scholarly journals Molecular phylogenetic study of rare weed-field species of the genus Avena L.

2021 ◽  
Vol 20 (1) ◽  
pp. 108-111
Author(s):  
A. A. Gnutikov ◽  
N. N. Nosov ◽  
I. G. Loskutov ◽  
E. V. Blinova ◽  
A. V. Rodionov
Keyword(s):  
Phylogenetic Study ◽  
Rrna Gene ◽  
Its1 Sequence ◽  
5.8S Rrna Gene ◽  
Molecular Phylogenetic Study ◽  
5.8S Rrna ◽  
C Genome ◽  
Molecular Phylogenetic ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

A molecular phylogenetic study of weed-field species of the genus Avena L. using marker sequences ITS1–5.8S rRNA gene–ITS2 was undertaken. In addition, next-generation sequencing (NGS) was performed on the Illuminaplatform for the ITS1 sequence and the beginning of the gene 5.8S rRNA. Sanger sequencing results revealed the separateclade of microspecies with a good level of support and small level of difference between themselves. According to NGSsequencing data, the two most abundant subgenomes in terms of the number of sequences were identified. Among thecommon sequences of hexaploids, those associated with the C-genome were not found. The presence of unique ribotypeswas shown for A. persica and A. georgica.

The origin of Alopecurus × brachystylus Peterm. according to the results of next-generation sequencing (NGS)

2020 ◽  
Vol 19 (1) ◽  
pp. 5-7
Author(s):  
A. A. Gnutikov ◽  
N. N. Nosov ◽  
E. O. Punina ◽  
A. V. Rodionov
Keyword(s):  
Next Generation Sequencing ◽  
Phylogenetic Study ◽  
Rrna Gene ◽  
Next Generation ◽  
Illumina Platform ◽  
Its1 Sequence ◽  
Molecular Phylogenetic Study ◽  
Molecular Phylogenetic ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

A molecular phylogenetic study of the hybrid species Alopecurus × brachystylus Peterm. and somesupposed ancestral taxa was carried out. Next-generation sequencing (NGS) of the ITS1 sequence and the start of the5.8S rRNA gene was used on the Illumina platform. According to NGS sequencing, genome of the A. × brachystylusforms common subgenomes with representatives of the section Alopecurium: A. geniculatus and A. aequalis, as well asrepresentatives of the type section: A. pratensis, A. arundinaceus, and alpine A. vlassowii. In addition, it was found thatA. vlassowii (section Alopecurus) contains sequences identical to the species of another section, Alopecurium.

scholarly journals Genomic constitution of diploid species of the genus Avena L. with A-genome according to the data of the next-generation sequencing (NGS)

2021 ◽  
Vol 20 (1) ◽  
pp. 333-335
Author(s):  
N. N. Nosov ◽  
A. A. Gnutikov ◽  
I. G. Loskutov ◽  
E. V. Blinova ◽  
A. V. Rodionov
Keyword(s):  
Next Generation Sequencing ◽  
Diploid Species ◽  
Rrna Gene ◽  
Next Generation ◽  
Illumina Platform ◽  
5.8S Rrna Gene ◽  
A Genome ◽  
5.8S Rrna ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing

For diploid (2x) species with the A-genome, as well as for hexaploid (6x) from the genus Avena, a locus-specific next-generation sequencing (NGS) of the sequence of the region of the internal transcribed spacer ITS1 and the beginning of the 5.8S rRNA gene was carried out on the Illumina platform. The high diversity and heterogeneity of the genomes of diploid species are shown. It was revealed that the genomes of modern diploid oat species are relatively far removed from the hexaploid species. It was found that A. canariensis occupies an isolated position among other diploid species, and also takes only an insignificant role in the formation of hexaploid genomes.

scholarly journals ITS1-gene 5.8S rRNA-ITS2 and trnL-trnF sequence variability during the divergence of Elymus L. species of the flora of Siberia and Russian Far East

2015 ◽  
Author(s):  
Kseniya Dobryakova ◽  
Nikolay Nosov
Keyword(s):  
Comparative Analysis ◽  
Phylogenetic Trees ◽  
Russian Far East ◽  
Far East ◽  
Nuclear Genome ◽  
Rrna Gene ◽  
5.8S Rrna Gene ◽  
5.8S Rrna ◽  
Molecular Phylogenetic ◽  
Elymus Species

The phylogenetic relationship of Elymus species were analyzed by molecular phylogenetic methods. Comparative analysis of the sequences ITS1-5.8S rRNA gene-ITS2 of the nuclear genome species of genus Elymus and kinship group showed that the species of the genus Elymus have 3 haplotypes. Нaplotype A was found in Elymus species (sections: Turczaninovia, Goulardia и Elymus) and Elytrigia geniculata; haplotype B was found in Elymus species (sections: Turczaninovia, Goulardia); haplotype C (sections: Goulardia и Clinelymopsis) and E. repens. Comparative analysis of the sequences trnL-trnF of the chloroplast genome of genus Elymus related species showed that the species of the genus Elymus form strongly supported clade. The phylogenetic trees were constructed using Bayesian method. Refs 22. Figs 2. Tables 3.

scholarly journals Biochemical and Molecular Phylogenetic Study of Agriculturally Useful Association of a Nitrogen-Fixing Cyanobacterium and NoduleSinorhizobiumwithMedicago sativaL.

2015 ◽  
Vol 2015 ◽  
pp. 1-16 ◽  
Author(s):  
E. V. Karaushu ◽  
I. V. Lazebnaya ◽  
T. R. Kravzova ◽  
N. A. Vorobey ◽  
O. E. Lazebny ◽  
...  
Keyword(s):  
Sinorhizobium Meliloti ◽  
Root Nodules ◽  
Bacterial Consortium ◽  
Biochemical Properties ◽  
Nostoc Muscorum ◽  
Phylogenetic Study ◽  
Rrna Gene ◽  
Nitrogen Fixing ◽  
Molecular Phylogenetic Study ◽  
Molecular Phylogenetic

Seed inoculation with bacterial consortium was found to increase legume yield, providing a higher growth than the standard nitrogen treatment methods. Alfalfa plants were inoculated by mono- and binary compositions of nitrogen-fixing microorganisms. Their physiological and biochemical properties were estimated. Inoculation by microbial consortium ofSinorhizobium melilotiT17 together with a new cyanobacterial isolateNostocPTV was more efficient than the single-rhizobium strain inoculation. This treatment provides an intensification of the processes of biological nitrogen fixation by rhizobia bacteria in the root nodules and an intensification of plant photosynthesis. Inoculation by bacterial consortium stimulates growth of plant mass and rhizogenesis and leads to increased productivity of alfalfa and to improving the amino acid composition of plant leaves. The full nucleotide sequence of the rRNA gene cluster and partial sequence of the dinitrogenase reductase (nifH) gene ofNostocPTV were deposited to GenBank (JQ259185.1, JQ259186.1). Comparison of these gene sequences ofNostocPTV with all sequences present at the GenBank shows that this cyanobacterial strain does not have 100% identity with any organisms investigated previously. Phylogenetic analysis showed that this cyanobacterium clustered with high credibility values withNostoc muscorum.

scholarly journals Molecular Phylogenetic study of Acila divaricata vigila based on the Partial Sequence of 16S rRNA Gene

2011 ◽  
Vol 27 (4) ◽  
pp. 395-400
Author(s):  
Bong-Seok Kim ◽  
Se-Won Kang ◽  
Ji-Eun Jeong ◽  
Jung-Yeon Park ◽  
Jung-Ha Kang ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Partial Sequence ◽  
Phylogenetic Study ◽  
Rrna Gene ◽  
Molecular Phylogenetic Study ◽  
Molecular Phylogenetic

scholarly journals Structure of Microbial Communities When Complementary Effluents Are Anaerobically Digested

2021 ◽  
Vol 11 (3) ◽  
pp. 1293
Author(s):  
Ana Eusébio ◽  
André Neves ◽  
Isabel Paula Marques
Keyword(s):  
Anaerobic Digestion ◽  
Microbial Communities ◽  
Volatile Fatty Acids ◽  
Olive Mill Wastewater ◽  
Organic Load ◽  
Rrna Gene ◽  
Bacterial Populations ◽  
Next Generation Sequencing Ngs ◽  
Generation Sequencing ◽  
Olive Mill

Olive oil and pig productions are important industries in Portugal that generate large volumes of wastewater with high organic load and toxicity, raising environmental concerns. The principal objective of this study is to energetically valorize these organic effluents—piggery effluent and olive mill wastewater—through the anaerobic digestion to the biogas/methane production, by means of the effluent complementarity concept. Several mixtures of piggery effluent were tested, with an increasing percentage of olive mill wastewater. The best performance was obtained for samples of piggery effluent alone and in admixture with 30% of OMW, which provided the same volume of biogas (0.8 L, 70% CH4), 63/75% COD removal, and 434/489 L CH4/kg SVin, respectively. The validation of the process was assessed by molecular evaluation through Next Generation Sequencing (NGS) of the 16S rRNA gene. The structure of the microbial communities for both samples, throughout the anaerobic process, was characterized by the predominance of bacterial populations belonging to the phylum Firmicutes, mainly Clostridiales, with Bacteroidetes being the subdominant populations. Archaea populations belonging to the genus Methanosarcina became predominant throughout anaerobic digestion, confirming the formation of methane mainly from acetate, in line with the greatest removal of volatile fatty acids (VFAs) in these samples.

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