Fruit and berry crops, as well as grapes, are important parts of the human diet and, at the same time, significant objects of genetic, breeding, biochemical and nutritional research. Traditional approaches of crop research and improvement are now complemented by effective modern genetic technologies. In this review, we analyze and summarize the achievements in genome editing of fruit, berry crops and grapes. New approaches accelerate the improvement of genotypes for many groups of traits: plant resistance to unfavorable environmental factors, flowering and ripening time, plant architectonics, fruit shelf time and biochemical composition. Genome editing using the CRISPR/Cas9 system has been successfully tested on the most important vegetatively propagated fruit and berry crops (apple, pear, orange, kumquat, grapefruit, banana, strawberry and kiwi) and grapes. About 30 genes of these crops have been used as targets for the introduction of desired mutations using the CRISPR/Cas9 system. The most valuable results are the improvement of important agronomic traits. For 24 genes it has been shown that their knockout can result in the improvement of varieties. In addition, the review pays attention to the comparative analysis of the explant types of vegetatively propagated crops used for the delivery of editing genetic constructs, as well as the comparison of the editing efficiency depending on the variation of the objects used, delivery methods, etc. The article discusses the existing limitations that need to be overcome for a wider application of genomic editing in order to improve varieties of fruit and berry crops, as well as grapes.

Grapevine is one of the world’s most economically important fruit crops. It is known that Vitis vinifera is a host for a large number of pathogenic agents, which significantly reduce the yield and berry quality. This forces the agronomists to use a huge amount of fungicides. Over the last few decades, alternative methods for solving this problem have been developed and continue to be developed. Such new technologies as marker-assisted selection, bioengineering of the rhizosphere, genetic engineering (transgenesis, cisgenesis and intragenesis) allow the production of pathogen-resistant cultivars. However, they are linked to a number of problems. One of the most promising methods is the creation of modified non-transgenic cultivars via CRISPR/Cas9-targeted mutagenesis. Therefore, researchers are actively looking for target genes associated with pathogen resistance and susceptibility. This review elucidates the main mechanisms of plant—pathogen interactions, the immune systems developed by plants, as well as the identified genes for resistance and susceptibility to the biotrophic pathogen Erysiphe necator and the necrotrophic pathogen Botrytis cinerea.

Successful application of the CRISPR/Cas genome editing system to various crops largely depends on the correct choice of target genes that may be purposefully changed to improve yield, quality, and resistance to biotic and abiotic stressors. The objective of this work was systematizing and cataloguing the information on the confirmed target genes for crop improvement. The latest systematic review was presented on peer-reviewed scientific papers (indexed in the Scopus database) published before August 17, 2019. The present study covers the period from August 18, 2019 to March 15, 2022. The search according to the given algorithm revealed 2090 publications, and their analysis showed that only 685 original papers contained the results of gene editing for 28 crops (the search included 56 crops). A significant part of these publications described the application of genome editing to target genes previously identified in similar works or the studies were associated with reverse genetics, while only 136 publications contained data on editing new target genes whose modification was aimed at improving plant traits important for breeding. The total number of target genes in cultivated plants that were edited to improve properties of breeding value over the entire period of the CRISPR/Cas system application was 287. A detailed analysis of the editing of new target genes is presented in this review. The studies were most often aimed at increasing plant productivity and disease resistance as well as improving the properties of plant materials. Observations are made whether it was possible to obtain stable transformants at the time of publication and whether the editing technique was applied to non-model cultivars. For a number of crops, however, the range of modified cultivars was significantly expanded, specifically for wheat, rice, soybean, tomato, potato, rapeseed, grapevine, and maize. In a vast majority of cases, agrobacterium-mediated transformation was used to deliver the editing construct; less often it was bioballistics, protoplast transfection or haploinducers. The desired change in traits was most often achieved by gene knockout. In some cases, knockdown and nucleotide substitutions were applied. The base-editing and prime-editing approaches have increasingly been used to make nucleotide substitutions in crop genes. The emergence of a convenient CRISPR/Cas editing system helped to significantly intensify the development of molecular genetics specific to many crop species.