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Garafutdinov RR, Sakhabutdinova AR, Aminev FG, Chemeris AV. [New polymorphic DNA marker to determine a person's sex from biological material]. Sud Med Ekspert 2022; 65:36-40. [PMID: 35947408 DOI: 10.17116/sudmed20226504136] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
The objective of the study was to pre-evaluate the applicability of gender-specific nucleotide sequences in human neuroligin genes as alternative DNA markers of sex. A new polymorphic locus based on NLGNX and NLGNY genes was proposed to establish the sex attribute of human biomaterials. The significant difference in the location of these loci relative to the pseudoautosomal region (PAR), as well as the combination of different types of polymorphism on the one hand, and the possibility of using gender-specific primers «in one assay» on the other hand, warrants their use as an additional marker of human sex attribute, including utilization as part of systems for DNA registration in the population. The introduction of a new polymorphic locus based on the NLGNX and NLGNY genes will make it possible to reliably identify the sex attribute of biological material recovered from crime scenes.
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Affiliation(s)
- R R Garafutdinov
- Institute of Biochemistry and Genetics Ufa Federal Research Centre of the Russian Academy of Sciences, Ufa, Russia
| | - A R Sakhabutdinova
- Institute of Biochemistry and Genetics Ufa Federal Research Centre of the Russian Academy of Sciences, Ufa, Russia
| | - F G Aminev
- Institute of law, Bashkir State University, Ufa, Russia
| | - A V Chemeris
- Institute of Biochemistry and Genetics Ufa Federal Research Centre of the Russian Academy of Sciences, Ufa, Russia
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Garafutdinov RR, Sakhabutdinova AR, Gilvanov AR, Chemeris AV. Rolling Circle Amplification as a Universal Method for the Analysis of a Wide Range of Biological Targets. Russ J Bioorg Chem 2021; 47:1172-1189. [PMID: 34931113 PMCID: PMC8675116 DOI: 10.1134/s1068162021060078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Revised: 04/14/2021] [Accepted: 04/16/2021] [Indexed: 11/23/2022]
Abstract
Detection and quantification of biotargets are important analytical tasks, which are solved using a wide range of various methods. In recent years, methods based on the isothermal amplification of nucleic acids (NAs) have been extensively developed. Among them, a special place is occupied by rolling circle amplification (RCA), which is used not only for the detection of a specific NA but also for the analysis of other biomolecules, and is also a versatile platform for the development of highly sensitive methods and convenient diagnostic devices. The present review reveals a number of methodical aspects of RCA-mediated analysis; in particular, the data on its key molecular participants are presented, the methods for increasing the efficiency and productivity of RCA are described, and different variants of reporter systems are briefly characterized. Differences in the techniques of RCA-mediated analysis of biotargets of various types are shown. Some examples of using different RCA variants for the solution of specific diagnostic problems are given.
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Affiliation(s)
- R. R. Garafutdinov
- Institute of Biochemistry and Genetics, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia
| | - A. R. Sakhabutdinova
- Institute of Biochemistry and Genetics, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia
| | - A. R. Gilvanov
- Institute of Biochemistry and Genetics, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia
| | - A. V. Chemeris
- Institute of Biochemistry and Genetics, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia
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Shikh EV, Makhova AA, Chemeris AV, Tormyshov IA. [Iatrogenic deficits of micronutrients]. Vopr Pitan 2021; 90:53-63. [PMID: 34538035 DOI: 10.33029/0042-8833-2021-90-4-53-63] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Accepted: 07/22/2021] [Indexed: 11/11/2022]
Abstract
Long-term use of certain drugs causes subclinical and clinically significant micronutrient deficiencies, which can affect the course of the disease, its prognosis, quality of life, and patient compliance with therapy. The aim of the study was to single out groups of drugs, which long-term use leads to micronutrient deficiency, and to determine vitamins, minerals and trace elements, which supply can be reduced as a result of pharmacotherapy, basing on the analysis of data published in the scientific literature. Material and methods. This review analyzes articles on medical sciences from MEDLINE and PubMed-NCBI bibliographic databases. Results. Combined oral contraceptives reduce woman's supply with B vitamins (B6, B12, B9), can cause hypomagnesemia, affect the calcium/magnesium blood ratio, reduce the amount of vitamin E circulating in blood. Proton pump inhibitors reduce the absorption of vitamin B12, calcium, magnesium, iron, zinc. Aspirin increases ascorbic acid metabolism. Loop diuretics increase urinary excretion of calcium, magnesium, thiamine, thiazide ones elevate zinc and vitamin B9 excretion. Loss of taste when taking captopril is associated with a decrease in zinc supply. The use of calcium channel blockers interfere with the absorption of folic acid by gingival fibroblasts. Conclusion. Given the growing prevalence of long-term drug use, it is necessary to be able to predict and prevent potential consequences of interactions with micronutrients. It is advisable, along with a varied and healthy diet, to provide patients with supplementation in order to prevent micronutrient deficiencies. Optimization of vitamin status of the population in terms of its significance for public health is comparable to drug therapy and is one of the technologies for reducing losses from chronic diseases.
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Affiliation(s)
- E V Shikh
- I.M. Sechenov First Moscow State Medical University of the Ministry of Healthcare of the Russian Federation (Sechenov University), 119991, Moscow, Russian Federation
| | - A A Makhova
- I.M. Sechenov First Moscow State Medical University of the Ministry of Healthcare of the Russian Federation (Sechenov University), 119991, Moscow, Russian Federation
| | - A V Chemeris
- I.M. Sechenov First Moscow State Medical University of the Ministry of Healthcare of the Russian Federation (Sechenov University), 119991, Moscow, Russian Federation
| | - I A Tormyshov
- I.M. Sechenov First Moscow State Medical University of the Ministry of Healthcare of the Russian Federation (Sechenov University), 119991, Moscow, Russian Federation
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Krasavina DA, Chemeris AV, Orlova OR, Ivanov YI. [Botulinum therapy of spastic forms of cerebral palsy in various locomotor patterns]. Zh Nevrol Psikhiatr Im S S Korsakova 2021; 121:119-123. [PMID: 34283541 DOI: 10.17116/jnevro2021121061119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Spasticity in patients with cerebral palsy (CP) is the main impediment to normal locomotion. The function of the Central Pattern Generator (CPG), i.e. a group of neural chains in the spinal cord, stands at the core of any rhythmical movement. CPG can generate locomotion patterns without supraspinal control, which can have both positive and negative impact on the ability to move. Performing the motor tasks such as walking, running and swimming, creates the consistent rhythmical movement of legs and arms through interaction between CPGs of upper and lower extremities. This interaction can cause the activation of pathological movement patterns in lower extremities in response to upper limb spasticity. Thus, neural chains in the spinal cord become the generator of pathologically increased excitation which has developed as a result of a focal lesion in the CNS. All the statements described above show the importance of introducing the upper limb injections of bFotulinum toxin A in the protocol in order to develop normal locomotion. The PUL study approved the optimal level of efficacy and favourable safety profile of botulinum toxin A in children with CP and upper limb muscle spasticity.
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Affiliation(s)
- D A Krasavina
- Saint-Petersburg Institute for Advanced Training of Medical Experts, St. Petersburg, Russia
| | - A V Chemeris
- Kazakhstan Medical University of Continuing Education, Almaty, Kazakhstan
| | - O R Orlova
- Sechenov First Moscow State Medical University, Moscow, Russia
| | - Y I Ivanov
- Saint-Petersburg Institute for Advanced Training of Medical Experts, St. Petersburg, Russia
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Gerashchenkov GA, Rozhnova NA, Kuluev BR, Kiryanova OY, Gumerova GR, Knyazev AV, Vershinina ZR, Mikhailova EV, Chemeris DA, Matniyazov RT, Baimiev AK, Gubaidullin IM, Baimiev AK, Chemeris AV. Design of Guide RNA for CRISPR/Cas Plant Genome Editing. Mol Biol 2020. [DOI: 10.1134/s0026893320010069] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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Baymiev AK, Baymiev AK, Kuluev BR, Shvets KY, Yamidanov RS, Matniyazov RT, Chemeris DA, Zubov VV, Alekseev YI, Mavzyutov AR, Ivanenkov YA, Chemeris AV. Modern Approaches to Differentiation of Live and Dead Bacteria Using Selective Amplification of Nucleic Acids. Microbiology (Reading) 2020. [DOI: 10.1134/s0026261720010038] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
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Gerashchenkov GA, Rozhnova NA, Kuluev BR, Kiryanova OY, Gumerova GR, Knyazev AV, Vershinina ZR, Mikhailova EV, Chemeris DA, Matniyazov RT, Baimiev AK, Gubaidullin IM, Baimiev AK, Chemeris AV. [Design of Guide RNA for CRISPR/Cas Plant Genome Editing]. Mol Biol (Mosk) 2020; 54:29-50. [PMID: 32163387 DOI: 10.31857/s0026898420010061] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Accepted: 07/08/2019] [Indexed: 11/24/2022]
Abstract
CRISPR/Cas technology of genome editing is a powerful tool for making targeted changes in the DNA of various organisms, including plants. The choice of the precise nucleotide sequence (protospacer) in the gene to be edited is important in the design of guide RNA, which can be carried out by specialized software. We review and compare all the known on-line and off-line resources for guide RNA design, with special attention paid to tools capable of searching for off-target edits sites in plant genomes. The use of Cas12a may be preferable to Cas9. Techniques allowing C→T and G→A base editing without DNA cleavage are discussed along with the basic requirements for the design of effective and highly specific guide RNAs. Ways for improving guide RNA design software are presented. We also discuss the lesser risks of off-target editing in plant genomes as opposed to animal genomes. Examples of edited plant genomes including those that do not lead to the creation of transgenic plants are reviewed.
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Affiliation(s)
- G A Gerashchenkov
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - N A Rozhnova
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - B R Kuluev
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - O Yu Kiryanova
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
- Ufa State Petroleum Technological University, Ufa, 450062 Russia
| | - G R Gumerova
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - A V Knyazev
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - Z R Vershinina
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - E V Mikhailova
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - D A Chemeris
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - R T Matniyazov
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - An Kh Baimiev
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - I M Gubaidullin
- Institute of Petrochemistry and Catalysis, Russian Academy of Sciences, Ufa, 450075 Russia
| | - Al Kh Baimiev
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
| | - A V Chemeris
- Institute of Biochemistry and Genetics, Russian Academy of Sciences, Ufa, 450054 Russia
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Baymiev AK, Akimova ES, Gumenko RS, Vladimirova AA, Muldashev AA, Chemeris AV, Baymiev AK. Genetic Diversity and Phylogeny of Root Nodule Bacteria Isolated from Nodules of Plants of the Lupinaster Genus Inhabiting the Southern Urals. RUSS J GENET+ 2019. [DOI: 10.1134/s1022795419010022] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Kuluev BR, Baymiev AK, Gerashchenkov GA, Chemeris DA, Zubov VV, Kuluev AR, Baymiev AK, Chemeris AV. Random Priming PCR Strategies for Identification of Multilocus DNA Polymorphism in Eukaryotes. RUSS J GENET+ 2018. [DOI: 10.1134/s102279541805006x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Kuluev BR, Fateryga AV, Kuluev AR, Mikhaylova EV, Chemeris AV. THE MOLECULAR GENETIC STUDY OF KRIM-SAGHYZ (Taraxacum hybernum Steven) USING SSR, RAPD AND ISSR MARKERS. Vavilovskii Zhurnal Genet Selektsii 2018. [DOI: 10.18699/vj18.337] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
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Kuluev BR, Knyazev AV, Mikhaylova EV, Chemeris AV. The role of expansin genes PtrEXPA3 and PnEXPA3 in the regulation of leaf growth in poplar. RUSS J GENET+ 2017. [DOI: 10.1134/s1022795417060084] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Kuluev BR, Mikhaylova EV, Taipova RM, Chemeris AV. Changes in phenotype of transgenic amaranth Amaranthus retroflexus L., overexpressing ARGOS-LIKE gene. RUSS J GENET+ 2017. [DOI: 10.1134/s1022795416120061] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Garafutdinov RR, Galimova AA, Sakhabutdinova AR, Chemeris AV. [PCR-based evaluation of sequence specificity of DNA fragmentation by ultrasound]. Mol Biol (Mosk) 2016; 50:272-8. [PMID: 27239847 DOI: 10.7868/s0026898416020051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2015] [Accepted: 09/08/2015] [Indexed: 11/23/2022]
Abstract
Ultrasonic fragmentation, which is a simple and convenient method for the mechanical degradation of DNA, is widely used in modern genome studies as one of the sample preparation steps. It has been recently found that the DNA breaks occur more often in the regions containing 5'-CG-3' dinucleotides. We studied the influence of the 5'-CG-3' dinucleotides on the efficiency of the 28S rRNA gene amplification during PCR with sonicated DNA of Mantis religiosa. It was shown that the amplification rate depends on the template length and the number of 5'-CG-3' dinucleotides. Amplification of the DNA regions with a higher 5'-CG-3' density is less efficient because of their higher sensitivity to ultrasound. The amount of the amplified DNA templates is inversely proportional to the 5'-CG-3'number.
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Affiliation(s)
- R R Garafutdinov
- Institute of Biochemistry and Genetics of Ufa Science Center of Russian Academy of Sciences, Ufa, 450054, Russia.,
| | - A A Galimova
- Institute of Biochemistry and Genetics of Ufa Science Center of Russian Academy of Sciences, Ufa, 450054, Russia
| | - A R Sakhabutdinova
- Institute of Biochemistry and Genetics of Ufa Science Center of Russian Academy of Sciences, Ufa, 450054, Russia
| | - A V Chemeris
- Institute of Biochemistry and Genetics of Ufa Science Center of Russian Academy of Sciences, Ufa, 450054, Russia
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Garafutdinov RR, Galimova AA, Sakhabutdinova AR, Chemeris AV. PCR-based evaluation of sequence specificity of DNA fragmentation by ultrasound. Mol Biol 2016. [DOI: 10.1134/s0026893316020059] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Garafutdinov RR, Sakhabutdinova AR, Chemeris AV. [The Increase of Oligonucleotides--Gold Nanoparticles Conjugates Stability]. Bioorg Khim 2015; 41:327-35. [PMID: 26502609 DOI: 10.1134/s1068162015030036] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
For today the reagents based on oligonucleotides--gold nanoparticles conjugates and used for specific nucleic acids detection are actively being developed. Such molecular structures are stabilized through the bonds between thiol group in oligonucleotides and gold atoms in nanoparticle. The durability of oligonucleotides--gold nanoparticles binding affects directly on the stability of conjugates and on the possibility of further manipulations. In this paper, a method for the strengthening of oligonucleotides attachment on the gold nano-particles surface by means of anchor groups with dithiolane residues is proposed. A comparative study of the anchors molecular structure influence on the conjugates stability at conditions that typical for oligonucleotide probes was carried out.
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Chuhukova OV, Postrigan BN, Baimiev AK, Chemeris AV. [The Effect of Cadmium on the Efficiency of Development of Legume-Rhizobium Symbiosis]. Izv Akad Nauk Ser Biol 2015:538-43. [PMID: 26638242] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Screening of nodule bacteria (rhizobia) forming symbiotic relationships with legumes has been performed in order to isolate strains resistant to cadmium ions in a wide range of concentrations (6-132 mg/kg). The effect ofcadmium salts (6, 12, 24 mg/kg) on the legume-rhizobium symbiosis ofthe pea Pisum sativum L. with Rhizobium leguminosarum and of the fodder galega Galega orientalis Lam. with Rhizobium galegae has been studied under experimental laboratory conditions. No statistically significant differences have been revealed in the growth and biomass of plants with regard to the control in the range of concentrations given above. However, it was found that cadmium inhibited nodulation in P. sativum and stimulated it in G. orientalis.
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Chubukova OV, Postrigan’ BN, Baimiev AK, Chemeris AV. The effect of cadmium on the efficiency of development of legume-rhizobium symbiosis. BIOL BULL+ 2015. [DOI: 10.1134/s1062359015050040] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Garafutdinov RR, Galimova AA, Sakhabutdinova AR, Vakhitov VA, Chemeris AV. [DNA amplification using PCR with abutting primers]. Mol Biol (Mosk) 2015; 49:628-37. [PMID: 26299863 DOI: 10.7868/s0026898415040059] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2014] [Accepted: 01/26/2015] [Indexed: 11/23/2022]
Abstract
DNA analysis of ñîmplex biological objects (wastewater, soil, archaeological and forensic samples, etc.) is currently of great interest. DNA of these objects is characterized by low suitability for research due to the violation of its integrity and chemical structure; thus, the detection of specific nucleic acid fragments can be achieved by PCR with contiguous primers. In this paper, we present the results that clarify the specific characteristics of PCR with abutting primers. The 3'-ends of these primers are annealed at adjacent nucleotides of complementary chains of DNA target. It has been shown that the proximity of primers enables the formation of specific reaction products with a higher sensitivity and less reaction time. Using artificially damaged DNA and DNA from the soil we demonstrated that the abutting primers provide assured detection of specific DNA fragments. The results of this work may be taken into account in PCR with degraded (fragmented) DNA.
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Affiliation(s)
- R R Garafutdinov
- Institute of Biochemistry and Genetics Ufa Science Center, Russian Academy of Sciences, Ufa, 450054 Russia.,
| | - A A Galimova
- Institute of Biochemistry and Genetics Ufa Science Center, Russian Academy of Sciences, Ufa, 450054 Russia
| | - A R Sakhabutdinova
- Institute of Biochemistry and Genetics Ufa Science Center, Russian Academy of Sciences, Ufa, 450054 Russia
| | - V A Vakhitov
- Institute of Biochemistry and Genetics Ufa Science Center, Russian Academy of Sciences, Ufa, 450054 Russia
| | - A V Chemeris
- Institute of Biochemistry and Genetics Ufa Science Center, Russian Academy of Sciences, Ufa, 450054 Russia
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Kuluev BR, Knyazev AV, Nikonorov YM, Chemeris AV. Estradiol inducible and flower-specific expression of ARGOS and ARGOS-LIKE genes in transgenic tobacco plants. RUSS J GENET+ 2014. [DOI: 10.1134/s1022795414070102] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Kuluev BR, Knyazev AV, Nikonorov YM, Chemeris AV. Role of the expansin genes NtEXPA1 and NtEXPA4 in the regulation of cell extension during tobacco leaf growth. RUSS J GENET+ 2014. [DOI: 10.1134/s1022795414040061] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Kuluev BR, Kniazev AV, Nikonorov IM, Chemeris AV. [Role of the expansin genes NtEXPA1 and NtEXPA4 in the regulation of cell extension during tobacco leaf growth]. Genetika 2014; 50:560-9. [PMID: 25715472] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
The tobacco plant genes NtEXPA1 and NtEXPA4 encode the α-expansin proteins involved in the regulation of cell growth and extension. We examined the levels of expression of these genes in various plant organs and under the effect of exogenous phytohormones. The highest levels of NtEXPA1 expression were registered in the terminal bud and in the young growing leaves and flowers. NtEXPA1 expression ceased once the leaves stopped growing. The NtEXPA4 gene showed a similar expression profile, except for higher levels of mRNA in the leaves. In young leaves located near the terminal bud, high levels of NtEXPA1 and NtEXPA4 are induced by auxins. In the lower leaves, expansin expression is differentially regulated by brassinosteroids, which inhibit NtEXPA1 and upregulate NtEXPA4. We further showed that expression of the transgenic ARGOS-LIKE results in upregulation of NtEXPA1 and a reduction in the NtEXPA4 mRNA. In turn, overexpression of NtEXPA1 resulted in an increased size of the leaves and stems because of the larger size of the individual cells.
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Kuluev BR, Knyazev AV, Postrigan BN, Chemeris AV. The creation of transgenic tobacco plants expressing fragments of the ARGOS and NtEXPA4 genes in antisense orientation. RUSS J GENET+ 2014. [DOI: 10.1134/s1022795414010074] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Kuluev BR, Kniazev AV, Postrigan' BN, Chemeris AV. [The creation of transgenic tobacco plants expressing fragments of the ARGOS and NtEXPA4 genes in antisense orientation]. Genetika 2014; 50:44-51. [PMID: 25711011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Transgenic tobacco plants expressing the fragments of the ARGOS and NtEXPA4 genes in antisense orientation have been created. Eleven lines of transgenic plants were investigated and five of them were characterized by a decrease in the sizes of the leaves and flowers as compared to control. Stalk sizes decreased when only the NtEXPA4 gene fragment was used. The organ size of the experimental plants decreased because of a reduction in the level of both cell division and cell expansion. Two lines of transgenic tobacco plants expressing the part of the ARGOS gene in antisense orientation were characterized by a reduction in the level of the NtEXPA1 and NtEXPA4 gene expression.
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Kuluev BR, Knyazev AV, Safiullina MG, Chemeris AV. Effect of constitutive expression of ARGOS-LIKE gene on sizes of cells and organs of transgenic tobacco plants. RUSS J GENET+ 2013. [DOI: 10.1134/s1022795413040078] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Kuluev BR, Safiullina MG, Knyazev AV, Chemeris AV. Morphological analysis of transgenic tobacco plants expressing the PnEXPA3 gene of black poplar (Populus nigra). Russ J Dev Biol 2013. [DOI: 10.1134/s106236041303003x] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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Kuluev BR, Safiullina MG, Kniazev AV, Chemeris AV. [Morphological analysis of transgenic tobacco plants expressing the PnEXPA3 gene of black poplar (Populus nigra)]. Ontogenez 2013; 44:166-73. [PMID: 23885563 DOI: 10.7868/s047514501303004x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Transgenic tobacco plants overexpressing the PnEXPA3 gene of black poplar (Populus nigra), which encodes alpha-expansin, were obtained. The transgenic plants were characterized by increased size of epidermic and mesophyll cells of leaves. However, the size of leaves remained normal. Overexpression of the PnEXPA3 gene provided stimulatory effect only on the stem length. Other morphological traits of the transgenic plants remained unchanged.
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Kuluev BR, Knyazev AV, Chemeris AV, Vakhitov VA. Morphological features of transgenic tobacco plants expressing the AINTEGUMENTA gene of rape under control of the dahlia mosaic virus promoter. Russ J Dev Biol 2013. [DOI: 10.1134/s1062360413020070] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Kuluev BR, Safiullina MG, Knyazev AV, Chemeris AV. Effect of ectopic expression of NtEXPA5 gene on cell size and growth of organs of transgenic tobacco plants. Russ J Dev Biol 2013. [DOI: 10.1134/s1062360413010049] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Kuluev BR, Safiullina MG, Kniazev AV, Chemeris AV. [Effect of ectopic expression of NtEXPA5 gene on cell size and growth of organs of transgenic tobacco plants]. Ontogenez 2013; 44:34-41. [PMID: 23659080 DOI: 10.7868/s0475145013010059] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
We obtained transgenic tobacco plants demonstrating overexpression of NtEXPA5 gene that encodes alpha-expansin of Nicotiana tabacum. The transgenic plants were characterized by increased size of leaves and stems. However, size of flowers remained almost unchanged. The increase of organ sizes was induced by cell stretching only. Moreover, the number of cell divisions was even decreased. The obtained data suggest tight interaction between cell stretching regulation and cell division, which together provide the basic mechanism aimed at the controlling of plant organ sizes.
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Kuluev BR, Knyazev AV, Iljassowa AA, Chemeris AV. Ectopic expression of the PnANTL1 and PnANTL2 black poplar genes in transgenic tobacco plants. RUSS J GENET+ 2012. [DOI: 10.1134/s1022795412100031] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Kuluev BR, Kniazev AV, Il'iasova AA, Chemeris AV. [Ectopic expression of the PnANTL1 and PnANTL2 black poplar genes in transgenic tobacco plants]. Genetika 2012; 48:1162-70. [PMID: 23270264] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Four putative orthologs of the AINTEGUMENTA gene were found in the poplar (Populus trichocarpa) genome. Two of them, which we called PnANTL1 and PnANTL2, were isolated from black poplar (Populus nigra L.) and transgenic tobacco plants were generated on their basis. Tobacco plants that were transgenic for the PnANTL1 gene were characterized by increased leaf length, smaller flower size, and different defects in the development of the corolla and stamens. Tobacco plants that were transgenic for the PnANTL2 gene were characterized by an increased length of leaves and larger flowers. The increase in the leaf size in all transgenic plants was determined by stimulation of cell expansion; the number of cells was even reduced in the case of the PnANTL1 gene. Ectopic expression of the PnANTL1 and PnANTL2 genes promoted an increase in the level of mRNA of some tobacco expansins. The data we obtained demonstrate the involvement of transcription factors of the AP2 subfamily in the regulation of cell expansion.
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Baymiev AK, Yamidanov RS, Matniyazov RT, Blagova DK, Baymiev AK, Chemeris AV. Preparation of fluorescent labeled nodule bacteria strains of wild legumes for their detection in vivo and in vitro. Mol Biol 2011. [DOI: 10.1134/s0026893311060033] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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34
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Baĭmiev AK, Iamidanov RS, Matniiazov RT, Blagova DK, Baĭmiev AK, Chemeris AV. [Obtaining of fluorescent-labeled nodule bacteria strains of wild legumes for their detection in vive and in vitro]. Mol Biol (Mosk) 2011; 45:984-91. [PMID: 22295568] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
A series of expression vectors containing genes of fluorescent proteins TurboGFP and TurboRFP under the phage T5 constitutive promoter regulation, intended for lifetime marking of nodule bacteria is created: a series of vectors based on a broad-host-range replicon BBRI, for marking strains with an expression of reporter gene from a transformed plasmid and a series of vectors based on a plasmid pRL765gfp for marking strains by introduction genes of fluorescent proteins in a bacterial chromosome. It was shown that transformation is the most preferable method of constructions transfer in nodule bacteria cells, as in the presence of mob locus in the vectors necessary for conjugation, exists the possibility of occasional plasmid mobilization and its transition from marked strain cells in other soil bacteria. With application of the created vector constructions we obtained fluorescent tagged strains of Rhizobium sp., Mesorhizobium sp., Ensifer (Sinorhizobium) sp., Bradyrhizobium sp., Phyllobacterium sp., Agrobacterium sp. Also their suitability for experiments in vivo and in vitro is shown.
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Vershinina ZR, Baimiev AK, Blagova DK, Knyazev AV, Baimiev AK, Chemeris AV. Bioengineering of symbiotic systems: Creation of new associative symbiosis with the use of lectins on the example of tobacco and oil seed rape. APPL BIOCHEM MICRO+ 2011. [DOI: 10.1134/s0003683811030173] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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36
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Vershinina ZP, Baĭmiev AK, Blagova DK, Kniazev AV, Baĭmiev AK, Chemeris AV. [Bioengineering of symbiotic systems: creation of new associative symbiosis with the use of lectins on the example of tobacco and colza]. Prikl Biokhim Mikrobiol 2011; 47:336-42. [PMID: 21790035] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
"Barbate roots" in tobacco and colza transgenic on lectin gene were obtained with the use of a wild strain of Agrobacterium rhizogenes 15834 transformed with pCAMBIA1305.1 plasmid containing the full-size lectin gene (psl) from the Pisum sativum. Influence of expression oflectin gene on colonization oftransgenic roots with symbiont of pea (Rhizobium leguminosarum) was investigated. The number of adhered bacteria onto the roots transformed with lectin gene was 14-fold and 37-fold higher in comparison with the control; this confirms the interaction of R. leguminosarum with pea lectin at the surface of the transformed roots of tobacco and colza. The developed experimental approach, based on the simulation of recognition processes and early symbiotic interactions with lectins of pea plants, may, in perspective, be used for obtaining stable associations of economically valuable, nonsymbiotrophic plant species with rhizobia.
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Garafutdinov RR, Nikonorov IM, Chemeris DA, Postrigan' BN, Chubukova OV, Talipov RF, Vakhitov VA, Chemeris AV. [New approaches to the real-time detection of nucleotide mismatches by means of chimeric hybridization probes]. Bioorg Khim 2009; 35:665-73. [PMID: 19915645 DOI: 10.1134/s1068162009050100] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
New approaches to the detection of impaired nucleotides based on the allele specific ligation of a "C probe" followed by rolling circle amplification have been developed. The detection of amplification products was realized by using enzymatic and deoxyribozyme digestion of fluorescently-labeled DNA-RNA-DNA chimeric oligonucleotide structures in cycling probe technology (CPT) in real-time mode.
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Affiliation(s)
- R R Garafutdinov
- Institute of Biochemistry and Genetics, Ufa Scientific Center, Russian Academy of Sciences, Ufa, Russia.
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Chubukova OV, Mustafina OE, Chemeris AV, Tuktarova IA, Bakhtiiarova KZ, Magzhanov RV, Nikonorov IM. [Polymorphism of the prion protein PRNP gene and risk of multiple sclerosis development in ethnic Russians from Bashkortostan]. Genetika 2009; 45:691-699. [PMID: 19534429] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
M129V polymorphism of prion protein gene PRNP has been studied in patients with multiple sclerosis (MS) and healthy ethnic Russians from Bashkortostan using allele-specific PCR. The genotype frequency distribution of the examined polymorphism in Russians from Bashkortostan was similar to that in European populations. MM, MV, and VV genotype frequencies in control group and in the MS patients were 50.24%, 42.58%, 7.18% and 43.33%, 45.83%, 10.84%, respectively. It was shown that in the group of MS patients with onset of the disease at the age of 21 and older, the frequency of the VV genotype was higher than in the control group (14.3% versus 6.18%, respectively, P = 0.041). We suggest that the VV genotype is associated with higher risk factor of MS development in the patients aged 21 years and older.
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Chubukova OV, Mustafina OE, Chemeris AV, Tuktarova IA, Bahtijarova KZ, Magjanov RV, Nikonorov YM. Polymorphism of the prion protein gene PRNP and risk of multiple sclerosis development in ethnic Russians from Bashkortostan. RUSS J GENET+ 2009. [DOI: 10.1134/s1022795409050135] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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Baimiev AK, Gubaidullin II, Baimiev AK, Chemeris AV. The effects of natural and hybrid lectins on the legume-rhizobium interactions. APPL BIOCHEM MICRO+ 2009. [DOI: 10.1134/s000368380901013x] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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41
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Chubukova OV, Khasanova SS, Nikonorov IM, Kulagin VF, Chemeris AV, Vakhitov VA. [Immunogenicity of N-protein of Puumala hantavirus for noninbred mice in the intramuscular administration of its gene DNA]. Vopr Virusol 2008; 53:38-41. [PMID: 18756816] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
The outbreaks of hantavirus infections in some regions of the Russian Federation in some years involve considerable material and social losses. In this connection, the designing of the most effective types of vaccines is an urgent task. The authors have created plasmid constructions containing the gene of hemorrhagic fever with renal syndrome virus, with whose Intramuscular injection there is a specific immune response and plasmid DNA is detectable in the adjacent tissues within a month after injection.
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Kuluev BR, Chemeris AV. [Amplification and cloning of dahlia mosaic virus and carnation etched ring virus promoters]. Genetika 2007; 43:1682-1684. [PMID: 18592695] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Amplification and cloning of dahlia mosaic virus promoter were carried out for the first time. Sequence analysis showed homology between this promoter and the promoters of other caulimoviruses. In addition, amplification and cloning of the carnation etched ring virus promoter was performed.
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Baymiev AK, Gubaydullin II, Baymiev AK, Chemeris AV. Inverse PCR-based site-directed mutagenesis of nucleotide sequences coding for carbohydrate-binding fragments of legume lectins. Mol Biol 2007. [DOI: 10.1134/s0026893307050202] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Baĭĭmiev AK, Gubaĭdullin II, Baĭmiev AK, Chemeris AV. [Site-directed mutagenesis of sugar-binding lectin fragments of legume plants with the help of inverse-PCR]. Mol Biol (Mosk) 2007; 41:940-2. [PMID: 18240577] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
Method of site-directed mutagenesis that gave an opportunity to the site-independent manipulation with enough extended exposed mutagenesis fragments of gene cloning in plasmid vector was developed. With the help of this method hybrid constructions representing peas Pisum sativum (PSL) lectine with carbohydrate-binding fragment changing on that lectines from another legume plants were created. This method is suitable for obtaining the expression constructions in plasmid vectors, when is necessary to put a coding part under the control of promoter in a certain reading frame.
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Baĭmiev AK, Baĭmiev AK, Gubaĭdullin II, Kulikova OL, Chemeris AV. [Bacteria closely related to Phyllobacterium trifolii according to their 16S rRNA gene are discovered in the nodules of Hungarian sainfoin]. Genetika 2007; 43:715-8. [PMID: 17633565] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
The population genetic diversity and phylogeny of the bacteria entering the symbiosis with sainfoin that grows on the Chesnokovskaya Mountain, Ufa region, Republic of Bashkortostan, have been studied. RAPD analysis of DNA polymorphism of the microbial strains grown from the nodules of 20 plants using several random primers detected a high degree of genetic homogeneity in their population as compared with the populations of rhizobia of other leguminous plants growing at the same site. Sequencing of 16S rRNA genes of the three most different samples have demonstrated that these genes were identical and display 99.9% homology with the sequence of Phyllobacterium trifolii 16S rRNA gene.
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Baimiev AK, Baimiev AK, Gubaidullin II, Kulikova OL, Chemeris AV. Bacteria closely related to Phyllobacterium trifolii according to their 16S rRNA gene are discovered in the nodules of Hungarian sainfoin. RUSS J GENET+ 2007. [DOI: 10.1134/s1022795407050146] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Baimiev AK, Gubaidullin II, Baimiev AK, Chemeris AV, Baimiev KM, Vakhitov VA. The symbiosis between oriental goat’s rue and the root nodule bacteria Rhizobium galegae: Specificity and competitiveness. APPL BIOCHEM MICRO+ 2007. [DOI: 10.1134/s0003683807030088] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Baĭmiev AK, Gubaĭdullin II, Baĭmiev AK, Chemeris AV, Baĭmiev KM, Vakhitov VA. [The symbiosis between oriental goat's rue and the root nodule bacteria Rhizobium galegae: specificity and competitiveness]. Prikl Biokhim Mikrobiol 2007; 43:311-7. [PMID: 17619578] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
Competitiveness and genetic variation of the Rhizobium galegae strains from the collection of the All-Russia Institute of Agricultural Microbiology, Russian Academy of Agricultural Sciences, causing nodulation of oriental goat's rue under conditions of Bashkortostan soils (lacking this rhizobial species) were studied. It was demonstrated that of all the tested strains, the strains CIAM 0702 and CIAM 0704, each carrying two megaplasmids of 1500 and 2000 MDa, were the most competitive. RAPD (random amplified polymorphic DNA) analysis showed that R. galegae strains were able to intensively exchange the genetic material in the host plant rhizosphere. We did not succeed in detecting the local root nodule bacteria that were either initially able to infect oriental goat's rue or had adapted to infecting this species due to various genetic rearrangements.
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Gubaidullin II, Baimiev AK, Chemeris AV, Vakhitov VA. Construction of chimeric lectins with new sugar-binding properties. DOKL BIOCHEM BIOPHYS 2007; 411:349-50. [PMID: 17396579 DOI: 10.1134/s160767290606007x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- I I Gubaidullin
- Institute of Biochemistry and Genetics, Ufa Scientific Center Russian Academy of Sciences, pr Oktyabrya 71, Ufa, 450054 Bashkortostan, Russia
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