Allele mining through TILLING and EcoTILLING approaches in vegetable crops.

MAIN CONCLUSION: The present review illustrates a comprehensive overview of the allele mining for genetic improvement in vegetable crops, and allele exploration methods and their utilization in various applications related to pre-breeding of economically important traits in vegetable crops. Vegetable crops have numerous wild descendants, ancestors and terrestrial races that could be exploited to develop high-yielding and climate-resilient varieties resistant/tolerant to biotic and abiotic stresses. To further boost the genetic potential of economic traits, the available genomic tools must be targeted and re-opened for exploitation of novel alleles from genetic stocks by the discovery of beneficial alleles from wild relatives and their introgression to cultivated types. This capability would be useful for giving plant breeders direct access to critical alleles that confer higher production, improve bioactive compounds, increase water and nutrient productivity as well as biotic and abiotic stress resilience. Allele mining is a new sophisticated technique for dissecting naturally occurring allelic variants in candidate genes that influence important traits which could be used for genetic improvement of vegetable crops. Target-induced local lesions in genomes (TILLINGs) is a sensitive mutation detection avenue in functional genomics, particularly wherein genome sequence information is limited or not available. Population exposure to chemical mutagens and the absence of selectivity lead to TILLING and EcoTILLING. EcoTILLING may lead to natural induction of SNPs and InDels. It is anticipated that as TILLING is used for vegetable crops improvement in the near future, indirect benefits will become apparent. Therefore, in this review we have highlighted the up-to-date information on allele mining for genetic enhancement in vegetable crops and methods of allele exploration and their use in pre-breeding for improvement of economic traits.

Insights into the cumulative effect of Colletotrichum gloeosporioides and Fusarium acutatum causing anthracnose-twister disease complex of onion.

Colletotrichum is an important plant pathogenic fungi that causes anthracnose/-twister disease in onion. This disease was prevalent in the monsoon season from August to November months and the symptoms were observed in most of the fields. This study aimed to investigate the pathogenicity and cumulative effect, if any of Colletotrichum gloeosporioides and Fusarium acutatum. The pot experiment was laid out to identify the cause responsible for inciting anthracnose-twister disease, whether the Colletotrichum or Fusarium or both, or the interaction of pathogens and GA3. The results of the pathogenicity test confirmed that C. gloeosporioides and F. acutatum are both pathogenic. C. gloeosporioides caused twisting symptoms independently, while F.acutatum independently caused only neck elongation. The independent application of GA3 did not produce any symptoms, however, increased the plant height. The combined treatment of C. gloeosporioides and F. acutatum caused twisting, which enhanced upon interaction with GA3 application giving synergistic effect. The acervuli were found in lesions infected with C. gloeosporioides after 8 days of inoculation on the neck and leaf blades. Symptoms were not observed in untreated control plants. Koch's postulates were confirmed by reisolating the same pathogens from the infected plants.

Deciphering genetic diversity phylogeny and assembly of Allium species through micro satellite markers on nuclear DNA.

The genus Allium is the most diverse, with cultivated crops such as onion, garlic, bunching onion, chives, leeks, and shallots, and several wild and semi-domesticated Allium species utilized as minor vegetables. These minor species are the genetic resources for various abiotic and biotic stresses. To employ underutilized species in breeding programmes, the magnitude of the genetic background of cultivated and semi-domesticated alliums, the phylogeny and diversity of the population must be known. In this study, nineteen SSR markers were employed to study the divergence and population structure of 95 Allium accessions which includes species, varieties, and interspecific hybrids, yielded 92 polymorphic loci, averaging 4.84 loci per SSR. PIC values range between 0.24 (ACM 018) and 0.98 (ACM 099). The cross transferability of ACM markers among Allium species ranges from 1.33 to 10.53 per cent, which is relatively low. The genotypes investigated were clustered into four primary clusters A, B, C, and D with 13 sub clusters I-XIII, conferring to the clustering results. The population structure investigations also found that K is a peak at value 4, implying that the population is predominantly segregated into four distinct groups, which associates the clustering pattern. The employed SSR markers adeptly unravel the complexities of diversity within alliums, holding promise for refining future breeding programs targeting elite progenies.

Exploring gender-based diversity for phenolic and organic acid profiles in the genetic resource of betel vine (Piper betle L.) from India as revealed through high-performance liquid chromatography (HPLC-DAD).

Betel vine (Piper betle L.) is a dioecious plant and has paved way for researchers to explore the available genetic resources for the biochemical compounds. In the study, twenty sexually dimorphic genotypes of betel vine were characterized for bio-compounds using high-performance liquid chromatography (HPLC-DAD), and as a result identified phenolic compounds and organic acids, including caffeic acid, salicylic acid, t-ferulic acid, sinapic acid, p-coumaric acid, t-cinnamic acid, gallic acid, p-hydroxybenzoic acid, gluconic acid, oxalic acid, lactic acid, tartaric acid, malonic acid, citric acid, and succinic acid. The phenolics and organic acids in the male genotypes were more than the female genotypes; this insight of phytochemicals variability could aid in the gender differences. However, the highest phenolic contents was found in the Kapoori Chintalapudi (68.77 mg/100 g), followed by Kapoori Bihar (67.03 mg/100 g) and Ghanegatte (63.31 mg/100 g) genotypes. The abundance of biomolecules was found in the order, namely gallic acid, sinapic acid, caffeic acid, tartaric acid, citric acid, and malonic acid in regardless of gender. The chemical profile of sexual dimorphs in betel vine and serve as a possible index for gender differentiation. The principal component analysis showed the hierarchical grouping of the genotypes based on the phenolic compounds and organic acids; thereby the divergent genotypes Kapoori Chintalapudi, Ghanaghette, Kapoori Bihar, and Sirugamani-1 were identified for phenolic acid richness. Similarly, CARI-6, Halisahar Sanchi, Kapoori Bihar, and Gangarampur Sanchi were identified for organic acids richness which can be promoted for commercial cultivation. Supplementary Information: The online version contains supplementary material available at 10.1007/s13205-023-03907-2.

Anthracnose of Onion (Allium cepa L.): A Twister Disease.

The onion (Allium cepa L.) is a lucrative and high-value vegetable-spice crop in India, but it is sensitive to several of diseases caused by fungi, bacteria, viruses, and nematodes, of which a fungal disease, anthracnose, caused by Colletotrichum spp., is a major issue for both onion producers and researchers since it severely affects the bulb production. Twister disease is currently one of the most common problems in onion production, particularly in humid regions, and it reduces productivity while also lowering the value and profitability. Twister disease is visualised by white or pale-yellow water-soaked oval depressed lesions on leaf blades, which are the first symptoms. Lesions expand as the disease advances, and numerous black-coloured, slightly elevated structures/fruiting bodies appear in the middle area, arranged in concentric rings. Curling, twisting, chlorosis of the leaves, and aberrant extension of the neck or pseudo-stem occurs, followed by rotting of the bulb. In an unmanaged crop, an excess gibberellin production by Colletotrichum gloeosporioides and Gibberella moniliformis is suspected to induce twisting and aberrant neck elongation, which will ruin onion productivity. It is difficult and environmentally unfriendly to control these infections. Since, to the best of our knowledge, this is the first review on onion anthracnose, we tried to consolidate information. This review updates our knowledge of the pathogen, including the disease cycle, infection pathways, and disease management techniques. As a result, growers will be benefit from the application of cultural, biological, and chemical measures and the use of resistant varieties.

Genetic diversity of Indian garlic core germplasm using agro-biochemical traits and SRAP markers.

The characterization of garlic germplasm improves its utility, despite the fact that garlic hasn't been used much in the past. Garlic has an untapped genetic pool of immense economic and medicinal value in India. Hence, using heuristic core collection approach, a core set of 46 accessions were selected from 625 Indian garlic accessions based on 13 quantitative and five qualitative traits. The statistical measures (CV per cent, CR per cent, VR per cent) were used to sort the core set using Shannon-Wiener diversity index and the Nei diversity index. In addition, the variation within the core set was tested for 18 agro-morphological and six biochemical characteristics (allicin, phenol content, pyruvic acid, protein, allyl methyl thiosulfinate (AMTHS), and methyl allyl thiosulfinate (MATHS)). Further study of the core set's molecular diversity was performed using sequence related amplified polymorphism (SRAP) markers, which revealed a wide range of diversity among the core set's accessions, with an average polymorphism efficiency (PE) of 80.59 percent, polymorphism information content (PIC) of 0.29, effective multiplex ratio (EMR) of 3.51, and marker index (MI) of 0.99. The findings of this study will be useful in identifying high-yielding, elite garlic germplasm lines with the trait of interest. Since this core set is indicative of total germplasm, these selected breeding lines will be used for genetic improvement of garlic in the future.

Morphological Characterization, Variability and Diversity among Vegetable Soybean (Glycine max L.) Genotypes.

Vegetable soybean production is dependent on the development of vegetable type varieties that would be achieved by the use of germplasm to evolve new agronomically superior yielding vegetable type with beneficial biochemical traits. This can be accomplished by a better understanding of genetics, which is why the research was conducted to reveal the quantitative genetics of vegetable soybean genotypes. Genetic variability of main morphological traits in vegetable soybean genotypes and their divergence was estimated, as a result of the magnitude of genotypic variation (GV), and phenotypic variation (PV) of traits varied among the genotypes. All traits showed high heritability (h2) associated with high genetic advance percentage mean (GAM). Therefore, these variable traits are potential for genetic improvement of vegetable type soybean. Genetic diversity is the prime need for breeding, and the magnitude of genetic diversity values were maximized among specific genotypes. Eight clusters were found for all genotypes; cluster VIII and cluster I were considered to have the most diversity. Cluster VIII consisted of two genotypes (GM-6 and GM-27), based on the mean outcomes of the high yield attributing traits. Hence, these two (GM-6, GM-27) genotypes can be advanced for commercial cultivation; furthermore, other genotypes can be used as source of breeding lines for genetic improvement of vegetable soybean.