BMC Plant Biology最新文献

{"title":"Effects of mineral fertilization (NPK) on combined high temperature and ozone damage in rice.","authors":"So-Hye Jo, Ju-Hee Kim, Ji-Hyeon Moon, Seo-Yeong Yang, Jae-Kyeong Baek, Yeong-Seo Song, Ji-Young Shon, Nam-Jin Chung, Hyeon-Seok Lee","doi":"10.1186/s12870-024-05695-0","DOIUrl":"https://doi.org/10.1186/s12870-024-05695-0","url":null,"abstract":"<p><strong>Background: </strong>Increasing concern has recently been highlighted regarding crop damage due to extreme weather events caused by global warming and the increased production of ground-level ozone. Several studies have investigated rice growth in response to fertilization conditions under various environmental stress conditions; however, studies on growth development in response to fertilization conditions under combined high-temperature/ozone treatment conditions are scarce. In this study, we aimed investigate the growth and physiological development of rice under combined high temperature and ozone treatment conditions and to reveal the damage-mitigation effects of NPK fertilization treatments.</p><p><strong>Results: </strong>The plants were treated with varying levels of NPK [N2 (N-P-K: 9.0-4.5-4.0 kg/a), P2 (4.5-9.0-4.0 kg/a), K2 (4.5-4.5-8.0 kg/a), and control (4.5-4.5-4.0 kg/10a).] under combined high-temperature (35 ℃) and ozone (150 pb) treatment conditions. Analysis of the growth metrics, including plant height, leaf age, dry weight, and the plant height/leaf age (PH/L) ratio were revealed that combined high-temperature/ozone treatment promoted the phenological development indicated by increasing leaf age but decreased the plant height and dry weight indicating its negative effect on quantitative growth. The effects of this combined high-temperature/ozone treatment on growth were alleviated by NPK fertilization, particularly in K2 treatment but worsened in N2 treatment. Visible damage symptoms in rice leaves induced by exposure to the combined stressors was also alleviated by the K2 treatment. At the physiological level, K2 treatment reduced the expression of OsF3H2, which is associated with antioxidant activity, suggesting that potassium improved stress tolerance. Additionally, expression of genes related to abscisic acid (ABA) metabolism showed increased OsNECD (ABA synthesis) and decreased OsCYP707A3 (ABA degradation) in the K2 treatment, promoting a stronger adaptive stress response. Stomatal conductance measurements indicated a slight increase under K2 treatment, reflecting enhanced regulation of stomatal function during stress.</p><p><strong>Conclusion: </strong>The study highlights the potential of potassium fertilization to mitigate combined high-temperature and ozone stress in rice, suggesting it as a strategy to improve crop resilience and optimize fertilization. The findings offer insights into fertilization treatments and can guide future research on stress tolerance in crops.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11484435/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458275","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Influence of parboiling conditions on rice grain quality characters and insect infestation with rice weevil (Sitophilus oryzae. L) of some rice cultivars.","authors":"Khaled M H Abd El Salam, Germine M Abou El-Soud, Abd El Salam M Marei, Khaled H M Abdel-Rheim, Ahmed Abdel-Megeed, Sobhi F Lamlom","doi":"10.1186/s12870-024-05651-y","DOIUrl":"https://doi.org/10.1186/s12870-024-05651-y","url":null,"abstract":"<p><p>Parboiling improves rice grain hardness and reduces susceptibility to Sitophilus oryzae infestation by gelatinizing the starch and enhancing resistance.A newly designed electric machine was used to parboil four Egyptian rice cultivars-Sakha 108, Giza 178, Super 300, and Egyptian Yasmin-at 70, 75, and 80 °C and determine their susceptibility to Sitophilus oryzae L. (Coleoptera: Curculionidae) infestation. Results indicated that heating affected most traits in all four rice cultivars during both study seasons 2021 and 2022. Super 300 rice cultivar exhibited the highest hulling values (81.23 and 81.42%) when heated to 80 °C, while the Yasmin rice cultivar showed the lowest values for hulling (77.66 and 77.45%) at 70 °C. while Giza 178 cultivar showed a significant decrease in broken percentage (90.85 and 94.02%) compared to control when heated to 80 °C. The results also indicated that the Yasmin rice cultivar had the highest values for white belly, hardness, and gel consistency at 80 °C, while the Sakha 108 cultivar showed the lowest values for these traits at 70 °C. Furthermore, the protein, elongation, and water uptake characters significantly responded to the different investigated treatments. Yasmin cultivar at 80 °C showed the highest significant values for protein (9.26 and 9.47%), elongation (65.02 and 65.44%), and water uptake (453.2 and 455.1 ml water/100 g milled grains) in both seasons. Sakha 108 cultivar had the lowest values for these traits at 70 °C. The S. oryzae insects responded differently to the rice cultivars. Using Dobie's Index of Susceptibility, all cultivars were classified as resistant to S. oryzae infestation. Super 300 was moderately resistant before parboiling but resistant after heat treatment. In conclusion, the study underscores the influence of pre-storage parboiling on rice weevil infestation, suggesting that heat treatment could serve as an effective control measure. These findings emphasize the importance of parboiling conditions in enhancing rice grain quality and bolstering resistance to insect infestation.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11484108/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458291","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Physiological, biochemical, and transcriptomic alterations in Castor (Ricinus communis L.) under polyethylene glycol-induced oxidative stress.","authors":"Yong Zhao, Pei Lei, Huibo Zhao, Rui Luo, Guorui Li, Jianjun Di, Li Wen, Zhibiao He, Deyun Tan, Fanjuan Meng, Fenglan Huang","doi":"10.1186/s12870-024-05691-4","DOIUrl":"https://doi.org/10.1186/s12870-024-05691-4","url":null,"abstract":"<p><strong>Background: </strong>Castor is an important industrial raw material. Drought-induced oxidative stress leads to slow growth and decreased yields in castor. However, the mechanisms of drought-induced oxidative stress in castor remain unclear. Therefore, in this study, physiological, biochemical, and RNA-seq analyses were conducted on the roots of castor plants under PEG-6000 stress for 3 d and 7 d followed by 4 d of hydration.</p><p><strong>Results: </strong>The photosynthetic rate of castor leaves was inhibited under PEG-6000 stress for 3 and 7 d. Biochemical analysis of castor roots stressed for 3 d and 7 d, and rehydrated for 4 d revealed that the activities of APX and CAT were highest after only 3 d of stress, whereas the activities of POD, GR, and SOD peaked after 7 d of stress. RNA-seq analysis revealed 2926, 1507, and 111 differentially expressed genes (DEGs) in the roots of castor plants under PEG-6000 stress for 3 d and 7 d and after 4 d of rehydration, respectively. GO analysis of the DEGs indicated significant enrichment in antioxidant activity. Furthermore, KEGG enrichment analysis of the DEGs revealed significantly enriched metabolic pathways, including glutathione metabolism, fatty acid metabolism, and plant hormone signal transduction. WGCNA identified the core genes PP2C39 and GA2ox4 in the navajowhite1 module, which was upregulated under PEG-6000 stress. On the basis of these results, we propose a model for the response to drought-induced oxidative stress in castor.</p><p><strong>Conclusions: </strong>This study provides valuable antioxidant gene resources, deepening our understanding of antioxidant regulation and paving the way for further molecular breeding of castor plants.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11484386/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458305","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Choline supplementation reduces cadmium uptake and alleviates cadmium toxicity in Solanum lycopersicum seedlings.","authors":"Ayşegül Akpinar, Asuman Cansev","doi":"10.1186/s12870-024-05653-w","DOIUrl":"https://doi.org/10.1186/s12870-024-05653-w","url":null,"abstract":"<p><p>Sustainable plant production in soil polluted with heavy metals requires that novel strategies are developed for the benefit of humans and other living things. Cadmium (Cd) is a common heavy metal pollutant for plants, and there is limited information on the use of exogenous bio-regulators to reduce the accumulation and toxic effects of Cd pollution in plants. Choline is an endogenous quertarnary amine that is known to improve stress tolerance in plants, while its mechanism of action in certain conditions is yet to be determined. This study investigated the effects of foliar choline supplementation (10 mM) on Solanum lycopersicum seedlings exposed to Cd application (50 mg/L in soil). The seedlings were randomized to five groups: Control (E1), Cd stress (E2), Choline supplementation after Cd stress (E3), Choline (E4), and Choline supplementation before Cd stress (E5). Following the applications, the Cd content, growth and development parameters (chlorophyll content, fresh and dry weight), oxidative stress parameters (H₂O₂ and MDA contents), as well as antioxidative defense system (SOD, GSH, AsA, and TPC contents) were analyzed. Choline supplementation after Cd stress reduced the enhanced Cd content in roots by 38% but did not alter it in leaves (p > 0.05) compared to the Cd group. Choline supplementation before Cd stress decreased Cd content both in roots by 87.5% and in leaves by 50%. Choline supplementation after and before Cd stress increased fresh and dry weights in both roots and leaves. While the Cd group (E2) increased the H₂O₂ level and SOD activity, no remarkable change was observed in H₂O₂ levels in all choline supplementations (E3, E4, E5). Therefore, lipid peroxidation (MDA) was not observed in choline supplementation before Cd stress (E5), however, when the choline was applied after Cd stress (E3) MDA content was reduced by 40% compared with the Cd stress group (E2). Choline supplementations after and before Cd stress (E3, E5) increased AsA content by 30%, while the Cd group (E2) decreased it by 60% compared with the control group (E1). Choline supplementations before Cd stress (E5) increased TPC by 33%, while the Cd group (E2) decreased it by 18%, moreover, when choline was applied after Cd stress (E3), no change was observed compared to the control group. These data suggest that choline prevents inhibition of plant growth due to Cd toxicity by reducing Cd uptake. The results provided in the present study are likely to enhance the quality and efficiency of crop production in heavy metal-polluted areas.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11484230/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458257","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Growth, physiological and N, P, K accumulation responses of Erythropalum scandens Bl. Seedlings under different substrates.","authors":"Daocheng Ma, Biao Yi, Weichao Teng, Izhar Ali, Jiayin Shao, Yongzhi Lin, Jianmei Yu, Xiang Tian, Yijin Wang, Linghui Wang","doi":"10.1186/s12870-024-05678-1","DOIUrl":"https://doi.org/10.1186/s12870-024-05678-1","url":null,"abstract":"<p><p>Erythropalum scandens Bl. is a medicinal woody vegetable found in southern China and parts of Southeast Asia. Studies have shown improper substrate hindered E. scandens seedling growth, causing water accumulation and nutrient deficiency. In pursuit of an ideal growth medium for E. scandens seedlings during the early stages, this study conducted a pot experiment to identify a mixed substrate with optimal water permeability and fertility. In this study, pure Alfisols soil treatment as the control (CK), and two soilless substrates (peat soil and perlite) were combined with Alfisols soil into different volume ratios, in order to better use soil resources from understory space and balance the texture of mixed substrates. The growth, physiological characteristics and nutrient status of 24-month-old E. scandens seedlings were determined after planting in different mixed ratios. The results showed that as the proportion of peat soil increased in the mix, most indexes exhibited an initial increase followed by a decline, while soluble protein content decreased consistently. Conversely, an increasing perlite ratio resulted in a general decline in most growth and physiological indexes. Root growth, biomass accumulation and chlorophyll content, peaked in the 66.67% Alfisols soil + 33.33% perlite (T4) treatment. Notably, T3 (66.67% Alfisols soil + 33.33% peat soil) showcased the best above-ground growth, while T1 (50.00% Alfisols soil + 50.00% peat soil) excelled in element content accumulation. In conclusion, the cultivation substrate should primarily consist of Alfisols soil, constituting at least 50%. The addition of peat soil enhances above-ground growth and nutrients accumulation, while perlite contributes to robust root development. One third of peat soil and a small amount of perlite can be added to the substrate during E. scandens seedling cultivation, and proper fertilization should also be used in order to increase nutrient accumulation in aboveground and underground parts. This research provides valuable insights into maximizing the potential of E. scandens seedlings through precise cultivation methods.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11481793/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458289","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Phytochemical and morpho-physiological response of Melissa officinalis L. to different NH₄⁺ to NO₃̄ ratios under hydroponic cultivation.","authors":"Farzad Safaei, Abolfazl Alirezalu, Parviz Noruzi, Kazem Alirezalu","doi":"10.1186/s12870-024-05693-2","DOIUrl":"https://doi.org/10.1186/s12870-024-05693-2","url":null,"abstract":"<p><strong>Background: </strong>The utilization of nutrition management, has recently been developed as a means of improving the growth and production of phytochemical compounds in herbs. The present study aimed to improve the growth, physiological, and phytochemical characteristics of lemon balm (Melissa officinalis L.) using different NH₄⁺ (ammonium) to NO₃̄ (nitrate) ratios (0:100, 25:75, 50:50, 75:25 and 100:0) under floating culture system (FCS).</p><p><strong>Results: </strong>The treatment containing 0:100 - NH₄⁺:NO₃̄ ratio showed the most remarkable values for the growth and morpho-physiological characteristics of M. officinalis. The results demonstrated that maximum biomass (105.57 g) earned by using the ratio of 0:100 and minimum at 75:25 ratio of NH₄⁺: NO₃̄. The plants treated with high nitrate ratio (0:100 - NH₄⁺:NO₃̄) showed the greatest concentration of total phenolics (60.40 mg GAE/g DW), chlorophyll a (31.32 mg/100 g DW), flavonoids (12.97 mg QUE/g DW), and carotenoids (83.06 mg/100 g DW). Using the 75:25 - NH₄⁺:NO₃̄ ratio caused the highest dry matter (DM), N and K macronutrients in the leaves. The highest antioxidant activity by both DPPH (37.39 µg AAE/mL) and FRAP (69.55 mM Fe⁺⁺/g DW) methods was obtained in 75:25 - NH₄⁺:NO₃̄ treatment. The p-coumaric acid as a main abundant phenolic composition, was detected by HPLC analysis as the highest content in samples grown under 0:100 - NH₄⁺:NO₃̄ treatment. Also, the major compounds in M. officinalis essential oil were identified as geranial, neral, geranyl acetate and geraniol by GC analysis. With increasing NO₃̄ application, geraniol and geranyl acetate contents were decreased.</p><p><strong>Conclusions: </strong>The findings of present study suggest that the management of NH4⁺ to NO₃̄ ratios in nutrient solutions could contribute to improving growth, physiological and phytochemical properties of M. officinalis. The plants treated with high nitrate ratio (especially 0:100 - NH₄⁺:NO₃̄) showed the greatest effects on improving the growth and production of morpho-physiological and phytochemical compounds. By comprehensively understanding the intricate dynamics among nitrogen sources, plants, and their surroundings, researchers and practitioners can devise inventive approaches to optimize nitrogen management practices and foster sustainable agricultural frameworks.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11481551/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458306","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Methane pulse spray and irrigation promote seed germination and seedling growth of common vetch.","authors":"Yifeng Zeng, Zhiqiang Liu, Weijun Chen, Ketan Qv, Yanxiang Huang, Luji Ade, Fujiang Hou","doi":"10.1186/s12870-024-05682-5","DOIUrl":"https://doi.org/10.1186/s12870-024-05682-5","url":null,"abstract":"<p><strong>Background: </strong>Grazing livestock emits methane through rumen intestinal activity, however, its impact on plant growth in grassland while grazing still has not been explored in detail. Therefore, the study examined the effects of methane pulse spray (MPS), according to grazing intensity, at four grazing intensities (0, 3.6, 5.0, and 6.5 sheep·hm^- 2 yr^- 1) on seed germination and seedling growth of common vetch (Vicia sativa), while two irrigation rates (35 and 53 ml d^- 1) were employed to simulate the precipitation.</p><p><strong>Results: </strong>The study revealed significant interactions between MPS and irrigation rate on seed germination and seedling growth parameters. Under moderate MPS intensities (0.74 and 1.04 mol m^- 2), seed germination rate, potential, index, and vigor index improved, especially at higher irrigation rates (53 ml d^- 1). Conversely, excessive MPS (1.33 mol m^- 2) inhibited particularly at the germination rate and growth,. The seedling growth dynamics fitted a logistic model, with MPS advancing the rapid growth phase and increasing maximum growth rates.</p><p><strong>Conclusions: </strong>This study demonstrates that low to moderate levels of MPS from ruminants can promote seed germination and seedling growth of common vetch, while excessive MPS inhibits these processes. Irrigation enhances plant sensitivity to MPS, with wetter conditions (620 mm yr^- 1) facilitating a more pronounced response. The findings introduce a new model elucidating plant responses to external perturbations, which can inform grazing management strategies in diverse ecosystems. In wetter regions, moderate grazing intensities may leverage MPS benefits, while arid regions require careful grazing regulation to maintain grassland-livestock balance.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11481452/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458303","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Enhancing the medicinal properties and phytochemical content of bitter melon (Momordica charantia L.) through elicitation with brassinosteroid, ethrel, and carrageenan.","authors":"Zeynab Mohkami, Azizollah Kheiry, Mohsen Sanikhani, Farhang Razavi, Mahdi Tavakolizadeh, Mansour Ghorbanpour","doi":"10.1186/s12870-024-05688-z","DOIUrl":"https://doi.org/10.1186/s12870-024-05688-z","url":null,"abstract":"<p><p>Bitter melon (Momordica charantia L.) is well-known for its high protein, steroid, alkaloid, mineral, lipid, triterpene, and phenolic compound content, as well as its medicinal properties, particularly its anti-diabetic effects. To investigate the impact of elicitors on the morphology and phytochemical characteristics of bitter melon (Jounpouri cultivar) over two consecutive years (2018 and 2019), we conducted a field experiment. The study aimed to determine the effects of Ethrel, brassinosteroids (BRs), and k-carrageenan on yield and the production of anti-diabetic agents in M. charantia farm crops. The elicitors included ten levels, ranging from a control group to Ethrel (100, 300, and 600 mg l^- 1), brassinosteroids (BRs) (0.1, 0.5, and 1 mg l^- 1), and k-carrageenan (200, 400, and 600 mg l^- 1). These characteristics included leaf area, leaf length, leaf width, fruit parameters, carbohydrate content, total phenols and flavonoid accumulation, antioxidant activity, total acid, ascorbic acid, momordicine, and charantin. Across both years, we observed the highest flavonoid accumulation and antioxidant activity in the Ethrel treatment group. Specifically, applying 0.5 mg l^- 1 BRs and 300 mg l^- 1 Ethrel led to an 18.8% and 14.8% increase in momordicine content, respectively. All elicitor treatments, particularly at 0.1 mg l^- 1 BRs, significantly increased leaf area, leaf length, and leaf width compared to the control group in both cropping years. Additionally, the application of all elicitors resulted in increased fruit weight, dimensions, and yield over the two consecutive years. Notably, in 2018, 600 mg l^- 1 Ethrel contributed to enhanced fruit weight and yield, while in 2019, 0.5 mg l^- 1 BRs exhibited the same effect. Metabolic and physiological changes in bitter squash induced by employed elicitors over two different years (2018-2019) are strongly dependent on a variety of environmental factors such as temperature and rainfall. In conclusion, using BRs as an elicitor has the potential to optimize the health benefits of bitter melon by increasing the content of two bioactive molecules, momordicine and charantin.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11481788/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458276","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Application of machine learning algorithms for predicting the life-long physiological effects of zinc oxide Micro/Nano particles on Carum copticum.","authors":"Maryam Mazaheri-Tirani, Soleyman Dayani, Majid Iranpour Mobarakeh","doi":"10.1186/s12870-024-05662-9","DOIUrl":"https://doi.org/10.1186/s12870-024-05662-9","url":null,"abstract":"<p><p>Nanoparticles impose multidimensional effects on living cells that significantly vary among different studies. Machine learning (ML) methods are recommended to elucidate more consistence and predictable relations among the affected parameters. In this study, nine ML algorithms [Support-Vector Regression (SVR), Linear, Bagging, Stochastic Gradient Descent (SGD), Gaussian Process, Random Sample Consensus (RANSAC), Partial Least Squares (PLS), Kernel Ridge, and Random Forest] were applied to evaluate their efficiency in predicting the effects of zinc oxide nanoparticles (ZnO NPs: 0.5, 1, 5, 25, and 125 µM) and microparticles (ZnO MPs: 1, 5, 25, and 125 µM) on Carum copticum. The plant root/shoot biomass; number of leaves, branches, umbellates, and flowers; protein content; reducing sugars; phenolic compounds; chlorophylls (a, b, Total); carotenoids; anthocyanins; H₂O₂; proline; malondialdehyde (MDA); tissue zinc content; superoxide dismutase (SOD) activity; and media ΔpH were measured and considered input variables. All levels of ZnO MPs treatments increased growth parameters compared to the control (ZnSO₄). The highest shoot/root fresh and dry mass were recorded at 5 µM ZnO MPs compared with the control. The root fresh/dry mass under ZnO NPs treatments was more sensitive than shoot parameters. The number of flowers increased by 134 and 79% in MPs and NPs treatments compared to the control, respectively. ZnO NPs reduced protein content by up to 81% in 125 µM NPs compared to ZnSO₄. Reducing sugar content increased to 25, 40 and 36% in 5, 25, 125 µM MPs and 67, 68, 26, 26 and 21% in 0.5, 1, 5, 25 and 125 µM NPs treatments, respectively. The pH alteration was more significant under NPs and affected zinc uptake. All levels of ZnO NPs treatments increased growth parameters compared to the control. All ML algorithms showed varied efficiencies in predicting the nonlinear relationships among parameters, with higher efficiency in predicting the behavior of root and shoot dry mass, root fresh weight and number of flowers according to R² index. The model obtained from SVR with the radial basis function (RBF) kernel was selected as a comprehensive model for predicting and determining the efficacy of the results.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11481599/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458255","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Repeat-mediated recombination results in Complex DNA structure of the mitochondrial genome of Trachelospermum jasminoides.","authors":"Yisha Cai, Haimei Chen, Yang Ni, Jingling Li, Jinghong Zhang, Chang Liu","doi":"10.1186/s12870-024-05568-6","DOIUrl":"https://doi.org/10.1186/s12870-024-05568-6","url":null,"abstract":"<p><strong>Background: </strong>Trachelospermum jasminoides has medicinal and ornamental value and is widely distributed in China. Although the chloroplast genome has been documented, the mitochondrial genome has not yet been studied.</p><p><strong>Results: </strong>The mitochondrial genome of T. jasminoides was assembled and functionally annotated using Illumina and nanopore reads. The mitochondrial genome comprises a master circular molecular structure of 605,764 bp and encodes 65 genes: 39 protein-coding genes, 23 transfer RNA (tRNA) genes and 3 ribosomal RNA genes. In addition to the single circular conformation, we found many alternative conformations of the T. jasminoides mitochondrial genome mediated by 42 repetitive sequences. Six repetitive sequences (DRS01-DRS06) were supported by nanopore long reads, polymerase chain reaction (PCR) amplifications, and Sanger sequencing of the PCR products. Eleven homologous fragments were identified by comparing the mitochondrial and chloroplast genome sequences, including three complete tRNA genes. Moreover, 531 edited RNA sites were identified in the protein-coding sequences based on RNA sequencing data, with nad4 having the highest number of sites (54).</p><p><strong>Conclusion: </strong>To our knowledge, this is the first description of the mitochondrial genome of T. jasminoides. Our results demonstrate the existence of multiple conformations. These findings lay a foundation for understanding the genetics and evolutionary dynamics of Apocynaceae.</p>","PeriodicalId":9198,"journal":{"name":"BMC Plant Biology","volume":null,"pages":null},"PeriodicalIF":4.3,"publicationDate":"2024-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11481363/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142458308","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}