Organic Formation Research Articles

Productivity of the Kitrossa soybean variety depends on reproductive organs formation

Productivity of the Kitrossa soybean variety depends on reproductive organs formation

Measurement report: Size-resolved secondary organic aerosol formation modulated by aerosol water uptake in wintertime haze

Measurement report: Size-resolved secondary organic aerosol formation modulated by aerosol water uptake in wintertime haze

Sonic hedgehog (shh) gene from Pseudopleuronectes yokohamae (Teleostei: Pleuronectidae): Molecular cloning, characterization, and expression profile during early embryonic, juvenile, and adult stages.

The hedgehog signaling pathway plays an important role in early development and growth of most vertebrates. Sonic hedgehog (shh) gene is a critical regulator of embryonic development in many species, including humans. However, it is not clear what roles shh can play in the development of fish. In this paper, shh gene was cloned from Pseudopleuronectes yokohamae. The full-length complementary DNA (cDNA) of P. yokohamae sonic hedgehog gene (Pyshh) comprises 3194 bp, with a 1317-bp open reading frame (ORF) that encodes a polypeptide of 438 amino acids with a typical HH-signal domain and Hint-N domain. The conserved sequences of the protein among species were predicted by using multiple sequence comparison. The phylogenetic tree construction showed that PySHH is clustered in a branch of Pleuronectidae. To explore the expression of Pyshh gene in various tissues of P. yokohamae, we used real-time fluorescence quantitative PCR technology to detect it. The results showed that Pyshh gene is widely distributed in various tissues of P. yokohamae juveniles, different tissues of adult males and females, and is particularly expressed in immune organs. The Pyshh gene expression was higher in the muscle and brain of juvenile fish, and higher in bone, gill, and skin of male fish than that of female fish, suggesting that Pyshh might be involved in the formation of immune organs of P. yokohamae. The expression of Pyshh gene significantly upregulated from the gastrula stage to the hatching stage. Western blotting of the expression levels of PySHH during different embryonic development stages revealed that PySHH levels increased gradually during development stages from oosperm stage to hatching stage. These results indicate that Pyshh is highly conserved among species and plays a critical role in the complex process of embryonic development. Its precise regulation is essential for the proper formation of many organs and tissues in the body, and disruptions in its function may have serious consequences for the formation of immune organs in fish.

Over-expression of a plant-type phosphoenolpyruvate carboxylase derails Arabidopsis stamen formation

We examined whether plant-type phosphoenolpyruvate carboxylase (PEPC) is involved in flower organ formation or not by over-expression in Arabidopsis. A wheat PEPC isogene Tappc3A, belonging to the ppc3 group, was targeted due to its preferential expression pattern in pistils and stamens. Transgenic Arabidopsis over-expressing Tappc3A exhibited irregular stamen formation, i.e., a lesser number of stamens per flower and shorter filaments in T2 and T3 generations. Irregular stamens were frequently observed in homozygous T4 lines, but no morphological change was observed in other floral organs. High-degree gene co-expression of Tappc3 isogenes with wheat SEEDSTICKs but not with other homeotic transcription factor genes for flower formation implicates that Tappc3 is under control by the class D genes of the ABCDE model to flower development. In addition, the conservation of CArG box sequences on the Tappc3 promoters supported the developmentally programmed gene expression of ppc3 in wheat flowering organs. Thus, this study provides the first experimental evidence for the critical regulation of plant-type PEPC for flower formation.

Microbial anabolic and catabolic utilization of hydrocarbons in deep subseafloor sediments of Guaymas Basin.

Guaymas Basin, located in the Gulf of California, is a hydrothermally active marginal basin. Due to steep geothermal gradients and localized heating by sill intrusions, microbial substrates like short-chain fatty acids and hydrocarbons are abiotically produced from sedimentary organic matter at comparatively shallow depths. We analyzed the effect of hydrocarbons on uptake of hydrocarbons by microorganisms via nano-scale secondary ion mass spectrometry (NanoSIMS) and microbial sulfate reduction rates (SRR), using samples from two drill sites sampled by IODP Expedition 385 (U1545C and U1546D). These sites are in close proximity of each other (ca. 1km) and have very similar sedimentology. Site U1546D experienced the intrusion of a sill that has since then thermally equilibrated with the surrounding sediment. Both sites currently have an identical geothermal gradient, despite their different thermal history. The localized heating by the sill led to thermal cracking of sedimentary organic matter and formation of potentially bioavailable organic substrates. There were low levels of hydrocarbon and nitrogen uptake in some samples from both sites, mostly in surficial samples. Hydrocarbon and methane additions stimulated SRR in near-seafloor samples from Site U1545C, while samples from Site U1546D reacted positively only on methane. Our data indicate the potential of microorganisms to metabolize hydrocarbons even in the deep subsurface of Guaymas Basin.

Application of Topical Minoxidil in Acne Vulgaris Treatment

Abstract Background: Acne vulgaris (AV) results from increased sebum production and Cutibacterium acnes (C. acnes) overgrowth, leading to pilosebaceous unit inflammation. The androgen-androgen receptor (AR) pathway significantly contributes to acne development, with minoxidil showing promise in suppressing AR-related activities. Objectives: This study aims to examine the mechanism and effectiveness of minoxidil in treating AV. Methods: The effects of minoxidil on lipid metabolism and bacterial infection/inflammation were tested. A clinical trial was performed to evaluate the effect of topical minoxidil on AV. Results: Minoxidil suppressed fatty acid synthase activity and lipid formation in an androgen-sensitive prostate cancer cell line in vitro and sebum formation in hamster flank organs in vivo. For C. acnes, minoxidil had a half-maximum inhibitory concentration of 5 mM. Both 2% and 5% minoxidil suppressed C. acnes-induced infection/inflammation in an animal model. A phase I/II clinical trial of topical minoxidil in treating AV using a split-face model demonstrated a good response and well-tolerated side effects. Compared to the untreated side, the numbers of all types of lesions decreased significantly on the treated side on day 3 (mean: −2.238, 95% confidence interval [CI]: −3.821 to −0.655, P = 0.008), day 8, and reached the maximum effect on day 15 (mean: −1.286, 95% CI: −2.151 to −0.420, P = 0.006). Responders to topical minoxidil may experience rapid regression of acne as early as 3 days of treatment. Conclusion: Our collective data indicate that minoxidil could inhibit AR-related functions and C. acnes growth in treating AV.

Temperature and LED lightning affect the regeneration of somatic embryo-derived sporophytes on the internode explants of the tree fern Cyathea delgadii Sternb.

The influence of the temperature and different light qualities emitted by light-emitting diodes (LEDs) and fluorescent lamps (Fl) on the micropropagation of the tree fern Cyathea delgadii was evaluated. The most efficient somatic embryo production was obtained on internode explants at 22 °C. The optimal temperature range for obtaining well-developed plants was 24–28 °C. This stimulated the elongation and development of the first leaf and the formation of the next leaf and roots primordia. Temperatures lower than 24 °C and higher than 28 °C inhibited the formation of young sporophyte organs and delayed their development. The RBUV (35% red, 15% blue, and 50% UV) and B (100% blue) lights and Fl light were beneficial for the sporophyte production on internode explants. However, plants obtained under RBUV light were undeveloped. The white LED light stimulated the number of explants capable of gametophyte production and development. The RB light (70% red and 30% blue) enhanced the number of roots of newly-formed plants. Most of the LED lights tested had a good impact on root elongation compared to Fl light and constant darkness. The R light (100% red) benefits leaf development and elongation. Research shows that temperature and LED lightning play a significant role in the process of morphogenesis in C. delgadii, significantly affecting the embryogenic competence of somatic cells and the development of sporophytes.

Mechanisms of bone formation by primary cilia

Primary cilia are immotile cilia assembled from the centriole-derived basal body, and they protrude on the cell surface in almost all cell types during the cell cycle G0 phase. Due to the diffusion barrier at the ciliary base, cilia harbor selective G protein-coupled receptors, growth factor receptors, and ion channels on their membrane. Thus, cilia act as sensory organelles, regulating the proliferation and differentiation of the cells and promoting the formation and maturation of various organs including bone, brain, and kidney. It has been unveiled that malformation and dysregulation of cilia cause organ dysplasia, so-called ciliopathy, thus research on primary cilia has become active during the past 20 years. Research on the roles of cilia in bone formation and its regulatory mechanisms have also progressed. It is widely recognized that cilia of preosteoblasts receive hedgehog and promote differentiation of the cells to osteoblasts, resulting in the formation of skulls and long bones. Recently, it has been shown that a membrane-associated protein 4.1G is important in ciliogenesis, hedgehog signaling, and osteoblast differentiation in neonatal bone formation. In this review, we would like to summarize the roles of primary cilia in bone formation and their regulatory mechanisms including the contribution of 4.1G.

Organic cocrystals: From high‐performance molecular materials to multi‐functional applications

AbstractAdvancements in organic electronics are propelling the development of new material systems, where organic materials stand out for their unique benefits, including tunability and cost‐effectiveness. Organic single crystals stand out for their ordered structure and reduced defects, enhancing the understanding of the relationship between structure and performance. Organic cocrystal engineering builds upon these foundations, exploring intermolecular interactions within multicomponent‐ordered crystalline materials to combine the inherent advantages of single‐component crystals. However, the path to realizing the full potential of organic cocrystals is fraught with challenges, including structural mismatches, unclear cocrystallization mechanisms, and unpredictable property alterations, which complicate the effective cocrystallization between different molecules. To deepen the understanding of this promising area, this review introduces the mechanism of organic cocrystal formation, the various stacking modes, and different growth techniques, and highlights the advancements in cocrystal engineering for multifunctional applications. The goal is to provide comprehensive guidelines for the cocrystal engineering of high‐performance molecular materials, thereby expanding the applications of organic cocrystals in the fields of optoelectronics, photothermal energy, and energy storage and conversion.

Uncovering PheCLE1 and PheCLE10 Promoting Root Development Based on Genome-Wide Analysis.

Moso bamboo (Phyllostachys edulis), renowned for its rapid growth, is attributed to the dynamic changes in its apical meristem. The CLAVATA3/EMBRYO SURROUNDING REGION-RELATED (CLE) family genes are known to play crucial roles in regulating meristem and organ formation in model plants, but their functions in Moso bamboo remain unclear. Here, we conducted a genome-wide identification of the CLE gene family of Moso bamboo and investigated their gene structure, chromosomal localization, evolutionary relationships, and expression patterns. A total of 11 PheCLE genes were identified, all of which contained a conserved CLE peptide core functional motif (Motif 1) at their C-termini. Based on Arabidopsis classification criteria, these genes were predominantly distributed in Groups A-C. Collinearity analysis unveiled significant synteny among CLE genes in Moso bamboo, rice, and maize, implying potential functional conservation during monocot evolution. Transcriptomic analysis showed significant expression of these genes in the apical tissues of Moso bamboo, including root tips, shoot tips, rhizome buds, and flower buds. Particularly, single-cell transcriptomic data and in situ hybridization further corroborated the heightened expression of PheCLE1 and PheCLE10 in the apical tissue of basal roots. Additionally, the overexpression of PheCLE1 and PheCLE10 in rice markedly promoted root growth. PheCLE1 and PheCLE10 were both located on the cell membrane. Furthermore, the upstream transcription factors NAC9 and NAC6 exhibited binding affinity toward the promoters of PheCLE1 and PheCLE10, thereby facilitating their transcriptional activation. In summary, this study not only systematically identified the CLE gene family in Moso bamboo for the first time but also emphasized their central roles in apical tissue development. This provides a valuable theoretical foundation for the further exploration of functional peptides and their signaling regulatory networks in bamboo species.

Carbonization of bacterial cellulose with structure retention and Nitrogen/Sulfur/Oxygen doping for application in supercapacitors electrode

Bacterial cellulose (BC) presents great potential as an economical and sustainable biomass for the preparation of porous carbon electrodes for electrochemical energy storage. However, it is a challenge to maintain the natural structural advantages of BC and regulate the chemistry during the carbonization, significantly hindering the practical application. This study proposes a straightforward and efficient approach to rationally control the carbonization process of BC for improving structure retention and endowing multiple atomic doping, contributing an advanced electrode for supercapacitors. The addition of ammonium sulfate ((NH4)2SO4) is instrumental in promoting the early dehydration carbonization, forming a carbon layer with thermal insulation. This thermal barrier suppresses the volatile organic compound formation, resulting in the inhibition of volume shrinkage and boosted carbon yield. Moreover, the air activation combined with the addition of (NH4)2SO4 contributes to a Nitrogen/Sulfur/Oxygen-doped carbon electrode. The well-maintained hollow structure and diverse chemistry provide sufficient active sites and enhanced ion diffusion, resulting in a specific capacitance of 268.2 F/g at a current of 0.5 A/g and outstanding capacitance retention of 99.46 % after 10,000 cycles at 5 A/g. This work provides a deep insight into the development of cost-effective biomass in developing advanced carbon electrodes for efficient energy storage.

Developmental and tissue‐specific roles of mammalian centrosomes

Centrosomes are dominant microtubule organizing centers in animal cells with a pair of centrioles at their core. They template cilia during interphase and help organize the mitotic spindle for a more efficient cell division. Here, we review the roles of centrosomes in the early developing mouse and during organ formation. Mammalian cells respond to centrosome loss‐of‐function by activating the mitotic surveillance pathway, a timing mechanism that, when a defined mitotic duration is exceeded, leads to p53‐dependent cell death in the descendants. Mouse embryos without centrioles are highly susceptible to this pathway and undergo embryonic arrest at mid‐gestation. The complete loss of the centriolar core results in earlier and more severe phenotypes than that of other centrosomal proteins. Finally, different developing tissues possess varying thresholds and mount graded responses to the loss of centrioles that go beyond the germ layer of origin.

Sexual Dimorphism in Commercially Important Fish Species in India: A Review

Sexual dimorphism in fishes is an important biological aspect, which helps distinguish males and females based on various primary and secondary sexual characteristics. Based on sexual dimorphic characteristics fishes can be categorized as monomorphic, temporary dimorphic and permanent dimorphic. These characters can be either persistent or non-persistent types in fishes. Sexual dimorphism also can be determined using biometric characteristics as well. In fish, males typically display more conspicuous sexual characteristics compared to females, including the development of vibrant colouration, nuptial tubercles, or the formation of accessory organs. Sexual dimorphism is a significant trait helpful in categorizing and classifying fish species more accurately. It also has significant implications for commercial fisheries, which can aid in catch from the wild. This also can contribute to understanding the intricacies of aquatic ecosystems but also underscores the practical applications of studying sexual dimorphism in the context of sustainable fisheries management.

Oil shale enrichment mechanisms in the Lower Cretaceous Jiufotang Formation from the Ludong sag, Songliao Basin, Northeast China

In order to investigate the oil shale enrichment mechanisms and the relationship among gravity flows, volcanism, and oil shale deposition, detailed petrological, sedimentological, and organic geochemical research have been carried out on the Lower Cretaceous Jiufotang Formation in the Ludong sag, Songliao Basin, Northeast China. Seven facies were recognized and were grouped into three facies associations, namely hyperpycnites and intrabasinal turbidites, delta, and lacustrine facies associations. During the deposition of the lower Jiufotang Formation, hyperpycnites were developed during catastrophic flooding events that caused an abrupt increase in the discharge of water and sediment into the deep lacustrine environments, and a delta persisted during normal river discharge intervals and prograded into lacustrine environments. During the deposition of the upper Jiufotang Formation, deep lacustrine facies further expanded, and the extent of hyperpycnites decreased. Four types of oil shales were recognized in the Ludong sag of which those in the lower and upper Jiufotang Formation were defined as medium-to good-quality and good-to best-quality source rocks, respectively, exerting an overall thermal maturity of early oil generation. The lacustrine redox conditions show oxic to dysoxic conditions in the lower Jiufotang Formation, and anoxic to dysoxic conditions in the upper Jiufotang Formation. Oil shales were poorly-developed in the lower Jiufotang Formation and were well-developed in the upper Jiufotang Formation. During the active rift stage of the lower Jiufotang Formation, frequent occurrences of gravity flows and water-carried re-sedimentation of tuffaceous materials were unfavorable for oil shale accumulation. During the waning rift phases of the upper Jiufotang Formation, minor wind-transport of volcanic ash input into the deep lacustrine environments fertilized the lake water and supported algae blooms, leading to reduced oxygen concentrations in the bottom lacustrine waters along with high bioproductivity that were favorable for organic matter preservation and oil shale formation.

Evaluation of host status of garlic varieties for a plant-parasitic nematode, Ditylenchus destructor, by using in vitro inoculation.

Ditylenchus destructor is a plant-parasitic nematode that severely damages garlic (Allium sativum L.) in Japan. D. destructor is detected in roots, bulbs, and outer bulb skins of garlic at harvest; however, the resistance of garlic to D. destructor infection is not well understood. Here, we investigated the propagation of D. destructor in storage organs and roots using in vitro plantlets of six Japanese garlic varieties to exclude the effects of microbes and to uniform growing conditions. In vitro inoculation can proceed simultaneously with vegetative growth, storage organ formation of garlic plantlets, and D. destructor infection. In 'Fukuchi-white', a variety susceptible to D. destructor, nematodes successfully propagated in storage organs and roots. Furthermore, the nematodes invaded and propagated in the newly formed storage organs. By contrast, 'Kirishima', 'Hirado', and 'Shishimaru' substantially suppressed more the propagation of the nematodes in storage organs and roots than 'Fukuchi-white'. Additionally, the propagation of nematodes in newly formed storage organs was inhibited in these three varieties. 'Shishimaru' showed unique responses to D. destructor infection: nematode propagation was the lowest among six varieties in inoculation tests and the nematode-inoculated cloves turned brown. Our results suggest that several garlic varieties have resistance mechanisms that suppress the propagation of D. destructor in storage organs and roots, and that in vitro inoculation methods are useful for selecting resistant garlic varieties. These findings will help developing novel D. destructor-resistant garlic varieties and our further understanding of garlic-nematode interactions.

Biochemical activity of peats of different genesis

The results of the study of enzymatic activity of peats of the three bogs of upper and lowland types – Saim, Bolshoye and Tungusovskoye (Tomsk region) are presented. The peculiarities of organic matter formation of peats of different types are given. It is shown that the properties of peats with up to eight different plants in their composition are a consequence of the different structure of polymers of the original plants. The activity indices of enzymes invertase, protease, catalase, polyphenol oxidase, nitrate and nitrite reductase in the peats of different genesis are determined. Thus, at the type level, the extreme values of nitrate and nitrite reductase activity in the peats of the upland bog are equal to 3.60–4.94 mg of reduced NO3– /24 h/g and 3.52–7.01 mg of reduced NO2–/24 h/g, respectively, lowland bog – 4.66–19.33 mg of reduced NO3–/24 h/g and 0.9–13.0 mg of reduced NO2 –/24 h/g, fluvial bog – 8.77–22.29 mg of reduced NO3–/24 h/g and 0.2–13.6 mg of reduced NO2 –/24 h/g. The activity of the enzyme in peats and in mineral soils is compared with the activity estimation according to the D.G. Zvyagintsev scale. Peats are found to show a wider range of invertase values than indicated by the scale. The need to develop a gradation of enzymatic activity assessment for peats is identified. Probably, the activity of enzymes on peat OM transformation may increase when external conditions change towards warming. In the future, it is suggested to develop an evaluation cadastre of peats by enzymatic activity, which will allow, through a balanced selection of peats for agricultural production, to ensure the required quality of products, their environmental safety and economic efficiency.

GhHAM regulates GoPGF-dependent gland development and contributes to broad-spectrum pest resistance in cotton.

Cotton is a globally cultivated crop, producing 87% of the natural fiber used in the global textile industry. The pigment glands, unique to cotton and its relatives, serve as a defense structure against pests and pathogens. However, the molecular mechanism underlying gland formation and the specific role of pigment glands in cotton's pest defense are still not well understood. In this study, we cloned a gland-related transcription factor GhHAM and generated the GhHAM knockout mutant using CRISPR/Cas9. Phenotypic observations, transcriptome analysis, and promoter-binding experiments revealed that GhHAM binds to the promoter of GoPGF, regulating pigment gland formation in cotton's multiple organs via the GoPGF-GhJUB1 module. The knockout of GhHAM significantly reduced gossypol production and increased cotton's susceptibility to pests in the field. Feeding assays demonstrated that more than 80% of the cotton bollworm larvae preferred ghham over the wild type. Furthermore, the ghham mutants displayed shorter cell length and decreased gibberellins (GA) production in the stem. Exogenous application of GA3 restored stem cell elongation but not gland formation, thereby indicating that GhHAM controls gland morphogenesis independently of GA. Our study sheds light on the functional differentiation of HAM proteins among plant species, highlights the significant role of pigment glands in influencing pest feeding preference, and provides a theoretical basis for breeding pest-resistant cotton varieties to address the challenges posed by frequent outbreaks of pests.

Temperature-dependent emissions dominate aerosol and ozone formation in Los Angeles.

Despite declines in transportation emissions, urban North America and Europe still face unhealthy air pollution levels. This has challenged conventional understanding of the sources of their volatile organic compound (VOC) precursors. Using airborne flux measurements to map emissions of a wide range of VOCs, we demonstrate that biogenic terpenoid emissions contribute ~60% of emitted VOC OH reactivity, ozone, and secondary organic aerosol formation potential in summertime Los Angeles and that this contribution strongly increases with temperature. This implies that control of nitrogen oxides is key to reducing ozone formation in Los Angeles. We also show some anthropogenic VOC emissions increase with temperature, which is an effect not represented in current inventories. Air pollution mitigation efforts must consider that climate warming will strongly change emission amounts and composition.

Secondary Organic Aerosol Formation from Ambient Air in Summer in Urban Beijing: Contribution of S/IVOCs and Impacts of Heat Waves

Secondary Organic Aerosol Formation from Ambient Air in Summer in Urban Beijing: Contribution of S/IVOCs and Impacts of Heat Waves

Characterization of YABBY transcription factors in Osmanthus fragrans and functional analysis of OfYABBY12 in floral scent formation and leaf morphology

BackgroundThe plant-specific YABBY transcription factor family plays important roles in plant growth and development, particularly leaf growth, floral organ formation, and secondary metabolite synthesis.ResultsHere, we identified a total of 13 OfYABBY genes from the Osmanthus fragrans genome. These 13 OfYABBY genes were divided into five subfamilies through phylogenetic analysis, and genes in the same subfamily showed similar gene structures and conserved protein motifs. Gene duplication promoted the expansion of the OfYABBY family in O. fragrans. Tissue-specific expression analysis showed that the OfYABBY family was mainly expressed in O. fragrans leaves and floral organs. To better understand the role of OfYABBY genes in plant growth and development, OfYABBY12 was selected for heterologous stable overexpression in tobacco, and OfYABBY12-overexpressing tobacco leaves released significantly fewer volatile organic compounds than wild-type tobacco leaves. Overexpression of OfYABBY12 led to the downregulation of NtCCD1/4 and decreased β-ionone biosynthesis. Correspondingly, a dual-luciferase assay showed that OfYABBY12 negatively regulated the expression of OfCCD4, which promotes β-ionone synthesis. Furthermore, tobacco leaves overexpressing OfYABBY12 were curled and wrinkled and had significantly reduced leaf thickness and leaf inclusions and significantly extended flower pistils (styles).ConclusionOverall, the results suggest that the OfYABBY gene family may influence the biosynthesis of the floral scent (especially β-ionone) in O. fragrans and may regulate leaf morphogenesis and lateral organs.