scholarly journals Comparative sequence analysis on the 18S rRNA gene of Aspergillus oryzae, A. sojae, A. flavus, A. parasiticus, A. niger, A. awamori and A. tamarii.

1996 ◽  
Vol 42 (2) ◽  
pp. 181-187 ◽  
Author(s):  
SAYUKI NIKKUNI ◽  
NAOHARU KOSAKA ◽  
CHISE SUZUKI ◽  
KATSUMI MORI
Keyword(s):  
Sequence Analysis ◽  
Aspergillus Oryzae ◽  
18S Rrna ◽  
Comparative Sequence Analysis ◽  
18S Rrna Gene ◽  
Rrna Gene ◽  
Comparative Sequence

scholarly journals Identification of Medically RelevantTrichosporon Species Based on Sequences of Internal Transcribed Spacer Regions and Construction of a Database forTrichosporon Identification

1999 ◽  
Vol 37 (6) ◽  
pp. 1985-1993 ◽  
Author(s):  
Takashi Sugita ◽  
Akemi Nishikawa ◽  
Reiko Ikeda ◽  
Takako Shinoda
Keyword(s):  
Sequence Analysis ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Trees ◽  
Comparative Sequence Analysis ◽  
Nucleotide Sequences ◽  
Its Sequences ◽  
Rrna Gene ◽  
Comparative Sequence ◽  
Internal Transcribed Spacer Regions ◽  
Molecular Phylogenetic

The nucleotide sequences of the internal transcribed spacer (ITS) 1 and 2 regions in the rRNA gene were determined by directly sequencing PCR-amplified fragments for all of the species (17 species and five varieties) in the genus Trichosporon. Comparative sequence analysis suggests that six medically relevant species, T. asahii, T. asteroides, T. cutaneum,T. inkin, T. mucoides, and T. ovoides, can be readily identified by their ITS sequences. In addition, the sequence analysis showed that conspecific strains have fewer than 1% nucleotide differences in the ITS 1 and 2 regions overall. Molecular phylogenetic trees are also presented.

scholarly journals Prevalence and distribution pattern of Cryptosporidium spp. among pre-weaned diarrheic calves in the Republic of Korea

PLoS ONE ◽  
2021 ◽  
Vol 16 (11) ◽  
pp. e0259824
Author(s):  
Dong-Hun Jang ◽  
Hyung-Chul Cho ◽  
Seung-Uk Shin ◽  
Eun-Mi Kim ◽  
Yu-Jin Park ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Infection Rate ◽  
18S Rrna ◽  
18S Rrna Gene ◽  
Republic Of Korea ◽  
Rrna Gene ◽  
Sequencing Analysis ◽  
High Genetic Diversity ◽  
The Republic ◽  
Diarrheic Calves

Cryptosporidium spp. are protozoan parasites that belong to subphylum apicomplexa and cause diarrhea in humans and animals worldwide. Data on the prevalence of Cryptosporidium spp. and its subtypes among calves in the Republic of Korea (KOR) are sparse. Hence, our study aimed to investigate the prevalence and association between the age of calf and the identified Cryptosporidium spp. and to determine the genotypes/subtypes of Cryptosporidium spp. in pre-weaned calves with diarrhea in the KOR. A total of 460 diarrheic fecal samples were collected from calves aged 1−60 days and screened for Cryptosporidium spp. by the 18S rRNA gene. Species identification was determined using the sequencing analysis of the 18S rRNA gene, and C. parvum-positive samples were subtyped via the sequence analysis of the 60-kDa glycoprotein (gp60) gene. Sequence analysis based on the 18S rRNA gene revealed the presence of three Cryptosporidium spp., namely, C. parvum (n = 72), C. ryanae (n = 12), and C. bovis (n = 2). Co-infection by these species was not observed. The infection rate was the highest in calves aged 11−20 days (26.1%, 95% CI 17.1−35.1), whereas the lowest rate was observed in calves aged 21−30 days (7.7%, 95% CI 0.0−16.1). The prevalence of C. parvum was detected exclusively in calves aged ≤20 days, and the highest infection rate of C. ryanae was seen in calves ≥31 days of age. The occurrence of C. parvum (χ2 = 25.300, P = 0.000) and C. ryanae (χ2 = 18.020, P = 0.001) was significantly associated with the age of the calves. Eleven different subtypes of the IIa family that belonging to C. parvum were recognized via the sequence analyses of the gp60 gene. Except for two (IIaA18G3R1 and IIaA15G2R1) subtypes, nine subtypes were first identified in calves with diarrhea in the KOR. IIaA18G3R1 was the most frequently detected subtype (72.2% of calves), followed by IIaA17G3R1 (5.6%), IIaA15G2R1 (4.2%), IIaA19G4R1 (4.2%), IIaA16G4R1 (2.8%), IIaA17G4R1 (2.8%), IIaA19G3R (2.8%), IIaA14G1R1 (1.4%), IIaA14G3R1 (1.4%), IIaA15G1R1 (1.4%), and IIaA19G1R1 (1.4%) These results suggest that the prevalence of Cryptosporidium spp. is significantly associated with calf age. Furthermore, the findings demonstrate the high genetic diversity of C. parvum and the widespread occurrence of zoonotic C. parvum in pre-weaned calves. Hence, calves are a potential source of zoonotic transmission with considerable public health implications.

scholarly journals Partial Sequence Analysis of the 5S to 18S rRNA Gene Region of the Maize Mitochondrial Genome

1983 ◽  
Vol 71 (1) ◽  
pp. 190-193 ◽  
Author(s):  
Shiaoman Chao ◽  
Ronald R. Sederoff ◽  
Charles S. Levings
Keyword(s):  
Sequence Analysis ◽  
Mitochondrial Genome ◽  
18S Rrna ◽  
18S Rrna Gene ◽  
Gene Region ◽  
Partial Sequence ◽  
Rrna Gene

scholarly journals Genetic and Antigenic Evidence Supports the Separation of Hepatozoon canis and Hepatozoon americanum at the Species Level

2000 ◽  
Vol 38 (3) ◽  
pp. 1298-1301 ◽  
Author(s):  
Gad Baneth ◽  
John R. Barta ◽  
Varda Shkap ◽  
Donald S. Martin ◽  
Douglass K. Macintire ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
18S Rrna ◽  
Distinct Species ◽  
18S Rrna Gene ◽  
Species Level ◽  
Hepatozoon Canis ◽  
Rrna Gene ◽  
Western Immunoblotting ◽  
Hepatozoon Americanum

Recognition of Hepatozoon canis and Hepatozoon americanum as distinct species was supported by the results of Western immunoblotting of canine anti-H. canis and anti-H. americanum sera against H. canisgamonts. Sequence analysis of 368 bases near the 3′ end of the 18S rRNA gene from each species revealed a pairwise difference of 13.59%.

scholarly journals Identification of Mycobacterial Species by Comparative Sequence Analysis of the RNA Polymerase Gene (rpoB)

1999 ◽  
Vol 37 (6) ◽  
pp. 1714-1720 ◽  
Author(s):  
Bum-Joon Kim ◽  
Seung-Hyun Lee ◽  
Mi-Ae Lyu ◽  
Seo-Jeong Kim ◽  
Gill-Han Bai ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Rna Polymerase ◽  
Phylogenetic Tree ◽  
Comparative Sequence Analysis ◽  
Clinical Isolates ◽  
Species Differentiation ◽  
Rrna Gene ◽  
Alignment Algorithm ◽  
Mycobacterial Species ◽  
Comparative Sequence

For the differentiation and identification of mycobacterial species, the rpoB gene, encoding the β subunit of RNA polymerase, was investigated. rpoB DNAs (342 bp) were amplified from 44 reference strains of mycobacteria and clinical isolates (107 strains) by PCR. The nucleotide sequences were directly determined (306 bp) and aligned by using the multiple alignment algorithm in the MegAlign package (DNASTAR) and the MEGA program. A phylogenetic tree was constructed by the neighbor-joining method. Comparative sequence analysis of rpoB DNAs provided the basis for species differentiation within the genusMycobacterium. Slowly and rapidly growing groups of mycobacteria were clearly separated, and each mycobacterial species was differentiated as a distinct entity in the phylogenetic tree. Pathogenic Mycobacterium kansasii was easily differentiated from nonpathogenic M. gastri; this differentiation cannot be achieved by using 16S rRNA gene (rDNA) sequences. By being grouped into species-specific clusters with low-level sequence divergence among strains of the same species, all of the clinical isolates could be easily identified. These results suggest that comparative sequence analysis of amplified rpoB DNAs can be used efficiently to identify clinical isolates of mycobacteria in parallel with traditional culture methods and as a supplement to 16S rDNA gene analysis. Furthermore, in the case of M. tuberculosis, rifampin resistance can be simultaneously determined.

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