scholarly journals NBS-LRR-containing class of salicylic acid-induced gene transcript in rye

Genetika ◽  
2021 ◽  
Vol 53 (1) ◽  
pp. 1-10
Author(s):  
Motonori Tomita ◽  
Keiko Nakatsuka ◽  
Natsuko Morita ◽  
Evans Lagudah ◽  
Rudi Appels
Keyword(s):  
Salicylic Acid ◽  
Cdna Library ◽  
Amino Acid Sequences ◽  
Disease Resistance Gene ◽  
Gene Transcript ◽  
Northern Blots ◽  
Dna Fragment ◽  
Entire Nucleotide Sequence ◽  
Homologous Amino Acid ◽  
Rust Resistance Genes

NBS-LRR-type disease resistance gene-like cDNA, induced by salicylic acid (SA) was cloned from rye Secalecereale L. (2n = 14RR) var. Petkus, which has rust resistance genes such as Lr26, Sr31 andRr9. We designed primers based on the NBS region and performed PCR using Petkus genomic DNA as a template. Next, we TA-cloned a 532-bp DNA fragment containing five homologous amino acid sequences in the NBS region. The SA-treated rye showed strong expression of a transcript of approximately 3.5 knt in the Northern blots probed with the NBS fragment; however, no transcripts were observed with the untreated rye. We constructed a cDNA library of rye var. Petkus treated with SA, and then screened the cDNA library using the TA-cloned NBS fragments as a probe. The entire nucleotide sequence of a full length of rye NBS-LRR-containing class cDNA 3,446 bp was determined.

scholarly journals COVID-19 Infection and Previous BCG Vaccination Coverage in the Ecuadorian Population

Vaccines ◽  
2021 ◽  
Vol 9 (2) ◽  
pp. 91
Author(s):  
Daniel Garzon-Chavez ◽  
Jackson Rivas-Condo ◽  
Adriana Echeverria ◽  
Jhoanna Mozo ◽  
Emmanuelle Quentin ◽  
...  
Keyword(s):  
Vaccination Coverage ◽  
Vaccine Coverage ◽  
National Level ◽  
Kendall Test ◽  
Amino Acid Sequences ◽  
Bcg Vaccination ◽  
High Prevalence ◽  
Health Organization ◽  
Low Coverage ◽  
Homologous Amino Acid

The Bacillus Calmette–Guérin (BCG) is a well-known vaccine with almost a century of use, with the apparent capability to improve cytokine production and epigenetics changes that could develop a better response to pathogens. It has been postulated that BCG protection against SARS-CoV-2 has a potential role in the pandemic, through the presence of homologous amino acid sequences. To identify a possible link between BCG vaccination coverage and COVID-19 cases, we used official epidemic data and Ecuadorian Ministry of Health and Pan American Health Organization vaccination information. BCG information before 1979 was available only at a national level. Therefore, projections based on the last 20 years were performed, to compare by specific geographic units. We used a Mann–Kendall test to identify BCG coverage variations, and mapping was conducted with a free geographic information system (QGIS). Nine provinces where BCG vaccine coverage was lower than 74.25% show a significant statistical association (χ2 Pearson’s = 4.800, df = 1, p = 0.028), with a higher prevalence of cases for people aged 50 to 64 years than in younger people aged 20 to 49 years. Despite the availability of BCG vaccination data and the mathematical models needed to compare these data with COVID-19 cases, our results show that, in geographic areas where BCG coverage was low, 50% presented a high prevalence of COVID-19 cases that were young; thus, low-coverage years were more affected.

Cloning of a Dna Fragment Encoding γ-Glutamyl Kinase and γ-Glutamyl Phosphate Reductase from a Tomato cDNA Library

1994 ◽  
pp. 245-254
Author(s):  
Mario G. García-Ríos ◽  
Laszlo N. Csonka ◽  
Ray A. Bressan ◽  
P. Christopher LaRosa ◽  
José Hanquier
Keyword(s):  
Cdna Library ◽  
Dna Fragment

scholarly journals EfrAB, an ABC Multidrug Efflux Pump in Enterococcus faecalis

2003 ◽  
Vol 47 (12) ◽  
pp. 3733-3738 ◽  
Author(s):  
Eun-Woo Lee ◽  
M. Nazmul Huda ◽  
Teruo Kuroda ◽  
Tohru Mizushima ◽  
Tomofusa Tsuchiya
Keyword(s):  
Enterococcus Faecalis ◽  
Antimicrobial Agents ◽  
Efflux Pump ◽  
Amino Acid Sequences ◽  
Open Reading Frames ◽  
Multidrug Efflux ◽  
Chromosomal Dna ◽  
Multidrug Efflux Pump ◽  
E Coli ◽  
Dna Fragment

ABSTRACT A DNA fragment responsible for resistance to antimicrobial agents was cloned from the chromosomal DNA of Enterococcus faecalis ATCC 29212 by using drug-hypersensitive mutant Escherichia coli KAM32 as a host cell. Cells of E. coli KAM32 harboring a recombinant plasmid (pAEF82) carrying the DNA fragment became resistant to many structurally unrelated antimicrobial agents, such as norfloxacin, ciprofloxacin, doxycycline, acriflavine, 4′,6-diamidino-2-phenylindole, tetraphenylphosphonium chloride, daunorubicin, and doxorubicin. Since the sequence of the whole genome of E. faecalis is known, we sequenced several portions of the DNA insert in plasmid pAEF82 and identified two open reading frames within the insert. We designated the genes efrA and efrB. A search of the deduced amino acid sequences of EfrA and EfrB revealed that they are similar to each other and that they belong to the ATP-binding cassette (ABC) family of multidrug efflux transporters. Transformed E. coli KAM32 cells harboring efrAB showed energy-dependent efflux of acriflavine. The efflux activity was inhibited by reserpine, verapamil, and sodium-o-vanadate, known inhibitors of ABC efflux pumps.

scholarly journals IDENTIFIKASI MOLEKULER BEAN COMMON MOSAIC VIRUS YANG BERASOSIASI DENGAN PENYAKIT MOSAIK KUNING KACANG PANJANG

2016 ◽  
Vol 15 (2) ◽  
pp. 132
Author(s):  
Melinda . ◽  
Tri Asmira Damayanti ◽  
Sri Hendrastuti Hidayat
Keyword(s):  
Amino Acid ◽  
Mosaic Virus ◽  
Bean Common Mosaic Virus ◽  
Mosaic Disease ◽  
Amino Acid Sequences ◽  
Yellow Mosaic Disease ◽  
West Java ◽  
Central Java ◽  
Cp Gene ◽  
Dna Fragment

Molecular identification of bean common mosaic virus associated with yellow mosaic disease on yard long bean. Bean common mosaic virus (BCMV) has been reported as one of the causal agents of yellow mosaic disease on yard long bean in West Java and Central Java. Infected plants showed mosaic, yellowing, and mixture of yellow mosaic. The research was conducted to identify the diversity of BCMV associated with yellow mosaic disease based on coat protein (CP) gene sequences. Symptomatic leaf samples were collected from yard long bean growing areas in several districts in West Java (Bogor, Cirebon, Subang, and Indramayu), and several districts in Central Java (Tegal, Klaten, Solo, Yogjakarta, Sleman, and Magelang). Molecular detection using RT-PCR method was carried out by using specific primer to BCMV which will amplify the CP gene. DNA fragment, + 860 bp in size, was successfully amplified from 8 out of 13 leaf samples, i.e samples from three villages in Bogor District (Cangkurawok, Bubulak, Bojong), and five samples from District of Cirebon, Subang, Solo, Sleman, and Tegal. Sequence analysis of those DNA fragment showed that 4 isolates (Bogor-Cangkurawok, Subang, Solo and Sleman) had the highest homology to BCMV-BlC from Taiwan, whereas 2 isolates (Cirebon and Tegal) had the highest homology to BCMVNL1 from England. Further, phyllogenetic analysis revealed that those of 4 isolates were closely related to BCMV-BlC from Taiwan based on nucleotide as well as amino acid sequences; while those other 2 isolates were closely related to BCMV-NL1 from England based on nucleotide sequences but closely related to BCMV-BlC Y from China based on amino acid sequences. Phyllogenetic analysis showed that those of 6 BCMV isolates separated in two different clusters; 4 isolates (Bogor- Cangkurawok, Subang, Solo, and Sleman) in cluster 1 together with BCMV-BlC from Taiwan, while other 2 isolates (Cirebon and Tegal) in cluster 2 together with BCMV-NL1.

scholarly journals Cloning and Characterization of a New Site-Specific Methyl-Directed ElmI Endonuclease Recognizing and Cleaving C5-methylated DNA Sequence 5’-G(5mC)^NG(5mC)-3’

Acta Naturae ◽  
2016 ◽  
Vol 8 (1) ◽  
pp. 117-125 ◽  
Author(s):  
V. A. Chernukhin ◽  
D. A. Gonchar ◽  
M. A. Abdurashitov ◽  
O. A. Belichenko ◽  
V. S. Dedkov ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Amino Acid Sequences ◽  
Open Reading Frames ◽  
Site Specific ◽  
Pcr Screening ◽  
Methylated Dna ◽  
Chromatographic Techniques ◽  
Dna Fragment ◽  
Reading Frames

Putative open reading frames of MD-endonucleases have been identified in Enterobacteria genomes as a result of the search for amino acid sequences homologous to MD-endonuclease BisI. A highly conserved DNA primary structure of these open reading frames in different genera of Enterobacteria (Escherichia, Klebsiella and Cronobacter) has allowed researchers to create primers for PCR screening, which was carried out on Enterobacteria DNA collected from natural sources. The DNA fragment, about 440 bp in length, was amplified by use of the genomic DNA of a wild E.coli LM N17 strain as a template and was inserted into the pMTL22 vector. Endonuclease activity was detected in an E.coli ER 2267 strain transformed with the obtained construction. A new enzyme named ElmI was purified by chromatographic techniques from the recombinant strain biomass. It was discovered that similarly to BisI this enzyme specifically cleaves the methylated DNA sequence 5-GCNGC- 3 before the central nucleotide N if this sequence contains two 5-methylcytosines. However, unlike BisI, ElmI more efficiently cleaves this sequence if more than two cytosine residues are methylated.

scholarly journals An endogenous retrovirus presumed to have been endogenized or relocated recently in a marsupial, the red-necked wallaby

Genome ◽  
2022 ◽  
Author(s):  
Sakura Hayashi ◽  
Konami Shimizu ◽  
Yusuke Honda ◽  
Yukako Katsura ◽  
Akihiko Koga
Keyword(s):  
Endogenous Retrovirus ◽  
Amino Acid Sequences ◽  
Open Reading Frames ◽  
Length Variation ◽  
Wild Type ◽  
Long Terminal Repeats ◽  
Recent Event ◽  
Melanin Biosynthesis ◽  
Dna Fragment ◽  
Reading Frames

An albino infant wallaby was born to a mother with the wild-type body color. PCR and sequencing analyses of <i>TYR</i> (encoding tyrosinase, which is essential for melanin biosynthesis) of this albino wallaby revealed a 7.1-kb-long DNA fragment inserted in the first exon. Because the fragment carried long terminal repeats, we assumed it to be a copy of an endogenous retrovirus, which we named <i>walb</i>. We cloned other <i>walb</i> copies residing in the genomes of this species and another wallaby species. The copies exhibited length variation, and the longest copy (>8.0 kb) contained open reading frames whose deduced amino acid sequences were well aligned with those of <i>gag</i>, <i>pol</i>, and <i>env</i> of retroviruses. It is not known through which of the following likely processes the walb copy was inserted into <i>TYR</i>: endogenization (infection of a germline cell by an exogenous virus), reinfection (infection by a virus produced from a previously endogenized provirus), or retrotransposition (intracellular relocation of a provirus). In any case, the insertion into <i>TYR</i> is considered to have been a recent event on an evolutionary timescale because albino mutant alleles generally do not persist for long because of their deleterious effects in wild circumstances. 

Dictyostelium discoideum contains two profilin isoforms that differ in structure and function

1991 ◽  
Vol 100 (3) ◽  
pp. 481-489 ◽  
Author(s):  
M. Haugwitz ◽  
A.A. Noegel ◽  
D. Rieger ◽  
F. Lottspeich ◽  
M. Schleicher
Keyword(s):  
Amino Acid ◽  
Cdna Library ◽  
Dictyostelium Discoideum ◽  
Actin Polymerization ◽  
Critical Concentration ◽  
Exchange Chromatography ◽  
Amino Acid Sequences ◽  
Actin Binding ◽  
Gene Coding ◽  
And Function

Two profilin isoforms (profilins I and II) have been purified from Dictyostelium discoideum, using affinity chromatography on a poly(L-proline) matrix; the isoforms could be separated by cation-exchange chromatography on a FPLC system. The gene coding for profilin I was cloned from a lambda gt11 cDNA library using a profilin I-specific monoclonal antibody. The profilin II cDNA was isolated by probing the cDNA library with an oligonucleotide deduced from the N-terminal amino acid sequence of profilin II, which has an open N terminus in contrast to profilin I. The deduced amino acid sequences of both genes show that profilin I in comparison to profilin II is slightly larger (13,064 Da vs 12,729 Da), has a more acidic isoelectric point (calc. pI 6.62 vs 7.26) and shares with profilin II 68 identical residues out of 126 amino acids. Although both profilins contain a conserved lysine residue in the putative actin-binding region and can be crosslinked covalently to G-actin, the crosslinking efficiency of profilin II to actin is substantially higher than that of profilin I. These data are in agreement with studies on the functional properties of the profilin isoforms. In most preparations profilin II was more efficient in delaying the onset of elongation during the course of actin polymerization and caused a higher critical concentration for actin polymerization than profilin I, probably due to the slightly increased affinity of profilin II for D. discoideum G-actin (approx. Kd 1.8 × 10(−6) M) as compared to that of profilin I (approx. Kd 5.1 × 10(−6) M).(ABSTRACT TRUNCATED AT 250 WORDS)

scholarly journals Prehaustorial local resistance to coffee leaf rust in a Mexican cultivar involves expression of salicylic acid-responsive genes

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e8345
Author(s):  
Edgar Couttolenc-Brenis ◽  
Gloria L. Carrión ◽  
Luc Villain ◽  
Fernando Ortega-Escalona ◽  
Daniel Ramírez-Martínez ◽  
...  
Keyword(s):  
Salicylic Acid ◽  
Leaf Rust ◽  
Defense Mechanisms ◽  
Early Recognition ◽  
Infected Leaf ◽  
Disease Resistance Gene ◽  
Hemileia Vastatrix ◽  
Coffee Leaf Rust ◽  
Subsequent Activation ◽  
Leaf Disks

Background In Mexico, coffee leaf rust (CLR) is the main disease that affects the Arabica coffee crop. In this study, the local response of two Mexican cultivars of Coffea arabica (Oro Azteca and Garnica) in the early stages of Hemileia vastatrix infection was evaluated. Methods We quantified the development of fungal structures in locally-infected leaf disks from both cultivars, using qRT-PCR to measure the relative expression of two pathogenesis recognition genes (CaNDR1 and CaNBS-LRR) and three genes associated with the salicylic acid (SA)-related pathway (CaNPR1, CaPR1, and CaPR5). Results Resistance of the cv. Oro Azteca was significantly higher than that of the cv. Garnica, with 8.2% and 53.3% haustorial detection, respectively. In addition, the non-race specific disease resistance gene (CaNDR1), a key gene for the pathogen recognition, as well as the genes associated with SA, CaNPR1, CaPR1, and CaPR5, presented an increased expression in response to infection by H. vastatrix in cv. Oro Azteca if comparing with cv. Garnica. Our results suggest that Oro Azteca’s defense mechanisms could involve early recognition of CLR by NDR1 and the subsequent activation of the SA signaling pathway.

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