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Diabetes mellitus is a multifactorial metabolic disease characterized by post-prandial hyperglycemia (PPHG). α-amylase and α-glucosidase inhibitors aim to explore novel therapeutic agents. Herein we report the promises of Dioscorea bulbifera and its bioactive principle, diosgenin as novel α-amylase and α-glucosidase inhibitor. Among petroleum ether, ethyl acetate, methanol and 70% ethanol (v/v) extracts of bulbs of D. bulbifera, ethyl acetate extract showed highest inhibition upto 72.06 ± 0.51% and 82.64 ± 2.32% against α-amylase and α-glucosidase respectively. GC-TOF-MS analysis of ethyl acetate extract indicated presence of high diosgenin content. Diosgenin was isolated and identified by FTIR, 1H NMR and 13C NMR and confirmed by HPLC which showed an α-amylase and α-glucosidase inhibition upto 70.94 ± 1.24% and 81.71 ± 3.39%, respectively. Kinetic studies confirmed the uncompetitive mode of binding of diosgenin to α-amylase indicated by lowering of both Km and Vm. Interaction studies revealed the quenching of intrinsic fluorescence of α-amylase in presence of diosgenin. Similarly, circular dichroism spectrometry showed diminished negative humped peaks at 208 nm and 222 nm. Molecular docking indicated hydrogen bonding between carboxyl group of Asp300, while hydrophobic interactions between Tyr62, Trp58, Trp59, Val163, His305 and Gln63 residues of α-amylase. Diosgenin interacted with two catalytic residues (Asp352 and Glu411) from α-glucosidase. This is the first report of its kind that provides an intense scientific rationale for use of diosgenin as novel drug candidate for type II diabetes mellitus.

Trifoliate yam (Dioscorea dumetorum) is one example of an orphan crop, not traded internationally. Post-harvest hardening of the tubers of this species starts within 24 h after harvesting and renders the tubers inedible. Genomic resources are required for D. dumetorum to improve breeding for non-hardening varieties as well as for other traits. We sequenced the D. dumetorum genome and generated the corresponding annotation. The two haplophases of this highly heterozygous genome were separated to a large extent. The assembly represents 485 Mbp of the genome with an N50 of over 3.2 Mbp. A total of 35,269 protein-encoding gene models as well as 9941 non-coding RNA genes were predicted, and functional annotations were assigned.

Background The bHLH transcription factor family is named after the basic helix-loop-helix (bHLH) domain that is a characteristic element of their members. Understanding the function and characteristics of this family is important for the examination of a wide range of functions. As the availability of genome sequences and transcriptome assemblies has increased significantly, the need for automated solutions that provide reliable functional annotations is emphasised. Results A phylogenetic approach was adapted for the automatic identification and functional annotation of the bHLH transcription factor family. The bHLH_annotator, designed for the automated functional annotation of bHLHs, was implemented in Python3. Sequences of bHLHs described in literature were collected to represent the full diversity of bHLH sequences. Previously described orthologs form the basis for the functional annotation assignment to candidates which are also screened for bHLH-specific motifs. The pipeline was successfully deployed on the two Arabidopsis thaliana accessions Col-0 and Nd-1, the monocot species Dioscorea dumetorum , and a transcriptome assembly of Croton tiglium . Depending on the applied search parameters for the initial candidates in the pipeline, species-specific candidates or members of the bHLH family which experienced domain loss can be identified. Conclusions The bHLH_annotator allows a detailed and systematic investigation of the bHLH family in land plant species and classifies candidates based on bHLH-specific characteristics, which distinguishes the pipeline from other established functional annotation tools. This provides the basis for the functional annotation of the bHLH family in land plants and the systematic examination of a wide range of functions regulated by this transcription factor family.

In this work, the effect of the modifications (annealing, acid hydrolysis and citric acid substitution) on starch granule size frequency distribution, Fourier Transform Infrared (FTIR) spectra, and adsorption isotherm of starches of four yam cultivars were studied. The native and modified white yam, water yam, and yellow yam starches had a normal distribution frequency profile for the granule sizes, which were similar among the cultivars. In contrast, the native and modified bitter yam starch granules were not normally distributed. The modifications resulted in a left shift in normal distribution frequency profiles for the granules sizes of the white, water and yellow yam starches due to broadening of the range of granule sizes. The FTIR spectra revealed that additional bands at 1726.95–1729.49 cm−1 were introduced due to citric acid modification of the yam starches. The modifications also caused weakening of the FTIR band representing –CH2 and –OH stretching at 2927.85–2932.94 cm−1 and 3259.42–3437.33 cm−1, respectively. The native, annealed and acid hydrolyzed yam starches all had similar adsorption isotherms at 28 °C. On the other hand, the citric acid-substituted yam starches showed a different adsorption isotherm, because they had significantly higher equilibrium moisture content at water activity (aw) above 0.9. All the adsorption isotherms were type III, J-shaped isotherms. The adsorption isotherms data of the yam starches fitted best to the Guggenheim-Anderson-De Boer (GAB) model. The GAB model monomolecular moisture content ranged between 0.0165 and 0.0597 g/g db.Article HighlightsNative and modified yam starches’ granules size were normally distributed except bitter yam starchFTIR revealed additional bands and molecular rearrangements were introduced due to modificationsAdsorption isotherms revealed type III, GAB-model isotherms with low monomolecular moisture.

Background: Yams (Dioscorea spp.) are economically important food for millions of people in the humid and subhumid tropics. Dioscorea dumetorum (Kunth) is the most nutritious among the eight-yam species, commonly grown and consumed in West and Central Africa. Despite these qualities, the storage ability of D. dumetorum is restricted by severe postharvest hardening of the tubers that can be addressed through concerted breeding efforts. The first step of any breeding program is bound to the study of genetic diversity. In this study, we used the Genotyping-By- Sequencing of Single Nucleotide Polymorphism (GBS-SNP) to investigate the genetic diversity and population structure of 44 accessions of D. dumetorum in Cameroon. Ploidy was inferred using flow cytometry and gbs2ploidy. Results: We obtained on average 6371 loci having at least information for 75% accessions. Based on 6457 unlinked SNPs, our results demonstrate that D. dumetorum is structured into four populations. We clearly identified, a western/ north-western, a western, and south-western populations, suggesting that altitude and farmers-consumers preference are the decisive factors for differential adaptation and separation of these populations. Bayesian and neighborjoining clustering detected the highest genetic variability in D. dumetorum accessions from the south-western region. This variation is likely due to larger breeding efforts in the region as shown by gene flow between D. dumetorum accessions from the south-western region inferred by maximum likelihood. Ploidy analysis revealed diploid and triploid levels in D. dumetorum accessions with mostly diploid accessions (77%). Male and female accessions were mostly triploid (75%) and diploid (69%), respectively. The 1C genome size values of D. dumetorum accessions were on average 0.333

The aim of this study was to characterize 43 genotypes from five yam species [Dioscorea rotundata (Poir), Dioscorea alata (Linn), Dioscorea bulbifera (Linn), Dioscorea cayenensis (Lam) and Dioscorea dumetorum (Kunith) Pax] which are major land races in Nigeria in terms of their chemical composition, nutritional, anti-nutritional and mineral bioavailability. Findings showed that there was genotypic variation in terms of chemical composition, mineral profile and bioavailability of the minerals among the germplasm. D. bulbifera had the highest cell wall carbohydrates, (cellulose: 3.2%, hemicelluloses, 2.1%, lignin, 1.1%, acid detergent fibre (ADF) 3.2%, neutral detergent fibre (NDF) 6.4%), D. rotundata had the highest oxalate (606 mg/kg). In conclusion, intra and inter-species variations exist among the yam germplasm in terms of their chemical composition, anti-nutritional and mineral bioavailability. Phytate content of the yam genotypes did not affect the bioavailability of Zn but Ca was affected significantly. The Ox:Ca ratio in most of the yam varieties were below one, thus bioavailability of Ca in yam by oxalate is variety dependent.

Microsatellite markers are widely used in population genetics and breeding. Despite the economic significance of yams in developing countries, there is a paucity of microsatellite markers, and as of now, no comprehensive microsatellite marker database exists. In this study, we conducted genome‐wide microsatellite marker development across four yam species, identified cross‐species transferable markers, and designed an easy‐to‐use web portal for the yam researchers. The screening of Dioscorea alata, Dioscorea rotundata, Dioscorea dumetorum, and Dioscorea zingiberensis genomes resulted in 318,713, 322,501, 307,040, and 253,856 microsatellites, respectively. Mono‐, di‐, and tri‐nucleotides were the most important types of repeats in the different species, and a total of 864,128 primer pairs were designed. Furthermore, we identified 1170 cross‐species transferable microsatellite markers. Among them, 17 out of 18 randomly selected were experimentally validated with good discriminatory power, regardless of the species and ploidy levels. Ultimately, we created and deployed a dynamic Yam Microsatellite Markers Database (Y2MD) available at https://y2md.ucad.sn/. Y2MD is embedded with various useful tools such as JBrowse, Blast, insilicoPCR, and SSR Finder to facilitate the exploitation of microsatellite markers in yams. This study represents the first comprehensive microsatellite marker mining across several yam species and will contribute to advancing yam genetic research and marker‐assisted breeding. The released user‐friendly database constitutes a valuable platform for yam researchers. Core Ideas Whole genome assemblies of the four yam species were screened for the detection of microsatellites. A set of 1170 cross‐species transferable microsatellite markers were identified. An experimentally validated subset of 17 markers has shown consistent discriminatory power with respect to species and ploidy levels. A user‐friendly and dynamic web portal, the Yam Microsatellite Markers Database (Y2MD), has been developed and made freely available at https://y2md.ucad.sn/. The database includes a number of useful tools such as JBrowse, insilicoPCR, SSRFinder, and Blast. Plain Language Summary Yams (Dioscorea spp.) are vital for developing economies, yet improved varieties are slow to emerge. To accelerate breeding, our study addressed the scarcity of microsatellite markers in yams. We developed 864,128 primer pairs, identifying 1170 transferable markers across species. The validation of 17 markers proved functionality irrespective of species or ploidy. These resources are housed in an online database, fostering collaboration and advancing yam genetic studies and marker‐assisted breeding.

This study was initiated to assess the damage done to the genetic resources of yam in a core yam-producing community in Ekiti State, Southwestern Nigeria and embark on restoration through exploration, collection, identification and conservation of lost cultivars. Twenty cultivars, consisting of Dioscorea rotundata Poir , D. cayenensis Lam. , D. alata L., and D. dumetorum (Kunth) Pax were identified, collected, characterized and multiplied using an On-farm Participatory Method. The yam cultivars were characterized for quality and yield of pounded yam ( iyan ) as well as starch properties. They were later conserved in the Teaching and Research Farm of the Obafemi Awolowo University Ile-Ife. Morphological characterization separated Dioscorea alata ( Ewura cultivar) by its winged vines while Dioscorea dumetorum ( Esuru cultivar) was separated by its pubescent spines, trifoliate leaf with acute apex and base and the clustered, irregularly-shaped tuber. All the cultivars were rated good in their quality of pounded yam but Ikumo Ajimokun, and Odo cultivars were rated best and this was attributed to the swelling properties and amylose contents of their starch. A key for the identification of the cultivars based on morphological characteristics of the vine, leaf and tuber and their appendages was constructed. Multiple vines was found to be about 50% in occurrence among the cultivars. It is a valuable agrobotanical character which conditions multiple tubers and can ensure the survival of at least one vine per hill in the event of drought. Multiple tubers from single vines were also observed in Ajimokun , Gbongi, and Gaungaun cultivars. Yam cultivars with high granules had low swelling capacities. The Brittle Fraction Indices of the starch from all the cultivars was lower than 1.0 explaining why the iyan they produced had no crust on the surface and kept for long hours after preparation. From this study, it was concluded that the local yam cultivars collected represent the core of yam genetic resources for utilization in the region. These cultivars are therefore recommended for prioritization in further studies on propagation, conservation and improvement so that a narrow genetic base of cultivars is not encouraged, for example, by promoting cultivars whose vines perform well in tuberization. The network of local yam farmers, yam sellers, researchers and enthusiasts used for this project is still working together for the recovery of more cultivars, particularly those that are probably close to being lost.

Development of core collection representing the diversity in the entire germplasm creates a better access and enhanced utilization of the main collection thus allowing rapid evaluation in crop improvement programs. Core collections are dynamic in nature and needs revisiting when additional germplasm and information becomes available. In the current study, an attempt was made to re-define the previously developed yam (Dioscorea spp) core collection using 56 morphological traits. Information on additional acquired germplasm and presence of duplicates or mislabelled accessions in the entire collection was also used. The re-defined core collection consisted of 843 accessions and represented about 20% of the entire collection. It included six Dioscorea species, of which accessions of Dioscorea rotundata are in the majority (73.54%) followed by Dioscorea alata (21.35%), Dioscorea bulbifera (1.66%), Dioscorea cayenensis (1.42%), Dioscorea dumetorum (1.42%) and Dioscorea esculenta (0.59%). The Shannon weaver diversity index and principal component analysis revealed the maximum diversity captured in the core from the base collection. This re-defined core collection is more valuable than the original core since it represents true-to-type accessions ensuring reliability for enhanced utilization of germplasm in yam improvement programs.

Eight yam species (Dioscorea spp.) represented by 522 accessions (landraces and hybrids) were analysed for the individual sugars, catechins, phenolic acids and saponins contents of their tuber flours. Maltose, sucrose, glucose and fructose were quantified. Reducing sugars mean values were highly variable within species and ranged from 0.16%dry weight (DW) (SD ± 0.12) in D. dumetorum to 3.15%DW (±2.49) in D. esculenta. Maltose was detected only in D. esculenta. Chlorogenic acid, gallic acid and other phenolic acids ranged from 4.33 mg/g DW in D. bulbifera to 4.87 mg/g in D. alata and 9.55 mg/g in D. nummularia but were not detected in other species. Catechins (epicatechin and catechin) were highest in D. bulbifera bulbils (25.18 mg/g) and tubers (6.96 mg/g), and lowest in D. esculenta (0.32 mg/g). Their content is significantly correlated with dark flour colour and they most likely contribute to the oxidation of tuber flesh. Saponins (dioscin and gracillin) were quantified in only two species: D. cayenensis (5.94 mg/g, SD ± 3.78) and D. esculenta (3.74 mg/g, SD ± 3.72). Varietal selection may tend to reduce sugars levels and increase secondary metabolites with bioactive properties. HP-TLC is a suitable technique for the rapid quantification of compounds related to yam tuber flour quality.