Selected Papers from the 7th International Scientific Conference “Plant Genetics, Genomics, Bioinformatics and Biotechnology” (PlantGen 2023)

A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Genetics, Genomics and Biotechnology".

Deadline for manuscript submissions: closed (31 March 2024) | Viewed by 4687

Special Issue Editors


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Guest Editor
Federal Research Center Institute of Cytology and Genetics SB RAS, 630090 Novosibirsk, Russia
Interests: cereals; alien introgressions; resistance genes; fungal diseases; marker-assisted selection; genome-wide association studies
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Guest Editor
Federal Research Center Institute of Cytology and Genetics SB RAS, 630090 Novosibirsk, Russia
Interests: genetic diversity; plant molecular genetics; gene mapping; polyphenol metabolism; cereals; functional food; plant breeding

Special Issue Information

Dear Colleagues,

On behalf of Organizing committee, we are pleased to announce the call for papers for a Special Issue consisting of papers selected from the 7th International scientific conference “PlantGen 2023” held on 10–15 July 2023 in Kazan, Russia (https://plantgen2023.ofr.su). PlantGen is a large-scale event held every two years, which unites scientists from all regions of Russia and many foreign countries.

The conference will present the results of the latest original research related to the genetic approaches in plant breeding, plant physiology and molecular biology. The conference will discuss the following areas:

- Understanding the mechanisms of plant functioning;

- Implementing biotechnological approaches;

- Genetics of resistance to environmental stress factors;

- Creating new genotypes;

- Fundamental and applied aspects of the organization and evolution of the plant genome;

- Related bioinformatics approaches;

- Modern platforms aimed at improving crops.

Dr. Irina N. Leonova
Dr. Olesya Yu Shoeva
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Plants is an international peer-reviewed open access semimonthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2700 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • molecular plant breeding
  • gene editing in plants
  • gene mapping in plants
  • genome-wide association study, marker-assisted selection
  • next-generation sequencing
  • resistance of crops to stress factors
  • biodiversity of plants
  • plant genetic resources
  • transcriptome analysis in crop plants
  • gene expression
  • computer modelling
  • plant genomic databases
  • gene networks in plants

Published Papers (4 papers)

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Research

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18 pages, 6022 KiB  
Article
Class III Peroxidases in the Peach (Prunus persica): Genome-Wide Identification and Functional Analysis
by Ekaterina Vodiasova, Yakov Meger, Victoria Uppe, Valentina Tsiupka, Elina Chelebieva and Anatoly Smykov
Plants 2024, 13(1), 127; https://doi.org/10.3390/plants13010127 - 02 Jan 2024
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Abstract
Class III peroxidases are plant-specific and play a key role in the response to biotic and abiotic stresses, as well as in plant growth and development. In this study, we investigated 60 POD genes from Prunus persica based on genomic and transcriptomic data [...] Read more.
Class III peroxidases are plant-specific and play a key role in the response to biotic and abiotic stresses, as well as in plant growth and development. In this study, we investigated 60 POD genes from Prunus persica based on genomic and transcriptomic data available in NCBI and analysed the expression of individual genes with qPCR. Peroxidase genes were clustered into five subgroups using the phylogenetic analysis. Their exon–intron structure and conserved motifs were analysed. Analysis of the transcriptomic data showed that the expression of PpPOD genes varied significantly in different tissues, at different developmental stages and under different stress treatments. All genes were divided into low- and high-expressed genes, and the most highly expressed genes were identified for individual tissues (PpPOD12 and PpPOD42 in flower buds and PpPOD73, PpPOD12, PpPOD42, and PpPOD31 in fruits). The relationship between cold tolerance and the level of peroxidase expression was revealed. These studies were carried out for the first time in the peach and confirmed that chilling tolerance may be related to the specificity of antioxidant complex gene expression. Full article
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15 pages, 2855 KiB  
Article
Genetic Diversity Analysis of Soybean Collection Using Simple Sequence Repeat Markers
by Alibek Zatybekov, Moldir Yermagambetova, Yuliya Genievskaya, Svetlana Didorenko and Saule Abugalieva
Plants 2023, 12(19), 3445; https://doi.org/10.3390/plants12193445 - 30 Sep 2023
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Abstract
Soybean [Glycine max (L.) Merr.] is a nutrient-rich crop that offers a sustainable source of dietary protein and edible oil. Determining the level of genetic diversity and relationships between various genetic resources involved in breeding programs is very important in crop improvement [...] Read more.
Soybean [Glycine max (L.) Merr.] is a nutrient-rich crop that offers a sustainable source of dietary protein and edible oil. Determining the level of genetic diversity and relationships between various genetic resources involved in breeding programs is very important in crop improvement strategies. This study evaluated 100 soybean accessions with diverse origins for 10 important agronomic traits, including plant height (PH), an important plant adaptation-related trait impacting yield, in conditions in southeastern Kazakhstan for 2 years. The comparison of different groups of PH (tall, middle, and short) using a t-test suggested that the group of plants with the tallest PH provided a higher yield (p < 0.001) in relatively dry field conditions. The genetic diversity of the accessions was estimated using 25 simple sequence repeat (SSR) markers previously known to be associated with plant height. The results showed a significant variation among different groups of origin for all measured agronomic traits, as well as high genetic diversity, with the PIC (polymorphism information content) varying from 0.140 to 0.732, with an average of 0.524. Nei’s diversity index ranged between 0.152 and 0.747, with an average of 0.526. The principal coordinate analysis (PCoA) of the studied soybean collection showed that Kazakhstan accessions were genetically distant from European, East Asian, and North American cultivars. Twelve out of twenty-five SSR markers demonstrated significant associations with ten studied agronomic traits, including PH (p < 0.05). Six SSRs with pleiotropic effects for studied traits were selected, and their haplotypes with phenotypic effects were generated for each soybean accession. The obtained results can be used in soybean improvement programs, including molecular-assisted breeding projects. Full article
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20 pages, 1202 KiB  
Article
Phenotyping and Identification of Molecular Markers Associated with Leaf Rust Resistance in the Wheat Germplasm from Kazakhstan, CIMMYT and ICARDA
by Angelina Malysheva, Alma Kokhmetova, Rakhym Urazaliev, Madina Kumarbayeva, Zhenis Keishilov, Makpal Nurzhuma, Ardak Bolatbekova and Assiya Kokhmetova
Plants 2023, 12(15), 2786; https://doi.org/10.3390/plants12152786 - 27 Jul 2023
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Abstract
Leaf rust (LR) is the most widespread disease of common wheat worldwide. In order to evaluate leaf rust resistance, 70 uncharacterized wheat cultivars and promising lines with unknown leaf rust resistance genes (Lr genes) were exposed to Kazakhstani Puccinia triticina (Pt [...] Read more.
Leaf rust (LR) is the most widespread disease of common wheat worldwide. In order to evaluate leaf rust resistance, 70 uncharacterized wheat cultivars and promising lines with unknown leaf rust resistance genes (Lr genes) were exposed to Kazakhstani Puccinia triticina (Pt) races at the seedling stage. Field tests were performed to characterize leaf rust responses at the adult plant growth stage in the 2020–2021 and 2021–2022 cropping seasons. The wheat collection showed phenotypic diversity when tested with two virulent races of Pt. Thirteen wheat genotypes (18.6%) showed high resistance at both seedling and adult plant stages. In most cases, breeding material originating from international nurseries showed higher resistance to LR. Nine Lr genes, viz. Lr9, Lr10, Lr19, Lr26, Lr28, Lr34, Lr37, Lr46, and Lr68, either singly or in combination, were identified in 47 genotypes. Known Lr genes were not detected in the remaining 23 genotypes. The most commonly identified resistance genes were Lr37 (17 cultivars), Lr34 (16 cultivars), and Lr46 (10 cultivars), while Lr19, Lr68, Lr26, and Lr28 were the least frequent. Four Lr genes were identified in Keremet and Hisorok, followed by three Lr genes in Aliya, Rasad, Reke, Mataj, Egana and Almaly/Obri. The molecular screening revealed twenty-nine carriers of a single Lr gene, ten carriers of two genes, six carriers of three genes, and two carriers of four genes. Most of these accessions showed a high and moderate level of APR (Adult plant resistance) and may be utilized for the incorporation of Lr genes in well-adapted wheat cultivars. The most effective combination was Lr37, Lr34, and Lr68, the carriers of which were characterized by a low disease susceptibility index. The obtained results will facilitate breeding programs for wheat resistance in Kazakhstan. Full article
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10 pages, 1263 KiB  
Brief Report
Multivariate Genome-Wide Association Study of Concentrations of Seven Elements in Seeds Reveals Four New Loci in Russian Wheat Lines
by Nadezhda A. Potapova, Anna N. Timoshchuk, Evgeny S. Tiys, Natalia A. Vinichenko, Irina N. Leonova, Elena A. Salina and Yakov A. Tsepilov
Plants 2023, 12(17), 3019; https://doi.org/10.3390/plants12173019 - 22 Aug 2023
Viewed by 1247
Abstract
Wheat is a cereal grain that plays an important role in the world’s food industry. The identification of the loci that change the concentration of elements in wheat seeds is an important challenge nowadays especially for genomic selection and breeding of novel varieties. [...] Read more.
Wheat is a cereal grain that plays an important role in the world’s food industry. The identification of the loci that change the concentration of elements in wheat seeds is an important challenge nowadays especially for genomic selection and breeding of novel varieties. In this study, we performed a multivariate genome-wide association study (GWAS) of the seven traits—concentrations of Zn, Mg, Mn, Ca, Cu, Fe, and K in grain—of the Russian collection of common wheat Triticum aestivum (N = 149 measured in two years in two different fields). We replicated one known locus associated with the concentration of Zn (IAAV1375). We identified four novel loci—BS00022069_51 (associated with concentrations of Ca and K), RFL_Contig6053_3082 (associated with concentrations of Fe and Mn), Kukri_rep_c70864_329 (associated with concentrations of all elements), and IAAV8416 (associated with concentrations of Fe and Mn)—three of them were located near the genes TraesCS6A02G375400, TraesCS7A02G094800, and TraesCS5B02G325400. Our result adds novel information on the loci involved in wheat grain element contents and may be further used in genomic selection. Full article
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