Important Crop Research Articles

Spinach genomes reveal migration history and candidate genes for important crop traits.

Spinach (Spinacia oleracea) is an important leafy crop possessing notable economic value and health benefits. Current genomic resources include reference genomes and genome-wide association studies. However, the worldwide genetic relationships and the migration history of the crop remained uncertain, and genome-wide association studies have produced extensive gene lists related to agronomic traits. Here, we re-analysed the sequenced genomes of 305 cultivated and wild spinach accessions to unveil the phylogeny and history of cultivated spinach and to explore genetic variation in relation to phenotypes. In contrast to previous studies, we employed machine learning methods (based on Extreme Gradient Boosting, XGBoost) to detect variants that are collectively associated with agronomic traits. Variant-based cluster analyses revealed three primary spinach groups in the Middle East, Asiaand Europe/US. Combining admixture analysis and allele-sharing statistics, migration routes of spinach from the Middle East to Europe and Asia are presented. Using XGBoost machine learning models we predict genomic variants influencing bolting time, flowering time, petiole color, and leaf surface texture and propose candidate genes for each trait. This study enhances our understanding of the history and phylogeny of domesticated spinach and provides valuable information on candidate genes for future genetic improvement of the crop.

Genotype by environment interaction and stability study in bread wheat (Triticum aestivum L.) genotypes in Guji Zone, Southern Ethiopia

Genotype by environment interaction and stability study in bread wheat (Triticum aestivum L.) genotypes in Guji Zone, Southern Ethiopia

Phenotype, Biomass, Carbon and Nitrogen Assimilation, and Antioxidant Response of Rapeseed under Salt Stress

Salt stress is one of the major adverse factors affecting plant growth and crop production. Rapeseed is an important oil crop, providing high-quality edible oil for human consumption. This experiment was conducted to investigate the effects of salt stress on the phenotypic traits and physiological processes of rapeseed. The soil salinity was manipulated by setting three different levels: 0 g NaCl kg−1 soil (referred to as S0), 1.5 g NaCl kg−1 soil (referred to as S1), and 3.0 g NaCl kg−1 soil (referred to as S2). In general, the results indicated that the plant height, leaf area, and root neck diameter decreased with an increase in soil salinity. In addition, the biomass of various organs at all growth stages decreased as soil salinity increased from S0 to S2. The increasing soil salinity improved the distribution of biomass in the root and leaf at the seedling and flowering stages, indicating that rapeseed plants subjected to salt stress during the vegetative stage are capable of adapting their growth pattern to sustain their capacity for nutrient and water uptake, as well as leaf photosynthesis. However, as the soil salinity increased, there was a decrease in the distribution of biomass in the pod and seed at the maturity stage, while an increase was observed in the root and stem, suggesting that salt stress inhibited carbohydrate transport into reproductive organs. Moreover, the C and N accumulation at the flowering and maturity stages exhibited a reduction in direct correlation with the increase in soil salinity. High soil salinity resulted in a reduction in the C/N, indicating that salt stress exerted a greater adverse effect on C assimilation compared to N assimilation, leading to an increase in seed protein content and a decrease in oil content. Furthermore, as soil salinity increased from S0 to S2, the activity of superoxide dismutase (SOD) and catalase (CAT) and the content of soluble protein and sugar increased by 58.39%, 33.38%, 15.57%, and 13.88% at the seedling stage, and 38.69%, 22.85%, 12.04%, and 8.26% at the flowering stage, respectively. In summary, this study revealed that salt stress inhibited C and N assimilation, leading to a suppressed phenotype and biomass accumulation. The imbalanced C and N assimilation under salt stress contributed to the alterations in the seed oil and protein content. Rapeseed had a certain degree of salt tolerance by improving antioxidants and osmolytes.

Chilling stress response in tobacco seedlings: insights from transcriptome, proteome, and phosphoproteome analyses

Tobacco (Nicotiana tabacum L.) is an important industrial crop, which is sensitive to chilling stress. Tobacco seedlings that have been subjected to chilling stress readily flower early, which seriously affects the yield and quality of their leaves. Currently, there has been progress in elucidating the molecular mechanisms by which tobacco responds to chilling stress. However, little is known about the phosphorylation that is mediated by chilling. In this study, the transcriptome, proteome and phosphoproteome were analyzed to elucidate the mechanisms of the responses of tobacco shoot and root to chilling stress (4 °C for 24 h). A total of 6,113 differentially expressed genes (DEGs), 153 differentially expressed proteins (DEPs) and 345 differential phosphopeptides were identified in the shoot, and the corresponding numbers in the root were 6,394, 212 and 404, respectively. This study showed that the tobacco seedlings to 24 h of chilling stress primarily responded to this phenomenon by altering their levels of phosphopeptide abundance. Kyoto Encyclopedia of Genes and Genomes analyses revealed that starch and sucrose metabolism and endocytosis were the common pathways in the shoot and root at these levels. In addition, the differential phosphopeptide corresponding proteins were also significantly enriched in the pathways of photosynthesis-antenna proteins and carbon fixation in photosynthetic organisms in the shoot and arginine and proline metabolism, peroxisome and RNA transport in the root. These results suggest that phosphoproteins in these pathways play important roles in the response to chilling stress. Moreover, kinases and transcription factors (TFs) that respond to chilling at the levels of phosphorylation are also crucial for resistance to chilling in tobacco seedlings. The phosphorylation or dephosphorylation of kinases, such as CDPKs and RLKs; and TFs, including VIP1-like, ABI5-like protein 2, TCP7-like, WRKY 6-like, MYC2-like and CAMTA7 among others, may play essential roles in the transduction of tobacco chilling signal and the transcriptional regulation of the genes that respond to chilling stress. Taken together, these findings provide new insights into the molecular mechanisms and regulatory networks of the responses of tobacco to chilling stress.

Biological potentials of Landolphia owariensis leaf methanolic extract against pathogenic fungi isolates from different Dioscorea species

Abstract Regarding economic significance, the Dioscoreaceae family, which includes the well-known Dioscorea (yam) species, is the fourth most important tuber crop globally. A basic meal found all across the world, yams encourage and ensure the food security of households. Although they are challenging to preserve and store however a post-harvest deterioration control must be developed. Over the years, Nigerian farmers have employed medicinal herbs to manage post-harvest pest invasion; nevertheless, the scientific basis for this fungal management has not yet been well documented. As a result, Landolphia owarensis leaf extract was used as a biological control, and fungi were isolated from Dioscorea cayenensis, Dioscorea alata, and Discorea rotundata. Samples of yam tubers – both rotten and healthy – were procured in the markets and brought to the lab for fungus isolation and identification. Leaves of Landolphia oweriensis were collected, air-dried, milled, and macerated in pure methanol for 72 h, extracted and concentrated with a rotary evaporator. The agar-well diffusion method was used for the biological control assay against the fungal isolates. The biological control results were presented as mean ± SD (standard deviation) while analysis of variance (Anova) was used to deduce least significant difference (LSD). A total number of 605 fungi isolates were observed in which D. cayenensis had the highest, 50.58 %, D. alata and Discorea rotundata 24.71 % respectively. Aspergillus niger and Aspergillus fumigatus were found in the three species while Aspergillus flavus, Rhizopus stolonifer, Collentotricum spp. and Penicillium spp. in either of the species. L. owarensis methanolic leaves extracts possesses biological potentials against Colletotrium spp., A. fumigatus, A. niger and A. flavus only. The problem of postharvest fungal invasion of Dioscorea species can be solved with the inhibition observed with L. owarensis methanolic leaves extracts as a biological control measure thereby sustaining food security in the world.

Determining Drought and Salinity Stress Response Function for Garlic

Garlic (Allium sativum L.) is an important crop cultivated in arid and semi-arid climates. To quantify the tolerance of garlic to drought and salinity stresses in terms of parameter values of the stress response function, we conducted pot experiments in a greenhouse for two years. Nine 1/5000a Wagner pots were used for three treatments, namely drought-treated, salinity-treated, and control pots, for estimating the relative transpiration. Daily transpiration rates were observed by weighing pots, and the soil surface of each pot was covered. The soil water contents were measured hourly using two soil moisture probes for drought-treated pots, and two salinity probes for both soil water content and bulk electrical conductivity were monitored for salinity-treated pots. When the ratio of actual to potential transpiration fell below 50%, the root length distributions were obtained by dismantling the pots. The parameter values for both drought-stress and salinity-stress functions were estimated using inverse-analysis and bulk-analysis methods. The parameter values of drought-stress and salinity-stress functions obtained by the simpler and cheaper bulk method gave similar results to the inverse method when the root length distributions were relatively uniform.

SapBase: A central portal for functional and comparative genomics of Sapindaceae species.

The Sapindaceae family, encompassing a wide range of plant forms such as herbs, vines, shrubs, and trees, is widely distributed across tropical and subtropical regions. This family includes economically important crops like litchi, longan, rambutan, and ackee. With the wide application of genomic technologies in recent years, several Sapindaceae plant genomes have been decoded, leading to an accumulation of substantial omics data in this field. This surge in data highlights the pressing need for a unified genomic data center capable of storing, sharing, and analyzing these data. Here, we introduced SapBase, that is, the Sapindaceae Genome Database. SapBase houses seven published plant genomes alongside their corresponding gene structure and functional annotations, small RNA annotations, gene expression profiles, gene pathways, and synteny block information. It offers user-friendly features for gene information mining, co-expression analysis, and inter-species comparative genomic analysis. Furthermore, we showcased SapBase's extensive capacities through a detailed bioinformatic analysis of a MYB gene in litchi. Thus, SapBase could serve as an integrative genomic resource and analysis platform for the scientific exploration of Sapinaceae species and their comparative studies with other plants.

Multi-omic analyses reveal key sectors of jasmonate-mediated defense responses in rice.

The phytohormone jasmonate (JA) plays a central role in plant defenses against biotic stressors. However, our knowledge of the JA signaling pathway in rice (Oryza sativa) remains incomplete. Here, we integrated multi-omic data from three tissues to characterize the functional modules involved in organizing JA-responsive genes. In the core regulatory sector, MYC2 transcription factor transcriptional cascades are conserved. in different species but with distinct regulators (e.g. bHLH6 in rice)., in which genes are early expressed across all tissues. In the feedback sector, MYC2 also regulates the expression of JA repressor and catabolic genes, providing negative feedback that truncates the duration of JA responses. For example, the MYC2-regulated NAC (NAM, ATAF1/2 and CUC2) transcription factor genes NAC1, NAC3, and NAC4 encode proteins that repress JA signaling and herbivore resistance. In the tissue-specific sector, many late-expressed genes are associated with the biosynthesis of specialized metabolites that mediate particular defensive functions. For example, the terpene synthase gene TPS35 is specifically induced in the leaf sheath and TPS35 functions in defense against oviposition by brown planthoppers and the attraction of this herbivore's natural enemies. Thus, by characterizing core, tissue-specific, and feedback sectors of JA-elicited defense responses, this work provides a valuable resource for future discoveries of key JA components in this important crop.

Influence of growth regulators on callus induction and plant regeneration from anthers of Tagetes spp.

Marigold (Tagetes spp.) belongs to family Asteraceae, native to Mexico, is one of the most important flower crop grown commercially in different parts of India. The application of haploid techniques as anther culture can considerably accelerate marigold breeding programmes by providing homozygous doubled haploid (DH) lines for F1 hybrid seed production. Therefore, the objective of the present investigation was to study the effect of growth regulators for in vitro regeneration in both African marigold and French marigold genotypes viz., Pusa Basanti Gainda and Pusa Arpita, respectively for haploid induction. Among the different treatments tested for callus induction, anthers cultured on MS medium supplemented with 1.0 mg/l BAP + 1.0 mg/l 2,4-D + 45 g/l sucrose significantly induced highest (38.74%) callus in the shortest period of time (16 days). Among two genotypes tested, embryogenic callus induction (27.70%) was significantly higher in Pusa Arpita over Pusa Basanti Gainda (23.37%). Among the different regeneration treatments, the highest adventitious shoot bud induction (13.32%), maximum (1.09) number of buds/callus in shortest duration (19.47 days) was observed in anther derived callus cultured on MS medium supplemented with 2.0 mg/l BAP + 0.5mg/l NAA + 30 g/l sucrose. Among two genotypes evaluated for shoot bud induction, maximum (3.81%) regeneration was recorded in Pusa Arpita over Pusa Basanti Gainda (2.90%). In French genotype, the whole regeneration process was completed in 30 days whereas in African genotype it took nearly 40 days. This rapid regeneration system from anthers is highly useful in inducing haploids and di-haploids in African and French marigold lines, respectively.

Assessment of Polygenic Traits Association with Yield in Soybean Genotypes

Soybean is one of the important oilseed crop at global level with special concern to India. Despite its global dominance, India's contribution to the soybean scene remains relatively modest, with a production ranking of fourth but only a 5% share of the world's output. For this concern, the analysis of the relationships among yield attributing characters and their associations with seed yield is essential to establish selection criteria. The experimental material used in the present study comprised of fourteen lines (8 F1s and 6 parental lines). The characters viz., number of pods/plant, primary branches/plant, harvest index, plant height, secondary branch/plant, biological yield, 100-seed weight and days-to-50% flowering recorded significant positive correlation coefficient with seed yield both at genotypic and phenotypic level. Path coefficient analysis further pinpointed 100-seed weight, harvest index, and pods per plant as the traits with the most direct positive impact on seed yield. Additionally, the study identified plant height, pods/plant, primary branches/plant, 100-seed weight, and the harvest index as the key contributors to soybean yield, suggesting these traits as primary targets for manipulation in breeding programs aimed at yield improvement.

Assessment on Major Constrains of Enset (<i>Ensete ventricosum</i>) Landrace Production and Management Methods in Gurage Zone, Central Ethiopia

Enset (<i>Ensete ventricosum Cheesman</i>) is important crops in South, South western and Central part of Ethiopia. The assessment was conducted in major enset growing areas of Gurage zone during the 2021 cropping season with the objective of assessing major constrain of enset production and management methods at Cheha and Enemor Enore Woredas. The research site was selected with Gurage zine Agricultural office based on their enset production and cultivation. In each woredas four kebeles and five farmers were selected randomly. Farmers are growing enset landrace as intensive farming methods. In average 5-10 types of enset landraces were planting in their farm land. For propagating from 3-4 years enset landraces were preferred and germinating 50-100 sucker per plant. In both locations disease and wild animal is the major constrain of enset production. At Enemor Enore Woredas both disease and wild animal 60% and disease 25% whereas at Cheha worda disease 47.5% and both disease and wild animal 30% are the major constrains of enset production. In both location bacterial wilt is the major factors affecting enset production. In Cheha woreda 47.6% of enset landraces are tolerant to bacterial wilt reaction while 38.1% is susceptible whereas in Enemore Ener woreda 26.67% enset landraces are tolerant bacterial wilt while 23.33% is susceptible. The higher bacterial wilt prevalence was recorded in Cheha (77%) whereas in Enemore Ener woreda (57%). Among wild animal Porcupine and pig is the major factors for enset production. Therefore, for sustainable enset production, constant pest surveillance, planting a tolerant plant, Burring and rouging of the infected enset landrace, application of manure, removal of infected debris, and awareness creation are recommended to the local farmer.

Greenhouse covering cultivation promotes chlorophyll accumulation of tea plant (Camellia sinensis) by activating relevant gene expression and enzyme activity

BackgroundThe tea plant (Camellia sinensis (L.) O. Kuntze) is one of the most economically important woody crops. Plastic greenhouse covering cultivation has been widely used in tea areas of northern China. Chlorophyll is not only the crucial pigment for green tea, but also plays an important role in the growth and development of tea plants. Currently, little is known about the effect of plastic greenhouse covering cultivation on chlorophyll in tea leaves.ResultsTo investigate the effect of plastic greenhouse covering cultivation on chlorophyll in tea leaves, color difference values, chlorophyll contents, gene expression, enzyme activities and photosynthetic parameters were analyzed in our study. Sensory evaluation showed the color of appearance, liquor and infused leaves of greenhouse tea was greener than field tea. Color difference analysis for tea liquor revealed that the value of ∆L, ∆b and b/a of greenhouse tea was significantly higher than field tea. Significant increase in chlorophyll content, intracellular CO2, stomatal conductance, transpiration rate, and net photosynthetic rate was observed in greenhouse tea leaves. The gene expression and activities of chlorophyll-metabolism-related enzymes in tea leaves were also activated by greenhouse covering.ConclusionThe higher contents of chlorophyll a, chlorophyll b and total chlorophyll in greenhouse tea samples were primarily due to higher gene expression and activities of chlorophyll-metabolism-related enzymes especially, chlorophyll a synthetase (chlG), pheophorbide a oxygenase (PAO) and chlorophyllide a oxygenase (CAO) in tea leaves covered by greenhouse. In general, our results revealed the molecular basis of chlorophyll metabolism in tea leaves caused by plastic greenhouse covering cultivation, which had great significance in production of greenhouse tea.

Growth and Yield of Onion (<i>Allium cepa</i> L.) as Affected by Variable Rates of Poultry Manure and Mineral Nitrogen Fertilizer at Alage, Central Rift Valley Ethiopia

Onion is one of the important vegetable crops produced in many home gardens and in some extent commercially in different parts of Ethiopia. Therefore, this experiment was conducted at Alage Central Rift Valley of Ethiopia with the objectives of assessing the growth, yield, and quality response of onion to the variable rates of poultry manure and mineral nitrogen fertilizer. The experiment comprising of three nitrogen levels (0, 46, and 92 kg ha<sup>-1</sup>) and four levels of poultry manure (0, 5, 10, and 15 t ha<sup>-1</sup>) were laid out in a randomized complete block design with three replications. The result indicated that leaf length, leaf number, days to maturity, bulb length, and bulb dry matter content were significantly influenced by main factors. Application of poultry manure at the rate of 15 t ha<sup>-1</sup> recorded the highest total bulb yield (63.33 t ha<sup>-1</sup>) and marketable bulb yield (62.52 t ha<sup>-1</sup>), but statistically, there was no significant difference between 15t ha<sup>-1</sup> and 10t ha<sup>-1</sup> poultry manure application. The results of the partial budget analysis showed that 15 t ha<sup>-1</sup> poultry manure application gave the highest marginal rate of returns. Since the highest bulb yield and maximum marginal rate of returns are obtained at 15 t ha<sup>-1</sup> poultry manure application, this rate can be recommended for onion production in the researched area, and areas having similar agro-ecologies. However, as the research is conducted for a single season and location, repeating the experiment over location and year will be required to give a conclusive recommendation.

Assessing Soil Quality, Wheat Crop Yield, and Water Productivity under Condition of Deficit Irrigation

Wheat is one of the most important cereal crops in Egypt and all over the world. Its productivity is adversely affected by drought due to deficient irrigation to provide nutrients required for plant growth. In a field experiment, silicon foliar applications at concentrations of 0, 200, and 400 mg L−1 were performed at different irrigation rates ranging from 1000 to 4000 m3 ha−1 to assess water irrigation productivity and wheat crop yield in a calcareous soil under arid climate conditions. Increased irrigation rates led to a significant increase in soil nutrient dynamics, as well as in the number and weight of grains per spike, leaf area index, grain yield, straw yield, and biological yield, with the exception of the weight of 1000 grains. Spraying with sodium silicate had a significant impact on grain yield and harvest index but did not significantly impact the other traits. Furthermore, the interaction between irrigation and silicate application rates showed significance only for grain yield, the number of spikes/m2, and the harvest index. Applying three times irrigation could produce the highest nutrient retention, wheat yield, and water irrigation productivity. No significance was observed between 3000 m3 ha−1 and 4000 m3 ha−1 irrigation, indicating a saving of 25% of applied irrigation water. It can be concluded that applying irrigation at 3000 m3 ha−1 could be a supplemental irrigation strategy. High wheat grain yield can be achieved under deficit irrigation (3000 m3 ha−1) on the northwestern coast of Egypt with an arid climate by spraying crops with sodium silicate at a rate of 400 mg L−1.

Identification and pathogenicity of Clonostachys spp. and its co‐inoculation with Fusarium species on soybean root

AbstractSoybean is an important protein and oil crop around the world, widely cultivated in Heilongjiang province, China. In the summer of 2021, soybean root rot samples were collected from farms in multiple regions of Heilongjiang province to isolate pathogens. Twenty‐seven fungal isolates with similar morphology were found, causing soybean root discolouration and blackness leading to root rot, but which had relatively mild pathogenicity, with an average disease index of 13.69–32.25. Morphological features and multilocus phylogenetic analyses divided these isolates into four species: Clonostachys rosea (48.2%), C. rosea f. sp. rosea (14.8%), C. chloroleuca (29.6%) and Clonostachys sp. (7.4%). Co‐inoculation of these four species with two important pathogenic Fusarium species that can cause soybean root rot, F. annulatum and Fusarium sp. 1 in the Fusarium oxysporum species complex (FOSC), showed that C. rosea and Clonostachys sp. significantly reduced the pathogenicity of F. annulatum to soybean root, while C. rosea f. sp. rosea and C. chloroleuca slightly increased the pathogenicity of F. annulatum. C. rosea, Clonostachys sp., C. chloroleuca and C. rosea f. sp. rosea slightly reduced the pathogenicity of Fusarium sp. 1 in the FOSC. Our research is the first to report Clonostachys sp., C. chloroleuca and C. rosea f. sp. rosea causing soybean root rot in Heilongjiang province, China, and that these four Clonostachys species can affect the pathogenicity of Fusarium species, alleviating or aggravating soybean root rot. The findings of this study provide new insights into exploring the interactions between pathogens and thus effectively controlling them.

Citrus psorosis virus 24K protein inhibits the processing of miRNA precursors by interacting with components of the biogenesis machinery.

Sweet orange (Citrus sinensis) is one of the most important fruit crops worldwide. Virus infections in this crop can interfere with cellular processes, causing dramatic economic losses. By performing RT-qPCR analyses, we demonstrated that citrus psorosis virus (CPsV)-infected orange plants exhibited higher levels of unprocessed microRNA (miRNA) precursors than healthy plants. This result correlated with the reported reduction of mature miRNAs species. The protein 24K, the CPsV suppressor of RNA silencing (VSR), interacts with miRNA precursors in vivo. Thus, this protein becomes a candidate responsible for the increased accumulation of unprocessed miRNAs. We analyzed 24K RNA-binding and protein-protein interaction domains and described patterns of its subcellular localization. We also showed that 24K colocalizes within nuclear D-bodies with the miRNA biogenesis proteins DICER-LIKE 1 (DCL1), HYPONASTIC LEAVES 1 (HYL1), and SERRATE (SE). According to the results of bimolecular fluorescence complementation and co-immunoprecipitation assays, the 24K protein interacts with HYL1 and SE. Thus, 24K may inhibit miRNA processing in CPsV-infected citrus plants by direct interaction with the miRNA processing complex. This work contributes to the understanding of how a virus can alter the regulatory mechanisms of the host, particularly miRNA biogenesis and function.IMPORTANCESweet oranges can suffer from disease symptoms induced by virus infections, thus resulting in drastic economic losses. In sweet orange plants, CPsV alters the accumulation of some precursors from the regulatory molecules called miRNAs. This alteration leads to a decreased level of mature miRNA species. This misregulation may be due to a direct association of one of the viral proteins (24K) with miRNA precursors. On the other hand, 24K may act with components of the cell miRNA processing machinery through a series of predicted RNA-binding and protein-protein interaction domains.

Phylogenetic position of Aceria sp. (Trombidiformes: Eriophyidae) based on 28S rDNA partial sequences Limpopo Province, South Africa

Aceria (Trombidiformes: Eriophyidae) is the largest known genus among the Eriophyoidea and is associated with economically important crops as pest species are distributed worldwide. Therefore, correctly identifying them for their control and management is necessary. This study was conducted to isolate and identify Aceria sp. in Limpopo Province, South Africa. Therefore, this molecular study was conducted in 2023 at Limpopo University. To identify Aceria sp., 28S rDNA marker used. The DNA was extracted using the Chelex method. The Aceria was identified as Aceria sp. The Nblast analysis showed South African Aceria sp. has 92% similarity with a population from Russia (OP419491). Phylogenetic analysis using maximum likelihood placed this species with those molecularly identified as Aceria sp. in the same clade with highly supported (96) bootstrap values. In conclusion, this species is identified using 28S rDNA properly. However, other DNA markers are recommended to better understand Aceria sp. phylogeny.

A Novel Hybrid Approach Based on CNN for Corn Diseases Detection

Corn is one of the most economically important crops globally, significantly improving food security and agricultural productivity. However, corn plants face various foliar diseases, which can significantly reduce crop productivity. Accurate and early detection of corn diseases is an imperative task for maintaining crop health and ensuring food security. In this study, we propose a novel approach for corn disease detection by integrating DenseNet121, a powerful convolutional neural network (CNN) architecture, with a deep neural network (DNN) classifier. This hybrid model, called DenseNetDNN, combines the feature extraction capabilities of DenseNet121 with the classification capabilities of a DNN, aiming to enhance disease detection accuracy. The proposed model’s performance is compared against four widely used pre-trained CNN models: ResNet50, MobileNet, EfficientNetB0, and Xception. All models are evaluated using accuracy, precision, and recall. Additionally, the study employs GradeCam, an advanced grading system, to automate and standardize the performance evaluation of the proposed model. Results demonstrate that the DenseNetDNN model outperformed all other models in terms of identifying corn diseases; it achieves superior performance with an accuracy of 96.1%, precession of 0.952, and recall of 0.958. which demonstrates the efficiency of DenseNetDNN in advancing agricultural disease detection. This research contributes to the development of automated solutions for agricultural monitoring, with implications for improving crop management practices and ensuring global food security.

Cicer super-pangenome provides insights into species evolution and agronomic trait loci for crop improvement in chickpea.

Chickpea (Cicer arietinum L.)-an important legume crop cultivated in arid and semiarid regions-has limited genetic diversity. Efforts are being undertaken to broaden its diversity by utilizing its wild relatives, which remain largely unexplored. Here, we present the Cicer super-pangenome based on the de novo genome assemblies of eight annual Cicer wild species. We identified 24,827 gene families, including 14,748 core, 2,958 softcore, 6,212 dispensable and 909 species-specific gene families. The dispensable genome was enriched for genes related to key agronomic traits. Structural variations between cultivated and wild genomes were used to construct a graph-based genome, revealing variations in genes affecting traits such as flowering time, vernalization and disease resistance. These variations will facilitate the transfer of valuable traits from wild Cicer species into elite chickpea varieties through marker-assisted selection or gene-editing. This study offers valuable insights into the genetic diversity and potential avenues for crop improvement in chickpea.

A Study on the Impacts of Fertilizer Crisis on Paddy Cultivation in Five Selected Divisional Secretariat Divisions of Trincomalee District During Maha 2021/22

Rice is one of the most important cereal crops in the world. With population growth, farmers have to increase paddy production to meet existing as well as future demand. Fertilizer is the major input in rice production. Growth and yield traits of rice are affected by improper and imbalanced application of plant nutrients. Hence, suitable practices of adequate rate and timing of fertilizer application are needed to increase the rice yield. In May 2021, Imports & Exports (Control) Regulation No 07 of 2021 was issued, banning the importation of chemical fertilizers, pesticides, & herbicides in Sri Lanka. Low fertility of paddy soil created the need for adequate and constant supply of chemical fertilizers in paddy cultivation, which is a major threat to production and endangers the national food security and economy of Sri Lanka, especially in the major cropping season of Maha 2021/22. Therefore, a questionnaire survey was conducted to investigate the impact of the fertilizer crisis in major paddy-cultivating Divisional Secretariat divisions of the Trincomalee district. The random sampling method was used to select respondents for the survey, and the collected data were statistically analyzed by SPSS version 26.0 software. The results revealed that the majority of the farmers experienced a 50% yield reduction compared to the last cropping season of Maha 2020/21 in the entire five DS divisions. The seedling stage was highly affected during the fertilizer crisis in paddy cultivation in all five DS divisions. Further, the cost of production in paddy cultivation increased by more than 50% during the fertilizer crisis compared to the cost involved in Maha 2020/21. The potential for organic manure production is very poor, while the majority of farmers are interested in adopting the sustainable farming system of the Integrated Plant Nutrient System through the judicious application of chemical and organic fertilizers received on a subsidy basis, according to the present government’s fertilizer policy, which emphasizes 70% of inorganic fertilizers and 30% of organic manure application to improve sustainability in paddy cultivation in the country.