Fruit Development Research Articles

Tracing the color: quantitative trait loci analysis reveals new insights into red-flesh pigmentation in apple (Malus domestica).

Red-flesh color development in apple fruit is known to depend upon a particular allele of the MdMYB10 gene. While the anthocyanin metabolic pathway is well characterized, current genetic models do not explain the observed variations in red-flesh pigmentation intensity. Previous studies focused on total anthocyanin content as a phenotypic trait to characterize overall flesh color. While this approach led to a global understanding of the genetic mechanisms involved in color expression, it is essential to adopt a more quantitative approach, by analyzing the variations of other phenolic compound classes, in order to better understand the molecular mechanisms involved in the subtle flesh color variation and distribution. In this study, we performed pedigree-based quantitative trait loci (QTL) mapping, using the FlexQTL™ software, to decipher the genetic determinism of red-flesh color in five F1 inter-connected families segregating for the red-flesh trait. A total of 452 genotypes were evaluated for flesh color and phenolic profiles during 3years (2021-2023). We identified a total of 24 QTLs for flesh color intensity and phenolic compound profiles. Six QTLs were detected for red-flesh color on LG1, LG2, LG8, LG9, LG11, and LG16. Several genes identified in QTL confidence intervals were related to anthocyanin metabolism. Further analyses allowed us to propose a model in which the competition between anthocyanins and flavan-3-ols (monomer and oligomer) end-products is decisive for red-flesh color development. In this model, alleles favorable to high red-flesh color intensity can be inherited from both white-flesh and red-flesh parents.

Modelación de crecimiento de frutos de tangor murcott e incidencia de factores medioambientales sobre los parámetros estimados

Fruit production forecasts are a tool to plan the harvest and improve market strategies. To carry it out, it is essential to have information about the behavior of fruit development over time. The objective of this work was to find the mathematical-statistical model that best describes the growth pattern of tangor murcott fruit (Citrus reticulata x C. sinensis 'Murcott') and analyze how it is affected by environmental conditions. For this, in nine orchards, located in four locations in the province of Corrientes, Argentina, the equatorial diameter of 2,053 fruit from 82 days after full flowering to harvest were periodically registered during five seasons. The nonlinear models were compared: Logistic, Gompertz, Brody, Von Bertalanffy, Weibull, Morgan Mercer Flodin (MMF), Richards, and their respective re-parameterizations. The magnitudes of nonlinearity measures, coefficient of determination and estimates of residual deviation were considered as the main goodness-of-fit criteria. The selected model-parameterization combination was the fifth parameterization of the Logistic model with random effects on its three parameters. An Analysis of Variance model on the estimates of these parameters for each fruit showed that orchard and season factors were an important source of variability, mainly in those related to the initial size of the fruit and their growth rate. These results will allow the construction of growth tables, which in addition to making yield predictions, can be used to estimate fruit size distribution at harvest and improve the cultural practice of manual fruit thinning.

Fruit quality, antioxidant, and mineral attributes of pomegranate cv. Ghojagh, influenced by shading and spray applications of potassium sulfate and sodium silicate

Pomegranate (Punica granatum L.) fruit quality depends on many traits including visual, biochemical and mineral characteristics. One of the negative traits is aril whitening (AW) which is a frequently observed disorder in hot and dry climates, that leads to decline in desirable fruit quality. Color, antioxidant, and mineral contents of the arils are of prime importance as quality traits. Therefore, this study aims to investigate the effect of shading and foliar minerals on fruit quality during the fruit development stages of pomegranate. Treatments included shaded (50% green net) and unshaded trees and foliar application of trees with potassium sulfate (K, 1% and 2%) or sodium silicate (Si, 0.05, 0.1 and 0.15%) during two growing seasons. Results showed that the severity of AW at harvest decreased significantly when trees were covered with shading compared to control. The color values of L* and ⁰hue for arils were lower in fruits grown under shading conditions indicating darker red arils. Shading significantly reduced chilling injury in cold storage compared to open field fruits. Shading and Si 0.15% increased superoxide dismutase, and catalase enzymes activity while decreased Polyphenol oxidase and peroxidase. Covering trees with shading and Si 0.15% spray resulted in the highest total anthocyanin, antioxidant activity, and total phenolics content in the arils. Shading as well as Si 0.15% increased macronutrients content of the arils. The study concluded that covering pomegranate trees and spraying with Si in hot climate reduced AW, increased antioxidant traits, and led to higher fruit quality.

The Biosynthesis Pattern and Transcriptome Analysis of Sapindus saponaria Oil.

The Sapindus saponaria (soapberry) kernel is rich in oil that has antibacterial, anti-inflammatory, and antioxidant properties, promotes cell proliferation, cell migration, and stimulates skin wound-healing effects. S. saponaria oil has excellent lubricating properties and is a high-quality raw material for biodiesel and premium lubricants, showing great potential in industrial and medical applications. Metabolite and transcriptome analysis revealed patterns of oil accumulation and composition and differentially expressed genes (DEGs) during seed development. Morphological observations of soapberry fruits at different developmental stages were conducted, and the oil content and fatty acid composition of the kernels were determined. Transcriptome sequencing was performed on kernels at 70, 100, and 130 days after flowering (DAF). The oil content of soapberry kernels was lowest at 60 DAF (5%) and peaked at 130 DAF (31%). Following soapberry fruit-ripening, the primary fatty acids in the kernels were C18:1 (oleic acid) and C18:3 (linolenic acid), accounting for an average proportion of 62% and 18%, respectively. The average contents of unsaturated fatty acids and saturated fatty acids in the kernel were 86% and 14%, respectively. Through the dynamic changes in fatty acid composition and DEGs analysis of soapberry kernels, FATA, KCR1, ECR, FAD2 and FAD3 were identified as candidate genes contributing to a high proportion of C18:1 and C18:3, while DGAT3 emerged as a key candidate gene for TAG biosynthesis. The combined analysis of transcriptome and metabolism unveiled the molecular mechanism of oil accumulation, leading to the creation of a metabolic pathway pattern diagram for oil biosynthesis in S. saponaria kernels. The study of soapberry fruit development, kernel oil accumulation, and the molecular mechanism of oil biosynthesis holds great significance in increasing oil yield and improving oil quality.

Volatile metabolomics and transcriptomics analyses provide insights into the mechanism of volatile changes during fruit development of 'Ehime 38' (Citrus reticulata) and its bud mutant.

Volatile compounds are important determinants affecting fruit flavor. Previous study has identified a bud mutant of 'Ehime 38' (Citrus reticulata) with different volatile profile. However, the volatile changes between WT and MT during fruit development and underlying mechanism remain elusive. In this study, a total of 35 volatile compounds were identified in the pulps of WT and MT at five developmental stages. Both varieties accumulated similar and the highest levels of volatiles at stage S1, and showed a downward trend as the fruit develops. However, the total volatile contents in the pulps of MT were 1.4-2.5 folds higher than those in WT at stages S2-S5, which was mainly due to the increase in the content of d-limonene. Transcriptomic and RT-qPCR analysis revealed that most genes in MEP pathway were positively correlated with the volatile contents, of which DXS1 might mainly contribute to the elevated volatiles accumulation in MT by increasing the flux into the MEP pathway. Moreover, temporal expression analysis indicated that these MEP pathway genes functioned at different developmental stages. This study provided comprehensive volatile metabolomics and transcriptomics characterizations of a citrus mutant during fruit development, which is valuable for fruit flavor improvement in citrus.

YABBY transcription factor family in the octoploid Fragaria × ananassa and five diploid Fragaria species.

YABBY genes encode specific TFs of seed plants involved in development and formation of leaves, flowers, and fruit. In the present work, genome-wide and expression analyses of the YABBY gene family were performed in six species of the Fragaria genus: Fragaria × ananassa, F.daltoniana, F.nilgerrensis, F.pentaphylla, F.viridis, and F.vesca. The chromosomal location, synteny pattern, gene structure, and phylogenetic analyses were carried out. By combining RNA-seq data and RT-qPCR analysis we explored specific expression of YABBYs in F. × ananassa and F.vesca. We also analysed the promoter regions of FaYABBYs and performed MeJA application to F. × ananassa fruit to observe effects on gene expression. We identified and characterized 25 YABBY genes in F. × ananassa and six in each of the other five species, which belong to FIL/YAB3 (YABBY1), YAB2 (YABBY2), YAB5 (YABBY5), CRC, and INO clades previously described. Division of the YABBY1 clade into YABBY1.1 and YABBY1.2 subclades is reported. We observed differential expression according to tissue, where some FaYABBYs are expressed mainly in leaves and flowers and to a minor extent during fruit development of F. × ananassa. Specifically, the FaINO genes contain jasmonate-responsive cis-acting elements in their promoters which may be functional since FaINOs are upregulated in F. × ananassa fruit under MeJA treatment. This study suggests that YABBY TFs play an important role in the development- and environment-associated responses of the Fragaria genus.

Involvement of the tomato BBX16 and BBX17 microProteins in reproductive development

BBXs are B-Box zinc finger proteins that can act as transcription factors and regulators of protein complexes. Several BBX proteins play important roles in plant development. Two Arabidopsis thaliana microProteins belonging to the BBX family, named miP1a and miP1b, homotypically interact with and modulate the activity of other BBX proteins, including CONSTANS, which transcriptionally activates the florigen, FLOWERING LOCUS T. Arabidopsis plants overexpressing miP1a and miP1b showed delayed flowering. In tomato, the closest homologs of miP1a and miP1b are the microProteins SlBBX16 and SlBBX17. This study was aimed at investigating whether the constitutive expression of SlBBX16/17 in Arabidopsis and tomato impacted reproductive development. The heterologous expression of the two tomato microProteins in Arabidopsis caused a delay in the flowering transition; however, the effect was weaker than that observed when the native miP1a/b were overexpressed. In tomato, overexpression of SlBBX17 prolonged the flowering period; this effect was accompanied by downregulation of the flowering inhibitors Self Pruning (SP) and SP5G. SlBBX16 and SlBBX17 can hetero-oligomerize with TCMP-2, a cystine-knot peptide involved in flowering pattern regulation and early fruit development in tomato. The increased expression of both microProteins also caused alterations in tomato fruit development: we observed in the case of SlBBX17 a decrease in the number and size of ripe fruits as compared to WT plants, while for SlBBX16, a delay in fruit production up to the breaker stage. These effects were associated with changes in the expression of GA-responsive genes.

Identification and Comprehensive Analysis of OFP Genes for Fruit Shape Influence in Mango.

OVATE family proteins (OFPs) are a class of plant-specific proteins with a conserved OVATE domain that play fundamental roles in fruit development and plant growth. Mango (Mangifera indica L.) is an economically important subtropical fruit tree characterized by a diverse array of fruit shapes and sizes. Despite extensive research on OFPs across various species, there remains a scarcity of information regarding OFPs in mango. Here, we have successfully identified 25 OFP genes (MiOFPs) in mango, each of which exhibits the conserved OVATE domains. The MiOFP gene exhibit a range of 2-6 motifs, with all genes containing both motif 1 and motif 2. Phylogenetic analysis on 97 OFPs (including 18 AtOFPs, 24 SlOFPs, 25 MiOFPs, and 30 OsOFPs) indicated that MiOFPs could be divided into three main clades: clade I, II, and III. Comparative morphological analysis identified significant variations in fruit longitudinal diameter, fruit transverse diameter, and fruit shape index between two distinct shaped mango cultivars ('Hongxiangya' and 'Jingpingmang') at DAP5, DAP7, and DAP10 stages. The subsequent examination of paraffin sections revealed distinct patterns of cell elongation. The majority of MiOFP genes exhibited predominantly expressed in developing organs, specifically flowers and immature fruits, while displaying distinct expression patterns. RNA-Seq analysis revealed significant disparities in the expression levels of several OFP genes, including MiOFP5, MiOFP11, MiOFP21, MiOFP22, MiOFP23, and MiOFP25, between the two mango cultivars. These findings suggest that these six genes may play a crucial role for fruit shape in mango, especially the MiOFP22. The findings of this study have established a basis for future investigations into MiOFPs in mango, offering a solid foundation for further research in this field.

Comparison of the physicochemical properties and biological compounds of acerola fruit varieties grown in Vietnam through the various maturation stages

The objective of the present study was to find the changes in physicochemical properties, bioactive compounds, and antioxidant activity of acerola fruits under different cultivars (i.e., Brazilian acerola (Malpighia emarginata D.C) and sour acerola (Malpighia glabra L.)) and maturation stages (unripe, half-ripe, and ripe). For any species, the study found an increase in total soluble solid and a* value, whereas there was a decrease in the content of bioactive compounds (i.e., polyphenols, flavonoids, vitamin C), total acidity, and antioxidant activity, which followed the maturation development of fruits. Briefly, the unripe acerola fruits (Brazillan cultivar) were an excellent source of vitamin C (32.97 mg/g) and phenolic content (25.62 mg GAE/g).

The gapless genome assembly and multi-omics analyses unveil a pivotal regulatory mechanism of oil biosynthesis in the olive tree.

Olive is a valuable oil-bearing tree with fruits containing high levels of fatty acids. Oil production is a multifaceted process involving intricate interactions between fatty acid biosynthesis and other metabolic pathways that are affected by genetics and the developmental stages of the fruit. However, a comprehensive understanding of the underlying regulatory mechanisms is still lacking. Here, we generated a gap-free telomere-to-telomere assembly for Olea europaea cv. 'Leccino', representing an olive genome with the highest contiguity and completeness to date. The combination of time-course metabolomics and transcriptomics datasets revealed a negative correlation between fatty acid and flavonoid biosynthesis in the initial phase of olive fruit development, which was subject to an opposing regulatory mechanism mediated by the hub transcription factor MYC2. Multifaceted molecular assays demonstrated that MYC2 is a repressor of fatty acid biosynthesis by downregulating the expression of BCCP2 (biotin carboxylase carrier protein 2), while it acts as an activator of FLS (flavonol synthase), leading to an increase in flavonoid synthesis. Furthermore, the expression of MYC2 is regulated by fluctuations of methyl jasmonate content during olive fruit development. Our study completes a high-quality gapless genome of an olive cultivar, and provides new insight into the regulatory mechanisms underlying the biosynthesis of fatty acids and flavonoids in its fruit.

Roles of non‐visible light and temperature in the regulation of anthocyanin synthesis in fruits and vegetables

AbstractThe depletion of the ozone layer creates a gate for non‐visible spectra to impact the Earth's surface and interfere with fruit and vegetable growth and developments by affecting their morphology and physiology. The potential contribution of visible light to photosynthetic activity has received significant attention, particularly blue and red/far‐red light in the visible spectrum. However, plants are also inevitably exposed to relatively high doses of non‐visible spectra, including ultraviolet (UV) and infrared (IR) radiation. This review examines the literature on the impact of such non‐visible spectra on fruit and vegetable growth and development. The accumulation of radiation‐absorbing compounds is a primary mechanism of acclimation to changing radiation levels. Anthocyanins are compounds that exhibit high sensitivity to UV and IR radiation as well as temperature variations, playing a crucial protective role against detrimental radiation in plants. Current research helps to elucidate the involvement of low and high temperatures in the control of UVB‐induced anthocyanin accumulation. Different UV radiation types have been shown to affect fruit and vegetable growth and pigment content differentially. Recent studies have also revealed that IR radiation increases anthocyanin content. Furthermore, specific non‐visible spectra mitigate the inhibitory effect of high and low temperature stress on anthocyanin accumulation in fruits and vegetables. These findings have important implications for the horticultural industry, as they suggest that the application of specific of non‐visible light spectra could be a promising approach to increasing the nutritional value and marketability of fruits and vegetables.

The jacktree genome and population genomics provides insights for the mechanisms of the germination obstacle and the conservation of endangered ornamental plants.

Sinojackia Hu represents the first woody genus described by Chinese botanists, with all species classified as endangered ornamental plants endemic to China. Their characteristic spindle-shaped fruits confer high ornamental value to the plants, making them favored in gardens and parks. Nevertheless, the fruits likely pose a germination obstacle, contributing to the endangered status of this lineage. Here we report the chromosome-scale genome of S. xylocarpa, and explore the mechanisms underlying its endangered status, as well as its population dynamics throughout evolution. Population genomic analysis has indicated that S. xylocarpa experienced a bottleneck effect following the recent glacial period, leading to a continuous population reduction. Examination of the pericarp composition across six stages of fruit development revealed a consistent increase in the accumulation of lignin and fiber content, responsible for the sturdiness of mature fruits' pericarps. At molecular level, enhanced gene expression in the biosynthesis of lignin, cellulose and hemicellulose was detected in pericarps. Therefore, we conclude that the highly lignified and fibrotic pericarps of S. xylocarpa, which inhibit its seed germination, should be its threatening mechanism, thus proposing corresponding strategies for improved conservation and restoration. This study serves as a seminal contribution to conservation biology, offering valuable insights for the study of other endangered ornamental plants.

A New Plant-Wearable Sap Flow Sensor Reveals the Dynamic Water Distribution during Watermelon Fruit Development

This study utilized a plant-wearable sap flow sensor developed by a multidisciplinary team at Zhejiang University to monitor water distribution patterns in watermelon fruit stalks throughout their developmental stages. The dynamic rules of sap flow at different stages of fruit development were discovered: (1) In the first stage, sap flow into the fruit gradually halts after sunrise due to increased leaf transpiration, followed by a rapid increase post-noon until the next morning, correlating with fruit expansion. (2) In the second stage, the time of inflow sap from noon to night is significantly shortened, while the outflow sap from fruit is observed with the enhancement of leaf transpiration after sunrise, which is consistent with the slow fruit growth at this stage. (3) In the third stage, the sap flow maintains the diurnal pattern. However, the sap flow that inputs the fruit at night is basically equal to the sap flow that outputs the fruit during the day; the fruit phenotype does not change anymore. In addition, a strong correlation between the daily mass growth in fruit and the daily sap flow amount in fruit stalk was identified, validating the sensor’s utility for fruit growth monitoring and yield prediction.

Genome-wide analysis of AP2/ERF transcription factors that regulate fruit development of Chinese prickly ash

BackgroundAP2/ERF is a large family of plant transcription factor proteins that play essential roles in signal transduction, plant growth and development, and responses to various stresses. The AP2/ERF family has been identified and verified by functional analysis in various plants, but so far there has been no comprehensive study of these factors in Chinese prickly ash. Phylogenetic, motif, and functional analyses combined with transcriptome analysis of Chinese prickly ash fruits at different developmental stages (30, 60, and 90 days after anthesis) were conducted in this study.ResultsThe analysis identified 146 ZbAP2/ERF genes that could be classified into 15 subgroups. The motif analysis revealed the presence of different motifs or elements in each group that may explain the functional differences between the groups. ZbERF13.2, ZbRAP2-12, and ZbERF2.1 showed high levels of expression in the early stages of fruit development. ZbRAP2-4, and ZbERF3.1 were significantly expressed at the fruit coloring stage (R2 and G2). ZbERF16 were significantly expressed at fruit ripening and expression level increased as the fruit continued to develop. Relative gene expression levels of 6 representative ZbAP2/ERFs assessed by RT-qPCR agreed with transcriptome analysis results.ConclusionsThese genes identified by screening can be used as candidate genes that affect fruit development. The results of the analysis can help guide future genetic improvement of Chinese prickly ash and enrich our understanding of AP2/ERF transcription factors and their regulatory functions in plants.

A high-efficiency method for simultaneous quantitation of bioactive gibberellins in Litchi chinensis using UHPLC-QQQ-MS/MS

Gibberellins (GAs) are a group of phytohormones that have profound and diverse effects on plant growth and development. Within this group, bioactive GAs, including GA1, GA3, GA4, and GA7, play a particularly significant role in regulating these processes. Lychee (Litchi chinensis Sonn.) is a tropical fruit tree native to southern China. Optimization of rapid and precise methods for analyzing bioactive GAs in lychee is crucial to enhance our understanding of the underlying physiological mechanisms of fruit and flower development and to explore its potential industrial applications in this fruit tree. In this study, we developed a high-efficiency method for simultaneous quantitation of bioactive GAs in lychee using ultra-high performance liquid chromatography coupled with triple quadrupole tandem mass spectrometry (UHPLC-QQQ-MS/MS). Ultimately, this method was effectively utilized to quantify the bioactive GAs in various tissues of lychee, including fruits, seeds, and flowers. The developed method exhibited satisfactory recoveries and precision, as well as short chromatographic run time and low limits of detection and quantitation of bioactive GAs in lychee. This protocol provides a valuable method for the characterization of physiological roles and molecular mechanism of GAs in lychee.

Identification and variation of specific volatile compounds during fruit development and postharvest stage in Japanese apricot (Prunus mume Sieb. et Zucc.) fruit

AbstractFruit aroma of Japanese apricot is distinct, and the specific volatile compounds are not clearly known during fruit development and during post‐harvest stage. This study therefore aimed to explore the volatile compounds present during these stages. The volatile compounds were analysed by headspace solid‐phase microextraction and gas chromatography–mass spectrometry. OAV, PCA and electronic nose techniques were used to determine the characteristic aroma components. Enzyme‐linked immunoassay (ELISA) was also applied to determine the activity of enzymes. The results showed that in the cultivars ‘Xiyeqing’ a total of 52 components that included 20 terpenes, 15 aldehydes, 9 esters, 3 ketones and 5 other substances were detected during fruit development and post‐harvest stage. While in the cultivar ‘Xiaoyezhugan’ a total of 49 components that included 25 terpenes, 7 aldehydes, 11 esters, 1 alcohol, 3 ketones and 2 other substances were also detected during fruit development and post‐harvest stage. We concluded that the characteristic volatile compounds of mature Japanese apricot fruit were (+)‐limonene, linalool, damascenone, β‐damascenone and nonanal, finding the basis for the fruity, floral and sweet aroma of the Japanese apricot fruit. Further analysis indicated that low temperature inhibited the synthesis of esters and terpenes, and dark conditions were more favourable to the synthesis of volatile compounds than light conditions. Short‐term storage of Japanese apricot fruit at room temperature and dark conditions was conducive for the maintenance of volatile compounds, and low‐temperature storage was the most destructive to the fruit volatile compounds. These findings form a theoretical foundation for exploring the specific volatile compound of Japanese apricot and helped to determine the optimal storage condition of post‐harvest stage for Japanese apricot fruit.

RNA-seq-based transcriptome profiling of early fruit development in Chieh-qua and analysis of related transcription factors

Chieh-qua (Benincasa hispida Cogn. var. Chieh-qua How.) fruit development starts post pollination. With the continuous expansion of the fruit, the soluble solid content of the fruit decreases. Because there are no reports on the early development of Chieh-qua fruit, this study compared fruit transcriptomes at 0-, 3-, and 7 day post pollination (dpp). 104,747 unigenes were assembled from clean reads and compared using six public databases for similarity searching. Compared with those of 0 dpp (C), there were differences in the expression of 12,982 and 6541 genes in the fruit tissue at 3 dpp and 7 dpp, respectively. Compared with 3 dpp (B), there were 14,314 differentially expressed genes in the fruit at 7 dpp (A). Based on the analysis of transcription factors, 213 nucleotides in the MYB superfamily were identified; among them, 94 unigenes of the MYB superfamily were differentially expressed at the three stages. In the pairwise comparison of differential expression, eight unigenes (Gene_id: TRINITY_DN32880_c1_g2, TRINITY_DN35142_c2_g2, TRINITY_DN32454_c11_g6, TRINITY_DN34105_c2_g7, TRINITY_DN32758_c3_g3, TRINITY_DN33604_c4_g10, TRINITY_DN34466_c3_g1, TRINITY_DN35924_c3_g2) were homologous to those of MYB59, MYB-GT3b, MYB18, MYB4, MYB108, MYB306, MYB340, and MYB-bHLH13. These unigenes differed significantly among the three stages. Furthermore, MYB59 and MYB18 exhibited higher expression at 7 dpp. MYB4, MYB-GT3b, MYB108, and MYB306 showed the highest expression levels in fruits at 3 dpp. In addition, MYB340 and MYB-bHLH13 showed higher expression levels during the unpollinated stage. MYB59, MYB-GT3b, MYB18, MYB4, MYB108, MYB306, MYB340, and MYB-bHLH13 may play crucial roles in Chieh-qua fruit development, defense, and blossoming. This study provides a basis for further investigation of MYB superfamily genes involved in early fruit expansion in chieh-qua.

Unveiling unknown transcripts and exons: Insights into durian var. D24 (Durio zibethinus Murr.) fruit development and ripening

Durian (Durio zibethinus Murr.) plant fruits are popular among Southeast Asians. This study aimed to characterise the gene expression during the growth and development of durian fruit at its young, mature, and ripening stages. We used a high-throughput RNA Sequencing approach to identify and characterise unknown transcripts (UTs) from durian fruit pulp transcriptomes. The categorisation of UTs relied on assessing their coding potential and conducting sequence analysis, followed by thorough manual curation. After mapping, 110 million high-quality reads were analysed for each of the nine samples, revealing that each contains 76,700 to 89,117 distinct transcripts and 561,211 to 646,291 exons. In the present analysis, we emphasised identifying and classifying UTs, disregarding transcripts with accurate annotations. Differential expression analysis identified 280 significant unknown transcripts, presumably involved in various biological functions in durian growth. The top BLASTn comparative analysis results for 183 unknown transcripts (UTs) primarily showed significant homology, ranging from 80 % to 100 %, with transcripts from closely related species within the Malvaceae family, including Bombax ceiba, Gossypium hirsutum, Gossypium raimondii, Herrania umbratica, and Theobroma cacao. Functional annotation showed that many upregulated UTs may encode protein-coding genes involved in cellular and metabolic activities, catalytic and electron transfer activities, cellular and anatomical entities, and protein-containing complexes. Out of 97 UTs that do not have a BLASTn hit, 2 of them match GO terms, TCONS 00034019 and TCONS 00058246, corresponding to the InterPro GO Names, namely P: positive regulation of organ growth (GO:0046622) and F: calcium ion binding (GO:0005509). Three open reading frame (ORF) sequences longer than 300 nucleotides were identified as potential protein-coding genes through SMARTBLAST analysis, showing sequence similarities with Retropepsins, pepsin-like aspartate proteases, DUF4492 domain-containing protein, and a hypothetical protein CTI12_AA006750 in UniProtKB/Swiss-Prot. In conclusion, this study sheds light on the dynamic gene expression patterns during durian fruit development. It highlights the significance of characterising unknown transcripts and their potential roles in biological processes, thus enhancing our understanding of durian genetics.

Optimizing germination: comparative assessment of various growth media on dragon fruit germination and early growth

Dragon fruit (Selenicereus undatus), known for its captivating appearance and remarkable nutritional profile, has garnered considerable attention in recent years. Despite its popularity, there's a dearth of research on optimal conditions for seed germination and early growth stages such as seedling shoot length, which are crucial for optimal crop yield. This study aims to bridge this gap by evaluating various growing media's performance on dragon fruit germination and early growth stages. Dragon fruit seeds were obtained from local markets in Pakistan and evaluated in five different growing media: cocopeat, peat moss, sand, vermiculite, and compost. Germination parameters were observed for 45 days, including seed germination percentage, mean germination time, and mean daily germination percentage, among others while early growth was monitored for 240 days. Statistical analysis was conducted using ANOVA and Tukey’s HSD test. Significant differences were found among the growing media regarding germination percentage, mean germination time, and mean daily germination. Vermiculite exhibited the highest germination rate (93.33%), while compost showed the least (70%). Peat moss and sand media facilitated rapid germination, while compost showed slower rates. Stem length was significantly influenced by the growth media, with compost supporting the longest stems. Vermiculite emerged as the most effective medium for dragon fruit seed germination, while compost showed slower but steady growth. These findings provide valuable insights for optimizing dragon fruit cultivation, aiding commercial growers and enthusiasts in achieving higher yields and quality. Further research could explore additional factors influencing dragon fruit growth and development.

The MdHSC70-MdWRKY75 module mediates basal apple thermotolerance by regulating the expression of heat shock factor genes.

Heat stress severely restricts the growth and fruit development of apple (Malus domestica). Little is known about the involvement of WRKY proteins in the heat tolerance mechanism in apple. In this study, we found that the apple transcription factor (TF) MdWRKY75 responds to heat and positively regulates basal thermotolerance. Apple plants that overexpressed MdWRKY75 were more tolerant to heat stress while silencing MdWRKY75 caused the opposite phenotype. RNA-seq and reverse transcription quantitative PCR showed that heat shock factor genes (MdHsfs) could be the potential targets of MdWRKY75. Electrophoretic mobility shift, yeast one-hybrid, β-glucuronidase, and dual-luciferase assays showed that MdWRKY75 can bind to the promoters of MdHsf4, MdHsfB2a, and MdHsfA1d and activate their expression. Apple plants that overexpressed MdHsf4, MdHsfB2a, and MdHsfA1d exhibited heat tolerance and rescued the heat-sensitive phenotype of MdWRKY75-Ri3. In addition, apple heat shock cognate 70 (MdHSC70) interacts with MdWRKY75, as shown by yeast two-hybrid, split luciferase, bimolecular fluorescence complementation, and pull-down assays. MdHSC70 acts as a negative regulator of the heat stress response. Apple plants that overexpressed MdHSC70 were sensitive to heat, while virus-induced gene silencing of MdHSC70 enhanced heat tolerance. Additional research showed that MdHSC70 exhibits heat sensitivity by interacting with MdWRKY75 and inhibiting MdHsfs expression. In summary, we proposed a mechanism for the response of apple to heat that is mediated by the "MdHSC70/MdWRKY75-MdHsfs" molecular module, which enhances our understanding of apple thermotolerance regulated by WRKY TFs.