The total sequence of 18S rRNA and the neighbours including 1950 pairs of nucleotide (N) was received by PCR and expressed orderly. The examinated sample was 1 of 8 adult worms collected from 12.5 years old male patient. The worm was determined morphologically as Fasciolopsis buski. The comparison showed that in this intestinal fluke worm there is an almost absolutely analogous coefficient concerning nitrogen components of 18S rRNA in only 2 differences on 1950 N (0.01%) with the gene sequence of 18S rRNA kept in the bank of genes. In Viet Nam, this is the first molecular determination realized on human
Fasciolidae ; Trematoda ; RNA, Ribosomal, 18S

The Polyporaceae is a chaotic mass of genera having poroid hymenophores in the Aphyllophorales. To classify the Polyporaceae into more natural groups, phylogenetic analyses were performed using nuclear small subunit ribosomal DNA sequences. Thirty-six species from the families of the Polyporaceae, the Hymenochaetaceae, the Ganodermataceae, the Corticiaceae, the Bondarzewiaceae, the Meruliaceae, the Steccherinaceae and the Lentinaceae were phylogenetically compared. By performing maximum parsimony analysis, seven phylogenetically meaningful groups were identified and discussed. The hyphal system, presence or absence of clamps, and the type of rot were found as important characters in defining the groups. Each group was phylogenetically significant enough to be a core member of each family when the Polyporaceae was split into smaller and more natural families.
DNA, Ribosomal ; Humans ; Phylogeny ; Polyporaceae* ; Polyporales ; RNA, Ribosomal*

The sequences of the internal transcribed spacer (ITS) and 5.8s ribosomal RNA gene (rDNA) from Fusarium solani and its four formae speciales belonging to section Martiella was determined to investigate intraspecific divergence of the ITS regions. The length of the 5.8S, a coding region, was equally 158 bp at all isolates, whereas the variable range of ITS region was shown at 147~152 bp (ITS1) and 148~174 bp (ITS2). According to the maximum-matching method, the matching percentage was 94~100 at 5.8s rDNA, 77~97 at ITS1, and 67~97 at ITS2, respectively. In dendrogram based on the alignment of the ITS sequence data, F.solani f. sp. piperis was distinguished from other isolates belonging to the same species and nucleotide identity was considerably low (41.5%).
Clinical Coding ; DNA, Ribosomal* ; Fusarium* ; RNA, Ribosomal, 5.8S

The nucleotide sequences of the internal transcribed spacer (ITS) regions of the ribosomal DNA including the 5.8S ribosomal RNA gene (rDNA) have been determined for 11 species in order to analyze their intrageneric relationships. The total length of these sequences ranged from 530 nucleotides for Trichoderma reesei KCTC 1286 to 553 nucleotide for Trichoderma koningii IAM 12534. Generally speaking, the length of ITS1 region was about 30 nucleotides longer than that of the ITS2 region. Also, the sequences of 5.8S rDNA were more conserved in length and variation than those of ITS regions. Although the variable ITS sequences were often ambiguously aligned, the conserved sites were also found. Thus, a neighbor-joining tree was constructed using the full sequence data of the ITS regions and the 5.8S rDNA. The Trichoderma genus used to be grouped on the basis of the morphological features and especially the shape of phialides needs to be reexamined. The phylogenetic tree displayed the presence of monophylogeny in the species of Trichoderma. Therefore, it was difficult to distinguish the intrageneric relationships in the Trichoderma genus.
Base Sequence* ; DNA, Ribosomal* ; Nucleotides ; Phylogeny ; RNA, Ribosomal, 5.8S ; Trichoderma*

Pathogenic gram-negatives that produce 16S ribosomal RNA methyltransferases (16S RMTases) have already been distributed all over the world. To investigate the predominance of aminoglycoside resistance associated with 16S RMTases in Korea, we collected a total of 222 amikacin resistant Gram-negative clinical isolates from patient specimens between 1999 and 2015 from three hospital banks across Korea. ArmA and rmtB were the predominant 16S RMTase genes responsible for aminoglycoside-resistant isolates circulating in Korean community settings although only one rmtA-producing isolate was detected in 2006.
Amikacin ; Humans ; Korea* ; Methyltransferases ; RNA, Ribosomal, 16S

We collected nearly 70 specimens of Amanita species during a diversity study of Korean mushrooms conducted in 2012. In this study, we primarily investigated 23 Amanita specimens belonging to sections Amanita and Vaginatae. Based on sequence data of the internal transcribed spacers and partial large subunit of ribosomal RNA and morphological characteristics, we identified the following 15 phylogenetic species: A. alboflavescens, A. ceciliae, A. farinosa, A. fulva, A. griseofolia, A. ibotengutake, A. melleiceps, A. orientifulva, A. pantherina, A. rubrovolvata, A. sinensis, A. subglobosa, A. vaginata, A. cf. vaginata f. alba, and an undescribed Amanita species. In this study, four of the identified Amanita species (A. griseofolia, A. ibotengutake, A. orientifulva, and A. sinensis) were reported for the first time in Korea.
Agaricales ; Amanita* ; Korea ; Phylogeny ; RNA, Ribosomal

Forensic microorganism is one of the hotspots of forensic science research. Due to its conservatism and specificity, the 16S rRNA gene is found to be an ideal marker for forensic identification. With the rapid development of high throughput sequencing technology, the research on microorganisms has been gradually applied to many fields such as environment and health care. In the field of forensic science, the results of forensic microbiology research, represented by 16S rRNA gene sequencing, are also gradually applied to forensic practice, such as biological samples identification, individual identification, postmortem interval estimation, and regional inference, which not only provide clues for the investigation of cases but also complement and assist traditional methods. This paper describes the research methods and related sequencing technologies of 16S rRNA gene sequencing, summarizes its research progress, and discusses the application value and potential of 16S rRNA in forensic science.
Forensic Sciences/trends* ; RNA, Ribosomal, 16S ; Sequence Analysis, RNA

Objective To describe the microbiological characteristics of ()CGMCC 12426 and determine and analyze its complete genome sequences.Methods strain CGMCC 12426 genomic DNA sequencing was performed on a single molecule real-time sequencing(SMRT)platform and the annotation was completed in the NCBI Prokaryotic Genomic Annotation Pipeline(pGAP).Results The complete genomic sequences of the released CGMCC 12426 consisted of a 4 138 265-bp circular chromosome and a 74 165-bp plasmid,which resulted in the prediction of 4581 genes including 4222 coding sequences,87 tRNAs,and 30 rRNAs(which included 5S rRNA,16S rRNA,and 23S rRNA).Conclusion The genome sequencing provided a basis for further investigations on the genetic background of and on the metabolic and regulatory mechanisms.
Bacillus subtilis ; genetics ; Genome, Bacterial ; Plasmids ; RNA, Ribosomal, 16S ; genetics ; RNA, Ribosomal, 23S ; genetics ; RNA, Ribosomal, 5S ; genetics ; Sequence Analysis, DNA

OBJECTIVETo type and group the Yersinia pestis strains isolated in China to clarify the geographical distribution of ribotypes of Yersinia pestis.

METHODSGenomic DNA of Yersinia pestis were digested with EcoR I, then hybridized with 16s-23s-5s rRNA gene probe.

RESULTSThese tested strains were divided into 3 ribotypes, the profiles obtained were relatively homogeneous, with most of them differed only by the presence or the absence of 1 - 2 restriction fragments. Ribotype A and B were the most common types, which distributed in a large area in China while ribotype C was the least, only limited to a small area. There was certain correlation between the ribotypes and the plague foci, usually only one ribotype was found in one plague foci.

CONCLUSIONThe ribotypes were stable in the plague foci. Correlation between the ribotypes of Yersinia pestis strains and their geographical origins was noticed. All 3 ribotypes had different origins, however ribotype A and ribotype C seemed to be closer related.

China ; DNA, Bacterial ; genetics ; Geography ; RNA, Ribosomal, 16S ; genetics ; RNA, Ribosomal, 23S ; genetics ; RNA, Ribosomal, 5S ; genetics ; Ribotyping ; Yersinia pestis ; classification ; genetics

The paper is aimed to identify SNP in Sarcandra glabra and Chloranthus spicatus, and authenticate S. glabra from Ch. spicatus and the mixture by using PCR amplification of specific alleles. SNPs in the ITS sequences of S. glabra and Ch. spicatus were found by ClustulX 2. 1 program and Bioedit software. Primers for authentic S. glabra and Ch. spicatus was designed according to the SNP site, and ITS sequence universal primers plus to the authentic primer to construct a multi-PCR reaction system, and then optimized the PCR reaction system. Five hundred and eighty band special for S. glabra and 470 bp band special for Ch. spicatus were found by using multi-PCR reaction. The multi-PCR reaction system could be applied to identify S. glabra and Ch. spicatus's leaves.
DNA, Plant ; analysis ; genetics ; DNA, Ribosomal ; genetics ; DNA, Ribosomal Spacer ; analysis ; genetics ; Magnoliopsida ; classification ; genetics ; Plant Leaves ; genetics ; Polymerase Chain Reaction ; Polymorphism, Single Nucleotide ; RNA, Ribosomal ; genetics ; RNA, Ribosomal, 18S ; genetics ; RNA, Ribosomal, 5.8S ; genetics ; Species Specificity