema, Oscillatoria, Limnothrix, Le

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Saito, Hajime, Tomotada Iwamoto, Kiyofumi Ohkusu, et al. "Mycobacterium shinjukuense sp. nov., a slowly growing, non-chromogenic species isolated from human clinical specimens." International Journal of Systematic and Evolutionary Microbiology 61, no. 8 (2011): 1927–32. http://dx.doi.org/10.1099/ijs.0.025478-0.

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Seven isolates of a slowly growing, non-chromogenic Mycobacterium species were obtained from sputum and bronchial lavage fluid samples from elderly patients in different regions of Japan. These isolates were distinguished from related non-tuberculous species by colony morphology, positive results for Tween hydrolysis, catalase at 68 °C, nitrate reductase and pyrazinamidase and negative results for semi-quantitative catalase, urease and arylsulfatase. The mycolic acid pattern obtained by HPLC revealed a single cluster of late-eluting mycolic acids similar to but different from those of Mycobact

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Kang, Hye-Eun, Tae-Ho Yoon, Sunyoung Yoon, et al. "Genomic analysis of red-tide water bloomed with Heterosigma akashiwo in Geoje." PeerJ 6 (May 29, 2018): e4854. http://dx.doi.org/10.7717/peerj.4854.

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Microbial community structures of harmful algal bloom (HAB) caused by Heterosigma akashiwo in Geoje were analyzed using the MiSeq platform. To analyze phytoplankton communities without cross-reactivity with predominant bacteria, a new phytoplankton-specific 23S universal primer set was designed by modifying two previously used ones. The new universal primer set turned out to be a useful tool for the analysis of the phytoplankton community; it showed a high specificity for phytoplankton without cross-reactivity to bacterial sequences as well as the wide taxon coverage presenting from prokaryoti

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Mikhailyuk, T. I., O. M. Vinogradova, A. B. Gromakova, K. Glaser, and U. Karsten. "A polyphasic approach leading to the discovery of new taxa of terrestrial cyanobacteria for the flora of Ukraine." Algologia 33, no. 3 (2023): 185–212. http://dx.doi.org/10.15407/alg33.03.185.

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Several morphotypes of filamentous cyanobacteria were found in the terrestrial habitats of the Kharkiv Region (biological soil crusts) and in the vicinity of Kyiv (old concrete wall in the forest). Morphological and molecular characterization of four original strains revealed that they belong to recently described genera Wilmottia Strunecký, Elster et Komárek, Pycnacronema M.D. Martins et Branco, Myxacorys Pietrasiak et J.R. Johansen and Tildeniella Mai, J.R. Johansen et Pietrasiak. All of them are new to the flora of Ukraine. Besides the analysis of p-distances, the nucleotide sequence of the

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LOUREIRO DE ARAÚJO, VALTER, MÁRCIO FERREIRA DOS SANTOS, ALESSANDRA SELBACH SCHNADELBACH, JOSÉ MARCOS DE CASTRO NUNES, MARLI DE FÁTIMA FIORE, and TAIARA AGUIAR CAIRES. "Expanding the occurrence of Euryhalinema (Leptolyngbyaceae, Cyanobacteria) to the Atlantic Ocean and description of E. epiphyticum sp. nov. on the Brazilian coast." Phytotaxa 532, no. 3 (2022): 246–58. http://dx.doi.org/10.11646/phytotaxa.532.3.3.

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Two Leptolyngbya-like cyanobacterial strains were isolated from two marine benthic environments on the Brazilian coast. These strains were cultured and characterized based on their morphology, molecular, and ultrastructural data. The two taxa were identified mainly by 16S rRNA gene phylogeny and 16S-23S ITS secondary structures since their morphology is similar to members of Leptolyngbya senso lato. The phylogenetic analysis indicated that our strains belong to Euryhalinema genus (Leptolyngbyaceae), with one strain close to type species E. mangrovii AP9F (MK402979), and the other described as

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Saraf, Aniket, Himanshu G. Dawda, Archana Suradkar, Vaibhav Agre, and Prashant Singh. "Fortiea necridiiformans sp. nov., a soil-dwelling cyanobacterium from Pachmarhi Biosphere Reserve, India." International Journal of Systematic and Evolutionary Microbiology 70, no. 8 (2020): 4714–24. http://dx.doi.org/10.1099/ijsem.0.004337.

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Cyanobacterial strain PS4G was isolated from seepage soil sampled at Pachmarhi, Madhya Pradesh, India, and was characterized using a polyphasic approach. The results of morphological analysis showed that strain PS4G had unique morphological characteristics which were not observed in the other described species of the genus Fortiea. In the 16S rRNA gene phylogenetic analysis inferred using Bayesian inference, maximum-likelihood and neighbour-joining methods, strain PS4G clustered within the clade consisting of the members of the genus Fortiea. Furthermore, in the secondary structure analysis us

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Duranti, Sabrina, Francesca Turroni, Christian Milani, et al. "Exploration of the Genomic Diversity and Core Genome of the Bifidobacterium adolescentis Phylogenetic Group by Means of a Polyphasic Approach." Applied and Environmental Microbiology 79, no. 1 (2012): 336–46. http://dx.doi.org/10.1128/aem.02467-12.

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ABSTRACT In the current work, we describe genome diversity and core genome sequences among representatives of three bifidobacterial species, i.e., Bifidobacterium adolescentis , Bifidobacterium catenulatum , and Bifidobacterium pseudocatenulatum , by employing a polyphasic approach involving analysis of 16S rRNA gene and 16S-23S internal transcribed spacer (ITS) sequences, pulsed-field gel electrophoresis (PFGE), and comparative genomic hybridization (CGH) assays.

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Kumar, Naresh, Aniket Saraf, Sagarika Pal, and Prashant Singh. "Description of Cylindrospermum solincola sp. nov. from Jammu and Kashmir, India and Further Insights into the Ecological Distribution and Morphological Attributes of Cylindrospermum badium." Diversity 15, no. 5 (2023): 592. http://dx.doi.org/10.3390/d15050592.

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Two cyanobacterial strains KUT1-PS and 18C-PS were collected from the soil surface and vernal pool, respectively, from the Basantgarh village, Udhampur district of the union territory of Jammu and Kashmir, India and characterized by a polyphasic approach. The morphological characterization indicated that both the strains showed typical Cylindrospermum-like morphology and probably belonged to the genus Cylindrospermum. Further, phylogenetic interpretations at the genus level were made using the 16S rRNA gene while the 16S-23S ITS region phylogenetic analysis and secondary structure analysis wer

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Sayler, Ronald J., Richard D. Cartwright, and Yinong Yang. "Genetic Characterization and Real-Time PCR Detection of Burkholderia glumae, a Newly Emerging Bacterial Pathogen of Rice in the United States." Plant Disease 90, no. 5 (2006): 603–10. http://dx.doi.org/10.1094/pd-90-0603.

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Panicle blight of rice (Oryza sativa), caused by the bacterium Burkholderia glumae, is one of the most important new diseases in rice production areas of the southern United States. In this study, pathogenic strains were isolated from diseased panicles in Arkansas rice fields and examined using the Biolog GN microplate system, whole cell fatty acid methyl ester analysis (FAME), rep-polymerase chain reaction (PCR) genomic DNA fingerprinting, and 16S–23S ribosomal DNA (rDNA) intergenic transcribed spacer (ITS) sequence analysis. The B. glumae isolates from Arkansas can be divided into two major

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Yakoubou, Sabarimatou, Dong Xu, and Jean-Charles Côté. "Phylogeny of the Order Bacillales inferred from 3’ 16S rDNA and 5’ 16S-23S ITS nucleotide sequences." Natural Science 02, no. 09 (2010): 990–97. http://dx.doi.org/10.4236/ns.2010.29121.

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Nuryadi, Handung, Shimpei Sumimoto, and Shoichiro Suda. "Discovery of novel Nodosilinea species (Cyanobacteria, Nodosilineales) isolated from terrestrial habitat in Ryukyus campus, Okinawa, Japan." Algae 39, no. 2 (2024): 59–74. http://dx.doi.org/10.4490/algae.2024.39.6.5.

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Terrestrial cyanobacteria are extremely diverse. In urban areas, they can be found as black stains on the surface of building walls, stone monuments, or man-made structures. Many of the terrestrial cyanobacteria are still understudied. To expand knowledge of terrestrial cyanobacterial diversity, a polyphasic characterization was performed to identify 12 strains isolated from campus of University of the Ryukyus, Okinawa, Japan. Multigene phylogenetic analyses based on 16S rRNA gene and 16S-23S rRNA internal transcribed spacer (ITS) region showed that the isolated strains formed two independent

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Morais, João, Pedro Cruz, Guilherme Scotta Hentschke, et al. "Diversity of Cyanobacterial Genera Present in Cabo Verde Marine Environments and the Description of Gibliniella gelatinosa sp. nov." Plants 14, no. 3 (2025): 299. https://doi.org/10.3390/plants14030299.

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The aim of this study was to document the biodiversity of cyanobacteria genera isolated from intertidal and subtidal zones in Cabo Verde. The identification of the strains was conducted using a polyphasic study, comprising 16S rRNA gene maximum likelihood and Bayesian inference phylogeny, 16S rRNA identity (p-distance), 16S–23S ITS secondary structure, morphological, and habitat analyses. A total of 51 strains were isolated by micromanipulation and by streaking biomass onto Petri dishes with a solid medium. Seventeen strains were identified as belonging to the Salileptolyngbya genus and five t

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Mok, Simone, Thomas R. Rogers, and Margaret Fitzgibbon. "Evaluation of GenoType NTM-DR Assay for Identification of Mycobacterium chimaera." Journal of Clinical Microbiology 55, no. 6 (2017): 1821–26. http://dx.doi.org/10.1128/jcm.00009-17.

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ABSTRACTIdentification of species within theMycobacterium aviumcomplex (MAC) is difficult, and most current diagnostic laboratory tests cannot distinguish between species included in the complex. Differentiation of species within the MAC is important, asMycobacterium chimaerahas recently emerged as a major cause of invasive cardiovascular infections following open heart surgery. A new commercial diagnostic assay, GenoType NTM-DR ver. 1.0, is intended to differentiate between three species within the MAC, namely,Mycobacterium avium,Mycobacterium intracellulare, andMycobacterium chimaera. In thi

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Maldonado Duque, Edgar Abraham, Angélica María Vigíl-Correa, Lesly Gianela Zurita Chinguel, et al. "Patogenicidad de Pectobacterium chrysanthemi en Solanum tuberosum y PCR del espaciador transcrito interno (ITS) del ADNr 16S/23S en aislados de Musa sp. del norte del Perú." Manglar 21, no. 3 (2024): 299–304. http://dx.doi.org/10.57188/manglar.2024.032.

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Pectobacterium chrysanthemiis the causative agent of soft rot that commonly affects organic banana crops around the planet. Current phytosanitary control policies are based on the symptoms caused by the disease. However, since there are other species that cause similar symptoms, pathogenicity tests are used to which biochemical tests must be added to identify the bacteria, dispensing with molecular tests that, in contrast, would allow obtaining more specific results and in less time. time. This article presents an alternative methodology for the rapid and specific diagnosis of soft rot caused

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Casanova, A. "tRNA genes were found in Piscirickettsia salmonis 16S–23S rDNA spacer region (ITS)." FEMS Microbiology Letters 197, no. 1 (2001): 19–22. http://dx.doi.org/10.1016/s0378-1097(01)00029-5.

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Prieto-Calvo, M. A., M. K. Omer, O. Alvseike, M. López, A. Alvarez-Ordóñez, and M. Prieto. "Comparison of methods for the identification and sub-typing of O157 and non-O157 Escherichia coli serotypes and their integration into a polyphasic taxonomy approach." Irish Journal of Agricultural and Food Research 55, no. 2 (2016): 81–90. http://dx.doi.org/10.1515/ijafr-2016-0008.

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AbstractPhenotypic, chemotaxonomic and genotypic data from 12 strains ofEscherichia coli werecollected, including carbon source utilisation profiles, ribotypes, sequencing data of the 16S–23S rRNA internal transcribed region (ITS) and Fourier transform-infrared (FT-IR) spectroscopic profiles. The objectives were to compare several identification systems forE. coliand to develop and test a polyphasic taxonomic approach using the four methodologies combined for the sub-typing of O157 and non-O157E. coli. The nucleotide sequences of the 16S–23S rRNA ITS regions were amplified by polymerase chain

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Mikhailyuk, T. I., O. M. Vinogradova, A. B. Gromakova, K. Glaser, and U. Karsten. "A Polyphasic Approach Leading to the Discovery of New Taxa of Terrestrial Cyanobacteria for the Flora of Ukraine." International Journal on Algae 25, no. 4 (2023): 301–22. http://dx.doi.org/10.1615/interjalgae.v25.i4.10.

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Interesting morphotypes of filamentous cyanobacteria were found in the terrestrial habitats of the Kharkiv region (biological soil crusts) and in the vicinity of Kyiv (old concrete wall in the forest). Morphological and molecular characterization of four original strains revealed that they belong to the recently described genera <i>Wilmottia</i> Strunecky, Elster et Komarek, <i>Pycnacronema</i> M.D. Martins et Branco, <i>Myxacorys</i> Pietrasiak et J.R. Johansen and <i>Tildeniella </i>Mai, J.R. Johansen et Pietrasiak. All are new to the flora of

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DAVYDOV, DENIS, SERGEI SHALYGIN, and ANNA VILNET. "New cyanobacterium Nodosilinea svalbardensis sp. nov. (Prochlorotrichaceae, Synechococcales) isolated from alluvium in Mimer river valley of the Svalbard archipelago." Phytotaxa 442, no. 2 (2020): 61–79. http://dx.doi.org/10.11646/phytotaxa.442.2.2.

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A cyanobacterial strain isolated from the Svalbard archipelago was studied using morphological, ecological, and molecular approaches. The morphology of natural populations fit well the description of the Leptolyngbya s.l. however, in culture, they formed specific nodules that prevented affiliation to this genus. Further phylogenetic analyses including the 16S rRNA gene and 16S-23S ITS region revealed that the strain corresponds to the genus Nodosilinea. Based on this total evidence approach, we provide here a description of the new taxon Nodosilinea svalbardensis sp. nov.

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Sandes, S. H. C., L. B. Alvin, B. C. Silva, et al. "Lactobacillus species identification by amplified ribosomal 16S-23S rRNA restriction fragment length polymorphism analysis." Beneficial Microbes 5, no. 4 (2014): 471–81. http://dx.doi.org/10.3920/bm2013.0092.

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Lactic acid bacteria strains are commonly used for animal and human consumption due to their probiotic properties. One of the major genera used is Lactobacillus, a highly diverse genus comprised of several closely related species. The selection of new strains for probiotic use, especially strains of Lactobacillus, is the focus of several research groups. Accurate identification to species level is fundamental for research on new strains, as well as for safety assessment and quality assurance. The 16S-23S internal transcribed spacer (ITS-1) is a deeply homologous region among prokaryotes that i

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Sciuto, Katia, and Isabella Moro. "Detection of the new cosmopolitan genus Thermoleptolyngbya (Cyanobacteria, Leptolyngbyaceae) using the 16S rRNA gene and 16S–23S ITS region." Molecular Phylogenetics and Evolution 105 (December 2016): 15–35. http://dx.doi.org/10.1016/j.ympev.2016.08.010.

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CAI, FANGFANG, YIMING YANG, QIANZHI WEN, and RENHUI LI. "Desmonostoc danxiaense sp. nov. (Nostocales, Cyanobacteria) from Danxia mountain in China based on polyphasic approach." Phytotaxa 367, no. 3 (2018): 233. http://dx.doi.org/10.11646/phytotaxa.367.3.3.

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The recently established genus Desmonostoc was characterized by forming macroscopic colonies with diffluent mucilaginous envelopes embedding long vegetative filaments and possessing long chains of akinetes. The establishment of this new genus was further supported by the clustering of the 16S rRNA gene, which have a distinctive phylogenetic placement outside of Nostoc. In this study, a new cyanobacterial species was isolated from a wet rocky wall in Danxia mountain, Guangdong province, southern China, and the novel strains of this new species were evaluated by combining morphological character

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Fisher, Madeline M., and Eric W. Triplett. "Automated Approach for Ribosomal Intergenic Spacer Analysis of Microbial Diversity and Its Application to Freshwater Bacterial Communities." Applied and Environmental Microbiology 65, no. 10 (1999): 4630–36. http://dx.doi.org/10.1128/aem.65.10.4630-4636.1999.

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ABSTRACT An automated method of ribosomal intergenic spacer analysis (ARISA) was developed for the rapid estimation of microbial diversity and community composition in freshwater environments. Following isolation of total community DNA, PCR amplification of the 16S-23S intergenic spacer region in the rRNA operon was performed with a fluorescence-labeled forward primer. ARISA-PCR fragments ranging in size from 400 to 1,200 bp were next discriminated and measured by using an automated electrophoresis system. Database information on the 16S-23S intergenic spacer was also examined, to understand t

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