Rapid Identification of Chromosome-Specific Sequence-Tagged-Sites in Hexaploid Wheat, using Selective PCR from Nullisomic-Tetrasomic Lines

1999 ◽  
Vol 27 (1-2) ◽  
pp. 9-16
Author(s):  
Rachel E. Adlam ◽  
John E. Flintham
Keyword(s):  
Hexaploid Wheat ◽  
Rapid Identification ◽  
Specific Sequence ◽  
Sequence Tagged Sites

Potential of gene-specific sequence-tagged-sites (STS) as trait specific markers in buckwheat (Fagopyrum spp.)

2016 ◽  
Vol 26 (2) ◽  
pp. 160-171
Author(s):  
Sunil Archak ◽  
Jai Chand Rana ◽  
Priyam Singh ◽  
Ambika Baldev Gaikwad
Keyword(s):  
Specific Sequence ◽  
Sequence Tagged Sites

scholarly journals Chromosomal abnormalities and Y chromosome microdeletions in infertile men with azoospermia and oligozoospermia in Eastern China

2019 ◽  
Vol 48 (4) ◽  
pp. 030006051989671
Author(s):  
Jing Sha ◽  
Guiping Huang ◽  
Bei Zhang ◽  
Xia Wang ◽  
Zaochun Xu ◽  
...  
Keyword(s):  
Y Chromosome ◽  
Assisted Reproduction ◽  
Sex Chromosome ◽  
Chromosomal Abnormalities ◽  
Eastern China ◽  
Peripheral Blood Lymphocytes ◽  
Specific Sequence ◽  
Sequence Tagged Sites ◽  
Infertile Men ◽  
Y Chromosome Microdeletions

Objective The objective was to investigate the frequency and type of chromosomal abnormalities and Y chromosome microdeletions in infertile men with azoospermia and oligozoospermia to ensure appropriate genetic counseling before assisted reproduction in Eastern China. Methods A total of 201 infertile men (148 with azoospermia and 53 with oligozoospermia) were enrolled. Real-time PCR using six Y-specific sequence-tagged sites of the azoospermia factor (AZF) region was performed to screen for microdeletions. Karyotype analyses were performed on peripheral blood lymphocytes with standard G-banding. Results Out of 201 infertile patients, 22 (10.95%) had Y microdeletions [17/148 (11.49%) men with azoospermia and 5/53 (9.43%) men with oligozoospermia]. The most frequent microdeletions were in the AZFc region, followed by the AZFa+b + c, AZFb+c, AZFa, and AZFb regions. Chromosomal abnormalities were detected in 18.91% (38/201) of patients, 34 of which were sex chromosome abnormalities (16.92%) and 4 of which were autosomal abnormalities (1.99%). Chromosomal abnormalities were more prevalent in men with azoospermia (22.97%) than in those with oligozoospermia (7.55%). Conclusions We detected a high incidence of chromosomal abnormalities and Y chromosomal microdeletions in infertile Chinese men with azoospermia and oligozoospermia. These findings suggest the need for genetic testing before the use of assisted reproduction techniques.

scholarly journals Development of Pathotype-Specific SCAR Markers for Detection of Verticillium albo-atrum Isolates from Hop

Plant Disease ◽  
2004 ◽  
Vol 88 (10) ◽  
pp. 1115-1122 ◽  
Author(s):  
Sebastjan Radišek ◽  
Jernej Jakše ◽  
Branka Javornik
Keyword(s):  
Rapid Identification ◽  
Aflp Markers ◽  
Scar Markers ◽  
Specific Primer ◽  
Specific Sequence ◽  
Sequence Characterized Amplified Region ◽  
Wide Range ◽  
Rapid Polymerase Chain Reaction ◽  
Production Areas ◽  
Verticillium Albo Atrum

Rapid polymerase chain reaction (PCR) assays were developed for the identification and detection of Verticillium albo-atrum hop pathotypes PG1 and PG2 from Slovenia. Of 17 pathotype-linked amplified fragment length polymorphism (AFLP) markers, 11 were cloned successfully and sequenced. To convert polymorphic AFLP markers into pathotype-specific sequence-characterized amplified region (SCAR) markers, 22 PG2- and 10 PG1-specific primer pairs were designed from 16 sequences. When primer specificity was tested on a wide range of Verticillium isolates, 10 PG2- and 6 PG1-specific primer pairs retained amplification specificity for V. albo-atrum Slovene hop isolates, but also amplified sequences in V. albo-atrum and V. dahliae hop isolates from different hop production areas in Europe, as well as in some isolates from other hosts. Primer combinations obtained from the AFLP-9-1 marker were specific only for V. albo-atrum PG2 isolates. The highly specific primers were used in multiplex PCR and a nested PCR to detect the V. albo-atrum PG2 pathotype in xylem tissue of hop plants. These new SCAR markers provide a valuable tool for rapid identification of V. albo-atrum PG1 and PG2 hop pathotypes.

A panel of human chromosome 22-specific sequence tagged sites

Genomics ◽  
1992 ◽  
Vol 14 (4) ◽  
pp. 1098-1103 ◽  
Author(s):  
John E. Collins ◽  
Lorraine A. Everett ◽  
David R. Bentley ◽  
Ian Dunham
Keyword(s):  
Human Chromosome ◽  
Chromosome 22 ◽  
Specific Sequence ◽  
Sequence Tagged Sites

Evaluation of Y chromosome microdeletions and chromosomal anomalies in infertile men

2021 ◽  
Vol 0 (0) ◽  
Author(s):  
Ozlem Oz
Keyword(s):  
Y Chromosome ◽  
Banding Technique ◽  
Chromosomal Anomalies ◽  
Specific Sequence ◽  
Sequence Tagged Sites ◽  
Infertile Men ◽  
Y Chromosome Microdeletions ◽  
Male Patients ◽  
Patient Selection Criteria ◽  
Methodological Aspects

Abstract Objectives Chromosome anomalies and Y chromosome microdeletions are one of the reasons that can be seen in infertile patients and affect fertility. In this study, it was aimed to determine the frequencies of chromosomal anomalies and Y chromosome microdeletions in primary infertile male patients. Methods We included 374 patients with primary infertility in this study. Cytogenetic analysis was performed with the GTG banding technique by using trypsin and Giemsa stain. Y microdeletion analysis was studied by multiplex polymerase chain reaction using 28 Y chromosome-specific sequence-tagged sites. Results Chromosomal irregularities were detected in 27 (7.22%) of infertile cases. It was observed that 7 (25.92%) of chromosomal irregularities detected in cases were in autosomal and 20 (%74.08) were in gonosomal chromosomes. The incidence of Y chromosome microdeletion was 1.07% (4/374) and the microdeletions were observed in AZFb, AZFc and AZFd regions. AZFc + AZFd deletion was detected in three patients (0.81%) and AZFb + AZFc + AZFd deletion in one patient (0.26%). Conclusions In conclusion, gonosomal chromosome irregularity was higher than autosomal chromosome irregularity in infertile men. The frequency of Y microdeletion has different rates according to some factors such as ethnic differences of patients, patient selection criteria, differences in the number of cases, and methodological aspects.

scholarly journals Changes in epidemiologic characteristics and antimicrobial resistance of Streptococcus pyogenes isolated over 10 years from Japanese children with pharyngotonsillitis

2020 ◽  
Vol 69 (3) ◽  
pp. 443-450
Author(s):  
Kimiko Ubukata ◽  
Takeaki Wajima ◽  
Miyuki Morozumi ◽  
Megumi Sakuma ◽  
Takeshi Tajima ◽  
...  
Keyword(s):  
Streptococcus Pyogenes ◽  
Antibiotic Susceptibility ◽  
Rapid Identification ◽  
Specific Sequence ◽  
Content Type ◽  
Group A ◽  
Sequence Types ◽  
Identification And Characterization ◽  
Epidemiologic Characteristics

Introduction. Pharyngotonsillitis caused by Streptococcus pyogenes (group A streptococci, or GAS) is among the most common infections treated with antibiotics in pediatric patients. Aim. This study aimed to analyse changes in molecular epidemiology and antibiotic susceptibility among GAS isolates in three study periods spanning 10 years. Methodology. GAS isolated from paediatric patients with pharyngotonsillitis during Period I (mid-2007 to 2008, n=235), Period II (2012, n=210), and Period III (2018, n=189) were analysed for emm type, multilocus sequence type (MLST), antibiotic susceptibility, and macrolide (ML)- and quinolone (QL)-resistance genes. Results. Over 20 % of isolates represented emm1 and emm12 types, remaining common in all three periods. Among other emm types, emm4 was common in Period I, emm28 and emm89 in Period II, and emm3 and emm89 in Period III. All isolates remained highly susceptible to penicillins and cephalosporins. Isolates possessing mefA, ermA, or ermB genes mediating ML resistance increased from 34.9 % in Period I to 60.9 % in Period II, but fell to 27.5 % in Period III. QL-resistant isolates with amino acid substitutions affecting ParC and/or GyrA gradually increased from 11.5 to 14.3 %. Specific sequence types identified by MLST and emm typing were associated closely with ML or QL resistance. Conclusion. Our findings indicate that even in ambulatory care, antibiotic choice for these infections should be based on rapid identification and characterization of causative pathogens.

Identification of chromosome-specific sequence-tagged sites by Alu-PCR

1993 ◽  
Vol 10 (1) ◽  
pp. 6-9 ◽  
Author(s):  
Veronika Klein ◽  
Klaus Piontek ◽  
Nicole Brass ◽  
Frank Subke ◽  
Klaus D. Zang ◽  
...  
Keyword(s):  
Specific Sequence ◽  
Sequence Tagged Sites

Clinical, Hormonal, and Genetic Evaluation of Idiopathic Nonobstructive Azoospermia and Klinefelter Syndrome Patients

2017 ◽  
Vol 153 (4) ◽  
pp. 190-197 ◽  
Author(s):  
Shin Y. Kim ◽  
Bom Y. Lee ◽  
Ah R. Oh ◽  
So Y. Park ◽  
Hyo S. Lee ◽  
...  
Keyword(s):  
Y Chromosome ◽  
Klinefelter Syndrome ◽  
Nonobstructive Azoospermia ◽  
Specific Sequence ◽  
Azoospermia Factor ◽  
Sequence Tagged Sites ◽  
Infertile Men ◽  
Y Chromosome Microdeletions ◽  
Genetic Abnormalities ◽  
Azf Region

To investigate the clinical, hormonal, and genetic factors in infertile men with idiopathic nonobstructive azoospermia (NOA) or azoospermic Klinefelter syndrome (KFS), a total of 556 and 96 patients, respectively, were included in this study. All patient samples were analyzed cytogenetically. Serum reproductive hormone levels were measured. Microdeletions in the azoospermia factor (AZF) region of the Y chromosome were detected by multiplex PCR using 16 specific sequence-tagged sites. FSH and LH levels in both NOA and KFS patients were significantly higher than the normal range, and the testosterone level in KFS patients was significantly lower. Ninety-two (95.8%) of the KFS patients showed non-mosaic 47,XXY karyotypes and 47,XXY,inv(9)(p11.1q13); the other KFS patients had mosaic karyotypes of 47,XXY/46,XY, 47,XXY/46,XX, and 47,XXY/48,XXXY/46,XX. Among the 556 idiopathic NOA patients with normal karyotypes, 67 (12.05%) had microdeletions in the AZF region of the Y chromosome. Microdeletions were most frequently detected in the AZFc region, followed by AZFa, AZFb, AZFbc, and partial AZFc deletions. However, Y chromosome microdeletions were not found in any of the azoospermic KFS patients. In view of the hormonal and genetic abnormalities in infertile men with idiopathic NOA and with azoospermic KFS, genetic testing for karyotype, Y chromosome microdeletions, and hormonal parameters is advocated.

Mechanism of action of hammerhead ribozymes and their applications in vivo: rapid identification of functional genes in the post-genome era by novel hybrid ribozyme libraries

2002 ◽  
Vol 30 (6) ◽  
pp. 1145-1149 ◽  
Author(s):  
Y. Takagi ◽  
E. Suyama ◽  
H. Kawasaki ◽  
M. Miyagishi ◽  
K. Taira
Keyword(s):  
Metal Binding ◽  
Cancer Metastasis ◽  
Tertiary Structure ◽  
Hammerhead Ribozyme ◽  
Rapid Identification ◽  
Specific Sequence ◽  
Target Sites ◽  
Interfering Rna

A hammerhead ribozyme was demonstrated to be a metalloenzyme. By controlling the metal-binding ability of the hammerhead ribozyme in the presence or absence of a specific sequence of interest, we engineered an allosterically controllable ribozyme, designated the maxizyme. Hybrid ribozymes were then constructed by coupling the site-specific cleavage activity of a hammerhead ribozyme with the unwinding activity of an endogenous RNA helicase. This leads to extremely efficient cleavage of target mRNA, not only in vitro, but also in vivo, and eliminates one of the major problems arising in the application of ribozymes for cleavage of mRNA in vivo: that many target sites on the RNA were previously inaccessible to cleavage owing to secondary and/or tertiary structure formation. Since hybrid ribozymes can efficiently attack target sites within mRNA, libraries were made of hybrid ribozymes with randomized binding arms, which were then introduced into cells. This procedure made it possible to readily identify the relevant genes associated with a specific phenotype, such as in apoptosis and cancer metastasis pathways. This application of a randomized library of hybrid ribozymes represents a simple, yet powerful, method for the identification of genes associated with specific phenotypes in the post-genome era. Moreover, vector-based siRNA (short-interfering RNA for RNA interference, RNAi) can also be used for the creation of the libraries and for the subsequent confirmation of the identified genes, relevant in the examined phenotype.

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