Peer-reviewed articles 17,970 +


Title: STRESS AND IMMUNITY OF NODULE BACTERIA SINORHIZOBIUM MELILOTI: LOCALIZATION, POLYMORPHISM AND PHYLOGENY OF GENETIC DETERMINANTS
STRESS AND IMMUNITY OF NODULE BACTERIA SINORHIZOBIUM MELILOTI: LOCALIZATION, POLYMORPHISM AND PHYLOGENY OF GENETIC DETERMINANTS

PlumX Article Metrics by Elsevier
Victoria S. Muntyan; Alla S. Saksaganskaia; Alexey N. Muntyan; Mariia E. Vladimirova; Marina L. Roumiantseva
10.5593/sgem2022/6.1/s25.15
10.5593/sgem2022/6.1
1314-2704
978-619-7603-48-4
English
22
6.1
•    Prof. DSc. Oleksandr Trofymchuk, UKRAINE 
•    Prof. Dr. hab. oec. Baiba Rivza, LATVIA
Advances in Biotechnology
Sinorhizobium meliloti are agriculturally valuable species of soil bacteria that form nitrogen-fixing symbiosis with alfalfa plants. Global climate changes lead to an increase of agricultural areas subjected to salinity. Current knowledge about about high-salt stress impact on soil saprophitic root nodulated microsymbionts of legumes is weakly studied and rhizobia gene pool responsible for salt tolerance are fragment and far from clear. An increase of bacteria nonspecific resistance (immune status) to unfavorable stress factors can occur through the induction of defense mechanisms like restrictionmodification systems and CRISPR/cas systems which are aimed to protect bacteria cells from bacteriophages widespread in soil microbiome.
The aim of this research was to evaluate the role of the megaplasmid pSymA in the formation of ecological genome of S. meliloti, which is related to stress tolerance and to determine the location of elements of adaptive immune systems protecting root nodule bacteria against external foreign DNA. The analysis was done on 11 genes, products of which involved in response to ion stress and synthesis of osmoprotectors. It was found that 6 out of 11 genes were found in the genomes of all analyzed S. meliloti strains, while it was not a case for other 5 genes. It was found that, unlike chromosome, megaplasmid I of S. meliloti accumulated copies of 4 from 5 genes, except kdpA gene, which is represented by a single copy and localized on megaplasmid I in all so far studied strains. It was predicted that closest phylogenetic relatives of genes whose products are involved in response to ion stress as well in synthesis of osmoprotectors are homologous genes of closely related S. medicae species. The exception was for betI2, for which the closest phylogenetic relative was homologous gene of Klebsiella pneumonia, and another exception is kdpA gene introduced onto megaplasmid-I from actinobacteria. Regarding elements of immune systems it was revealed that nonsymbiotic plasmids of S. meliloti harbored incomplete elements of RMS-I, -II, and - III systems, while the 4 complete RMS-IV systems were detected on a single plasmid. It was found out that corresponding methylases had similarities with similar enzymes detected in nitrogen-fixing strains of Agrobacterium tumefaciens, Mezorhizobium sp., Bradyrhizobium sp. CRISPR sequences were not detected on megaplasmid-I, while they were on chromosome, megaplasmid-II and on cryptic plasmids. So, it was concluded that megaplasmid-I of S. meliloti are enriched in copies of genes related to osmotic stress tolerance, but it role in immune status of rhizobia is requested further elucidation.
[1] Angiuoli S.V., Gussman A., Klimke W., Cochrane G., Field D., Garrity G., Kodira C.D., Kyrpides N., Madupu R., Markowitz,V., Tatusova T., Thomson N., White O. Toward an online repository of standard operating procedures (SOPs) for (meta)genomic annotation, OMICS, USA, vol. 12, pp 137-141, 2008;
[2] Seemann T. Prokka: rapid prokaryotic genome annotation, Bioinformatics, England, vol. 30/issue 14, pp 2068-2069, 2014;
[3] Rozas J., Ferrer-Mata A., Sanchez-DelBarrio J.C., Guirao-Rico S., Librado P., Ramos-Onsins S.E., Sanchez-Gracia A. DnaSP 6: DNA sequence polymorphism analysis of large datasets, Molecular Biology and Evolution, England, vol.34/issue 12, pp 3299-3302, 2017;
[4] Korber, B. HIV signature and sequence variation analysis. Computational analysis of HIV molecular sequences, Allen G. Rodrigo and Gerald H. Learn, eds. Dordrecht, Netherlands: Kluwer Academic Publishers, 2000, Chapter 4, pp 555-572;
[5] Pourcel C., Touchon M., Villeriot N., Vernadet J.-P., Couvin D., Toffano-Nioche C., Vergnaud G. CRISPRCasdb a successor of CRISPRdb containing CRISPR arrays and cas genes from complete genome sequences, and tools to download and query lists of repeats and spacers, Nucleic Acids Research, England, vol. 48/issue D1, pp D535– D544;
[6] Edgar R.C., MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Research, England, vol. 32/number 5, pp 1792- 1797, 2004;
[7] Talavera G., Castresana J., Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments, Systematic Biology, England, vol. 56, pp 564-577, 2007;
[8] Nguyen L.-T., Schmidt H.A., von Haeseler A., Minh B.Q., IQ-TREE: A fast and effective stochastic algorithm for estimating maximum likelihood phylogenies, Molecular Biology and Evolution, USA, vol. 32/issue 1, pp 268-274, 2015;
[9] Huson D.H., Scornavacca C., Dendroscope 3: an interactive tool for rooted phylogenetic trees and networks, Systematic Biology, England, vol. 61/issue 6, pp 1061-1067, 2012;
[10] Yang Z. Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods, Journal of Molecular Evolution, Germany, vol. 39/issue 3, pp 306-314, 1994;
[11] Kimura M. Estimation of evolutionary distances between homologous nucleotide sequences, Proceedings of the National Academy of Sciences of the USA, USA, vol. 78/number 1, pp 454-458, 1981;
[12] Tavare, S. Some probabilistic and statistical problems on the analysis of DNA sequences, The Eighteenth Annual Symposium on Some Mathematical Questions in Biology (May 28, 1984, New York City), USA, vol. 17, pp 57-86, 1986.
This paper was produced with support from the Ministry of Science and Higher Education of the Russian Federation in accordance with agreement no. 075-15-2022-320, dated 20 April 2022, on providing grants in the form of subsidies from the federal budget of the Russian Federation. The grant was provided for state support for the creation and development of a World-class Scientific Center, “Agrotechnologies for the Future”.
conference
https://doi.org/10.5593/sgem2022/6.1/s25.15
Download PDF
Proceedings of 22nd International Multidisciplinary Scientific GeoConference SGEM 2022
22nd International Multidisciplinary Scientific GeoConference SGEM 2022, 04 - 10 July, 2022
Proceedings Paper
STEF92 Technology
International Multidisciplinary Scientific GeoConference SGEM
SWS Scholarly Society; Acad Sci Czech Republ; Latvian Acad Sci; Polish Acad Sci; Serbian Acad Sci and Arts; Natl Acad Sci Ukraine; Natl Acad Sci Armenia; Sci Council Japan; European Acad Sci, Arts and Letters; Acad Fine Arts Zagreb Croatia; Croatian Acad Sci and Arts; Acad Sci Moldova; Montenegrin Acad Sci and Arts; Georgian Acad Sci; Acad Fine Arts and Design Bratislava; Turkish Acad Sci.
121-128
04 - 10 July, 2022
website
8643
stress, immunity, osmoprotectors, restriction-modification system, CRISPR/Cas, Sinorhizobium meliloti