Search Results (84)

Salt stress severely limits the growth and ornamental value of pecan (Carya illinoinensis) in salinized regions, yet the transcriptional mechanisms underlying its stress adaptation remain unclear. In this study, a comprehensive genomic analysis of the GRAS transcription factor family identified 58 CiGRAS genes in pecan. These genes were classified into 11 subfamilies and showed conserved motifs and gene structures, with variation in promoter cis-elements suggesting diverse regulatory functions. Chromosomal distribution and duplication analysis indicated that whole-genome and dispersed duplication events were the main drivers of CiGRAS expansion. Transcriptome data revealed tissue-specific expression and strong responsiveness to salt and other stresses. Under 0.6% NaCl treatment, several CiGRAS genes were significantly upregulated, especially at 48 h. Gene co-expression analysis further highlighted GRAS-enriched modules associated with redox regulation and stress signaling. qRT-PCR validation confirmed time-specific induction of seven CiGRAS genes under salt stress. These findings provide insights into the evolutionary dynamics and stress-related roles of CiGRAS genes and offer candidate regulators for improving pecan salt tolerance in ecological greening and landscape applications. Full article

A simple and fast analytical method was developed and applied to assess the effect of two forms of zinc fertilization on a pecan tree cultivar in Uruguay: fertigation and foliar application with a specially formulated fertilizer. Zinc content was determined in 36 leaf samples from two crop cycles: 2020–2021 and 2021–2022. Fresh samples were dried, ground, and sieved. Analytical determinations were performed by flame atomic absorption spectrometry (FAAS, considered a standard method) and energy dispersive X-ray spectrometry (EDXRF, the proposed method). In the first case, sample preparation was carried out by microwave-assisted digestion using 4.5 mol L⁻¹ HNO₃. In the second case, pellets (Φ 13 mm, 2–3 mm thick) were prepared by direct mechanical pressing. Figures of merit of both methodologies were adequate for the purpose of zinc monitoring. The results obtained from both methodologies were statistically compared and found to be equivalent (95% confidence level). Based on the principles of Green Analytical Chemistry, both procedures were evaluated using the Analytical Greenness Metric Approach (AGREE and AGREEprep) tools. It was concluded that EDXRF was notably greener than FAAS and can be postulated as an alternative to the standard method. The information emerging from the analyses aided decision-making at the agronomic level. Full article

Background: Soil degradation and nutrient depletion critically impact pecan (Carya illinoinensis) production, reducing yield and soil fertility. Colloidal nutrition, a novel approach involving nano-scale nutrient formulations, could offer potential for soil restoration. Aim: This study aimed to assess the impact of colloidal nutrition on key physical, chemical, and biological soil health parameters in pecan tree cultivation. Methods: Soil from two orchards with 30-year-old pecan trees was used where different nutrition treatments were applied: conventional and colloidal. The variables considered included physical, chemical, and biological properties for the assessment of soil health indicators. Results: The colloidal treatment showed low salinity (2020: 2.04; 2021: 0.88 dS/m) and higher levels of humic acids (1.52 g C/100 g soil), available water depth (2020: 305.11, 2021: 350.00 m³/ha), and soil organic matter (2020: 2.10%; 2021: 2.11%). Furthermore, 6 of the 17 phytopathogens that were examined were not detected in the colloidal treatment. Conclusions: This study enhanced our understanding of the improvements that colloidal treatment could potentially provide to the physical, chemical, and biological aspects of soil health in pecan orchards. Full article

Xyloglucan endotransglucosylases/hydrolases (XTHs) are key enzymes involved in cell wall remodeling by modifying xyloglucan–cellulose networks, thereby influencing plant growth, development, and secondary cell wall formation. While the roles of XTHs have been extensively studied in primary and secondary growth, their functions in the formation and thickening of lignified nut shells remain largely unknown. Pecan (Carya illinoinensis), an economically important nut crop, develops a hard, lignified shell that protects the seed during fruit maturation. In this study, we performed a comprehensive genome-wide characterization of the XTH gene family in pecan and identified 38 XTH genes, which were categorized into four distinct phylogenetic groups. Structural analyses of the deduced proteins revealed conserved catalytic residues alongside divergent loop regions, suggesting functional diversification. Expression profiling across various tissues and among pecan cultivars with contrasting shell phenotypes indicated that specific XTH genes may play critical roles in shell structure formation. Moreover, gene regulatory networks in thin- and thick-shelled pecans provided new insights into the molecular mechanisms underlying shell development and thickness regulation. These findings lay a foundation for future genetic improvement strategies targeting nut shell traits in woody perennials. Full article

Carya illinoinensis is a relatively water-tolerant species widely planted in areas with high flood risk. Evaluating its adaptation strategies and tolerance thresholds is crucial for ecological restoration in the context of climate change. In this study, five treatments were applied to 1-year-old C. illinoinensis seedlings in a potting simulation experiment: T1 (field capacity: 75%), T2 (5 cm below the root collar), T3 (up to the root collar), T4 (10 cm above the root collar), and T5 (30 cm above the root collar). The flooding episode lasted for 4 months and was followed by a recovery period of 6 months. The results show that, at the end of flooding, total biomass (TB), stem-mass ratio (SMR), malondialdehyde (MDA), soluble protein (SP), superoxide dismutase (SOD), and catalase (CAT) were significantly increased in all the flooded groups (T2–T5) compared to the control (T1), while the root-to-shoot ratio (RSR), root-to-mass ratio (RMR), leaf-to-mass ratio (LMR), and leaf-mass fraction (LMF) were significantly decreased. Although survival in the high stress group (T5) temporarily decreased to 83.3% (T1–T4 remained 100%), survival in all treatment groups fully recovered (100%) after recovery. Significant decreases (p < 0.001) were observed when comparing post-recovery to end-flooding levels within each flooded group (T2–T5), with reductions ranging: LMR (21.0–30.8%), REL (14.0–26.7%), MDA (16.1–25.3%), SP (42.2–67.3%), SOD (27.6–49.8%), and CAT (47.0–61.3%) across treatments. At this time, T5 showed lower TB and higher MDA, soluble sugars (SS), and SP compared to T1. PCA analysis indicated that the damage ranked as T5 > T4 > T3 > T2 > T1 at the end of flooding, and as T5 > T1 > T4 > T3 > T2 at the end of recovery. Therefore, it could be concluded that 1-year-old C. illinoinensis exhibits high flooding tolerance, with self-recovery thresholds below the T5 treatment, making it suitable for ecological restoration in flood-prone areas. Full article

Drought severely affects the growth and production of pecan (Carya illinoinensis), while genes conferred drought adaptation are yet to be fully elucidated. Here, an in-depth exploration of the two different RNA-seq projects regarding drought stress (designated as P1 and P2) was performed via weighted gene co-expression network analysis. For the two projects, there existed one pair of modules (P1 turquoise module and P2 blue module) that was probably associated with drought resistance, as the paired modules both exhibited an increased expression profile with increasing water shortage stress and were annotated to be involved in oxidative stress response and the signaling pathways of abscisic acid and jasmonic acid. There were 441 and 1258 hub genes in the P1 turquoise module and P2 blue module, respectively, among which, 140 were overlapped and thus were recognized as core drought responsive genes. An additional drought stress experiment was conducted for RT-qPCR validation, and the results showed that the 20 core genes selected for detection were highly responsive to water deficit. Together, our results will be helpful for understanding the molecular mechanism of drought response and improving drought resistance in pecan. Full article

Pecan (Carya illinoinensis) is a world-renowned nut crop that is highly favored by consumers for its high content of healthy nutrients. For a long time, anthracnose has severely threatened the yield and quality of pecan, causing significant economic losses to the global pecan industry. Here, we report the 54.57-Mb gapless chromosome-level assembly of the pathogenic ascomycetes Colletotrichum plurivorum isolate W-6 from pecan plantations in Southeast China. Six of 12 chromosomes contain, at least, telomeric repeats (CCCTAA)n or (TTAGGG)n at one end. A total of 14,343 protein-coding genes were predicted. Pathogenicity- and virulence-related annotations revealed 137 to 4558 genes associated with the TCDB, PHI, Cyt_P450, DFVF, effector, and secretome databases, respectively. A comparative analysis of isolate W-6, together with 51 other Colletotrichum strains, reveled 13 genes unique to the Orchidearum complex to which isolate W-6 belongs, highlighting the major facilitator superfamily transporters. The detailed analyses of MFS transporters associated with secondary metabolite gene clusters in isolate W-6 led to the identification and protein structure analyses of two key virulence factor candidates in DHA1 subclass, prlG and azaK, which were reported as efflux transporters of antibiotics in other pathogenic fungi. The assembly and further functional investigation of two pathogenic genes identified here potentially provide important resources for better understanding the biology and lifestyle of Colletotrichum and pave the way for designing more efficient strategies to control anthracnose in pecan plantations. Full article

Carya dabieshanensis is a species of significant economic value due to its unique flavor and nutritional properties as a snack food, as well as its durable wood, which is highly suitable for furniture production. Known for its remarkable adaptability to environmental stress, this species serves as a valuable genetic resource for enhancing hickory cultivars. However, its restricted distribution and limited availability of high-quality germplasm have impeded large-scale cultivation and hindered industry development. While the genetic diversity and genomic basis of its environmental adaptation hold great promise for future breeding programs, no studies to date have utilized SNP markers to explore its genetic diversity or the genomic mechanisms underlying environmental adaptability. In this study, we analyzed 60 samples from 12 natural populations of C. dabieshanensis, representing its global distribution. Using the Carya illinoinensis (Wangenh. and K. Koch) genome as a reference, we employed Specific Locus Amplified Fragment Sequencing (SLAF-seq) to generate high-quality SNP data. By integrating population and landscape genomics approaches, we investigated the genetic structure and diversity of wild populations and identified key environmental factors driving genetic differentiation. Our population genomics analysis revealed 9,120,926 SNP markers, indicating substantial genetic diversity (π = 1.335 × 10⁻³ to 1.750 × 10⁻³) and significant genetic differentiation among populations (F_ST = 0.117–0.354). Landscape genomics analysis identified BIO3 (Isothermality), BIO6 (Min Temperature of Coldest Month), and BIO14 (Precipitation of Driest Month) as critical environmental factors shaping genetic diversity. This study provides essential insights into the genetic resources of C. dabieshanensis, facilitating the development of climate-resilient cultivars and offering a scientific foundation for the conservation and sustainable management of its wild populations. Full article

Fresh pecans are increasingly popular for their sweet taste and high nutritional value. To facilitate their commercialization, it is crucial to screen the proper moisture content for efficient mechanical shelling while retaining nutritional quality and finding a reasonable packaging method for storage. This study compared the mechanical shelling efficiencies of fresh pecans with different moisture contents via a standardized evaluation system used by the U.S. Department of Agriculture for over 70 years. The results indicated that pecans dried for 24 h (17.51% moisture, wet basis) achieved the highest mechanical shelling efficiency with the lowest kernel shoulders damaged (DSh%, 31.7%), shortest separation time (10.67 min·kg⁻¹), and highest rate of complete halves (CH, 91.6%). Compared with dried pecans, fresh pecans had a lighter testa color (L*, 55.05), higher 2,2-Diphenyl-1-picrylhydrazyl (DPPH, 18.88 μg TE·g⁻¹) and 2,2′-Azino-bis (3-ethylbenzothiazoline-6-sulphonic acid) diammonium salt (ABTS, 87.15 μmol TE·g⁻¹), free-radical scavenging activity, and lower acid values (AV, 0.21 mg·g⁻¹) and peroxide values (PV, 0.003 mg·g⁻¹). Aluminum film packaging with vacuum (ALV) best preserved the quality of fresh pecans during 9 months of storage, as indicated by the acid and peroxide values. The results of this study provided a first report for the industrialization of fresh pecans. Full article

Calcium-dependent protein kinases (CDPKs) are crucial for plant development and stress responses. In this study, we performed a comprehensive genomic analysis of the CDPK gene family in pecan (Carya illinoinensis) and evaluated their potential roles in salt stress responses. A total of 31 CiCDPK genes were identified and classified into four subgroups through phylogenetic analysis. Structural and promoter analyses revealed conserved motifs and regulatory elements linked to stress responses. Gene duplication analysis showed that WGD and DSD events were primary drivers of CiCDPK expansion, shaped by purifying selection. GO and KEGG annotations highlighted roles in kinase activity, calcium binding, and signal transduction, while interaction networks suggested involvement in ROS regulation and ATP-dependent phosphorylation. Tissue-specific expression patterns indicated distinct roles of CiCDPKs, with CiCDPK20 and CiCDPK31 predominantly expressed in male flowers and seeds, respectively. Transcriptome data showed that CiCDPKs exhibited distinct responses to abiotic and biotic stress, highlighting their functional specialization under various conditions. qRT-PCR analysis further confirmed the involvement of 16 CiCDPKs in salt stress adaptation, supporting their critical roles in signal transduction pathways during salinity stress. This study provides insights into CiCDPK functions, offering potential applications in breeding pecan varieties with enhanced salt tolerance. Full article

This study investigates the incorporation of melanin extracted from pecan nutshell residues into a polyacrylonitrile (PAN) matrix during the electrospinning of microfiber membranes. Melanin concentrations of 0.5, 2.0, and 5.0% w/w were incorporated to enhance the physicochemical and biological properties of the fibers. The melanin-loaded PAN fibers exhibited significant antioxidant activity against DPPH and ABTS radicals, with scavenging rates ranging from 46.58% to 62.77% and 41.02% to 82.36%, respectively, while unmodified PAN fibers showed no activity. Furthermore, the melanin-loaded membranes demonstrated antimicrobial effects. The membranes also exhibited an important enzyme inhibition activity against collagenase (37%), hyaluronidase (22%), tyrosinase (36%), and elastase (33%). Molecular docking studies reveal different potential amino acids of the active sites of aging enzymes that interact strongly with melanin pigment, particularly collagenase, followed by hyaluronidase, tyrosinase, and elastase. These results suggest that the novel melanin-loaded PAN membranes possess promising bioactive properties with potential applications in different skin-care applications. Full article

Within the U.S., there is a growing need to integrate environmentally friendly practices into conventional agriculture. Agroforestry enhances environmental and resource stewardship in agricultural landscapes while offering potential economic benefits to farmers. Despite rising interest, limited information on its application in the U.S. hinders development efforts. A spatiotemporal analysis of current farm operations can provide crucial insights. This study examined patterns of agroforestry and tree crop adoption in the U.S. Corn Belt using USDA Census data (2012, 2017, and 2022) and spatial tools (Global Moran’s I, Local Moran’s I, and Moran scatterplots). The tree crops included in the analysis were chestnut (Castanea spp.), hazelnut (Corylus spp.), improved northern pecan (Carya illinoinensis), elderberry (Sambucus spp.), and pawpaw (Asimina triloba). The results showed increasing farm operations with agroforestry and tree crops over time for all census periods. Agroforestry had the strongest spatial cluster patterns, with Local Moran’s I revealing R2 values rising from 0.30 to 0.35 between 2017 and 2022. Chestnut, hazelnut, and improved pecan had clustered spatial patterns, but had decreasing spatial autocorrelations from 2012 to 2022, while elderberry clustered in 2017 but not 2022. This study reveals an upward trend in agroforestry adoption and the spatial expansion of certain tree crops in the U.S. Corn Belt, highlighting potential for region-specific agroforestry development. The findings offer insights to guide strategies and programs supporting sustainable agricultural practices. Full article

Pecan (Carya illinoinensis), a globally economically significant dried fruit and woody oil tree, faces significant challenges in production and nut quality due to the rampant outbreak of severe fungal diseases. From 2020 to 2021, an extensive occurrence of a disease resembling gray mold was observed on the leaves and fruits of pecan trees in Jiangsu Province, China. Upon isolation from symptomatic samples, Botrytis cinerea was identified through morphological analysis and phylogenetic studies of the G3PDH, HSP60, and RPB2 gene sequences. Furthermore, pathogenicity tests conclusively attributed the gray mold disease observed on pecan leaves and fruits to B. cinerea. To the best of our knowledge, this is the first time that B. cinerea has been reported on pecans. These findings thus provide a basis for further research on the management of pecan gray mold. Full article

Plant oils are a large group of neutral lipids that play a vital role in the food and oleochemical industries. The pecan (Carya illinoinensis) is a promising woody oil crop known for its high-quality sources of essential fatty acids and various bioactive compounds that may aid in preventing heart diseases. However, there is still a lack of understanding regarding the accumulation of lipids and the molecular mechanism of lipid biosynthesis during seed development. This study aims to analyze the metabolite variations and molecular mechanisms of lipid biosynthesis by integrating untargeted metabolomics and transcriptomics during pecan seed development. A total of 293 differentially accumulated metabolites were identified and further categorized into 13 groups, with lipids and lipid-like molecules constituting the largest group. The oil content and fatty acid compositions of pecan embryos were assessed at three stages of seed development. Oleic acid (c18:1) and linoleic acid (c18:2n6) were found to be the most abundant unsaturated fatty acid components in pecan embryos. Additionally, a comprehensive analysis revealed 15,990 differentially expressed genes, with a focus on the key genes related to lipid metabolism. Furthermore, the study identified 1201 transcription factors from differentially expressed genes. These transcription factors were divided into 65 families, with different members in the same family exhibiting different expression patterns during seed development. The expression patterns of ten transcription factor genes during seed development were verified by qRT–PCR. Two key genes, CiABI3 and CiFUS3 were further cloned and found to be localized in the nucleus. This study used metabolome and transcriptome analysis during key periods of pecan seed development to identify the key genes associated with seed development and fatty acid biosynthesis. Full article

Pecan seed oil is a valuable source of essential fatty acids and various bioactive compounds; however, the functions of microRNAs and their targets in oil biosynthesis during seed development are still unknown. Here, we found that the oil content increased rapidly in the three early stages in three cultivars, and that oleic acid was the predominant fatty acid component in the mature pecan embryos. We identified, analyzed, and validated the expression levels of miRNAs related to seed development and oil biosynthesis, as well as their potential target genes, using small RNA sequencing data from three stages (120, 135, and 150 days after flowering). During the seed development process, 365 known and 321 novel miRNAs were discovered. In total, 91 known and 181 novel miRNAs were found to be differentially expressed, and 633 target genes were further investigated. The expression trend analysis revealed that the 91 known miRNAs were classified into eight groups, approximately two-thirds of which were up-regulated, whereas most novel miRNAs were down-regulated. The qRT–PCR and degradome sequencing data were used to identify five miRNA- target pairs. Overall, our study provides valuable insights into the molecular regulation of oil biosynthesis in pecan seeds. Full article