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Natural Products Produced by the Species of Bacillus cereus Group: Recent Updates. 蜡样芽孢杆菌产生的天然产品:最新进展。
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-21 DOI: 10.1002/jobm.202400666
Ugur Azizoglu, Leandris Argentel-Martínez, Ofelda Peñuelas-Rubio, Angélica Herrera-Sepúlveda, Jerald Conrad Ibal, Reza Sharafi, Gholamreza Salehi Jouzani, Aurelio Ortiz, Jessica Vaca, Estibaliz Sansinenea

Bacillus cereus group produces diverse antimicrobial compounds through different metabolic pathways, including amino acid-based compounds, sugar derivatives, volatile and miscellaneous compounds. These antimicrobial compounds exhibit antibacterial and antifungal activities against various plant pathogens, promoting plant growth and enhancing tolerance to abiotic stresses. They also exhibit nematicidal activities against plant nematodes and antagonistic effects against pathogens in aquatic animals, promoting growth and inducing immune responses. Moreover, B. cereus group bacteria play a significant role in bioremediation by breaking down or neutralizing environmental pollutants, such as plastics, petroleum products, heavy metals, and insecticides. They produce enzymes like laccases, lipases, proteases, and various oxidases, contributing to the degradation of these pollutants. In the food industry, they can cause food poisoning due to their production of enterotoxins. However, they are also utilized in various industrial applications, such as producing environmentally friendly bio-based materials, biofertilizers, and nanoparticles. Notably, B. cereus transforms selenite into selenium nanoparticles, which have health benefits, including cancer prevention. In summary, B. cereus group bacteria have diverse applications in agriculture, bioremediation, industry, and medicine, contributing to sustainable and eco-friendly solutions across multiple fields. In this review, we have revised B. cereus group and the characteristics of every species; we have also highlighted the more important compounds secreted by the species of B. cereus group and the applications of these compounds. The aim is to explain the available secondary metabolites to classify the species from this group, increasing the knowledge about taxonomy of this group.

蜡样芽孢杆菌通过不同的代谢途径产生多种抗菌化合物,包括氨基酸类化合物、糖类衍生物、挥发性化合物和其他化合物。这些抗菌化合物对各种植物病原体具有抗菌和抗真菌活性,能促进植物生长并增强对非生物性胁迫的耐受性。它们还对植物线虫具有杀线虫活性,对水生动物的病原体具有拮抗作用,能促进生长和诱导免疫反应。此外,蜡样芽孢杆菌还能分解或中和塑料、石油产品、重金属和杀虫剂等环境污染物,在生物修复方面发挥着重要作用。它们能产生漆酶、脂肪酶、蛋白酶和各种氧化酶等酶类,有助于降解这些污染物。在食品工业中,它们会产生肠毒素,导致食物中毒。不过,它们也可用于各种工业用途,如生产环保型生物基材料、生物肥料和纳米粒子。值得注意的是,蜡样芽孢杆菌能将亚硒酸盐转化为硒纳米粒子,而硒纳米粒子对健康有益,包括预防癌症。总之,蜡样芽孢杆菌属细菌在农业、生物修复、工业和医学领域有多种应用,为多个领域的可持续和生态友好型解决方案做出了贡献。在这篇综述中,我们对蜡样芽孢杆菌群和每个菌种的特征进行了修订;我们还强调了蜡样芽孢杆菌群菌种分泌的更重要的化合物及其应用。目的是解释现有的次生代谢物,以便对该组物种进行分类,增加对该组分类学的了解。
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引用次数: 0
A Novel Cold-Adapted Catechol 1,2-Dioxygenase From Antarctic Sea-Ice Bacterium Halomonas sp. ANT108: Characterization and Immobilization. 来自南极海冰细菌 Halomonas sp. ANT108 的新型冷适应儿茶酚 1,2-二氧 化酶:特性和固定化。
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-18 DOI: 10.1002/jobm.202400500
Quanfu Wang, Xiaoxuan Zhang, Anqi Wang, Ailin Zhang, Yatong Wang, Yanhua Hou

The enzyme catechol 1,2-dioxygenase (CAT) plays a critical role in the biosynthesis pathway of cis, cis-muconic acid (CCMA), which serves as an indispensable raw material for various industrial applications. In this research, we cloned a novel cold-adapted CAT (HaCAT) from the Antarctic sea ice bacterium Halomonas sp. ANT108. Homology modeling analysis revealed that HaCAT possessed the characteristic Fe3+ binding site and catalytic active site of typical CATs, and it exhibited unique structural adaptations to cold environments. The optimal temperature and pH for recombinant HaCAT (rHaCAT) were found to be 25°C and 6.5, respectively. At 0°C, the enzyme retained a maximum activity of 43.6%, and in the presence of 1.0 M NaCl, its activity reached 173.9%, demonstrating significant salt tolerance. Additionally, the Vmax and Km of rHaCAT were 6.68 μmol/min/mg and 128.90 μM at 25°C, respectively. Furthermore, rHaCAT was successfully immobilized in the metal-organic framework ZIF-8 and retained almost 50% of its activity after five reuse cycles, demonstrating excellent reusability. Overall, these results provided a new resource and theoretical foundation for the industrial biocatalytic production and modification of CAT.

儿茶酚 1,2-二氧合酶(CAT)在顺式、顺式粘多糖酸(CCMA)的生物合成途径中起着关键作用,CCMA 是各种工业应用中不可或缺的原料。在这项研究中,我们从南极海冰细菌 Halomonas sp. ANT108 中克隆了一种新型冷适应 CAT(HaCAT)。同源建模分析表明,HaCAT具有典型CAT特有的Fe3+结合位点和催化活性位点,并在结构上表现出对寒冷环境的独特适应性。研究发现,重组 HaCAT(rHaCAT)的最佳温度和 pH 值分别为 25°C 和 6.5。在 0°C 时,该酶的最大活性为 43.6%,而在 1.0 M NaCl 的条件下,其活性达到了 173.9%,显示出明显的耐盐性。此外,在 25°C 时,rHaCAT 的 Vmax 和 Km 分别为 6.68 μmol/min/mg 和 128.90 μM。此外,rHaCAT 还被成功固定在金属有机框架 ZIF-8 中,并在重复使用五个周期后保留了近 50% 的活性,显示了极佳的重复使用性。总之,这些成果为工业化生物催化生产和改造 CAT 提供了新的资源和理论基础。
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引用次数: 0
Plant Growth-Promoting Bacteria Associated With Some Salt-Tolerant Plants. 与一些耐盐植物有关的植物生长促进细菌
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-17 DOI: 10.1002/jobm.202400446
Fatemeh Beitsayahi, Naeimeh Enayatizamir, Leila Nejadsadeghi, Fatemeh Nasernakhaei

Given the benefits of bacteria associated with the rhizosphere and phytoplane of halophytes, this research focused on examining the plant growth-promoting characteristics of bacteria isolated from Cressa cretica, Suaeda aegyptiaca, and Alhagi graecorum. From the 33 isolates tested, 9 exhibited plant growth-promoting traits. Bacillus rugosus strain CS5 and Bacillus sp. strain SS4 exhibited the notable growth inhibition of the pathogenic fungus Fusarium oxysporum, with values of 47% and 45%, respectively. Bacillus sp. strains SS4 and CS1 demonstrated impressive results in solubilizing phosphorus and zinc, respectively, achieving concentrations of 259 and 271 mg L-1. Additionally, Staphylococcus xylosus strain SR2, Bacillus sp. strain SS4, and Bacillus paralicheniformis strain CR1 thrived in nitrogen-free media. The Priestia filamentosa strain AL4 showed the greatest HCN production, whereas B. paralicheniformis strain CR1 was notable for higher auxin production. The Bacillus sp. strains SS4 and CS1 exhibited greater tolerance than other isolates in a medium containing 600 mM of NaCl. Additionally, inoculating these isolates into soil significantly alleviated the salinity and drought stress on Zea mays seedlings. These findings suggest that further investigation into these strains as microbial inoculants could be beneficial for mitigating salt and drought stress in plants.

鉴于与盐生植物根瘤菌层和植生层相关的细菌的益处,本研究重点考察了从 Cressa cretica、Suaeda aegyptiaca 和 Alhagi graecorum 分离出来的细菌促进植物生长的特性。在测试的 33 个分离菌株中,有 9 个表现出促进植物生长的特性。枯草芽孢杆菌 CS5 菌株和 SS4 菌株对病原真菌 Fusarium oxysporum 的生长抑制作用显著,分别为 47% 和 45%。芽孢杆菌 SS4 和 CS1 菌株在溶解磷和锌方面的表现令人印象深刻,浓度分别达到 259 和 271 mg L-1。此外,木葡萄球菌(Staphylococcus xylosus)菌株 SR2、芽孢杆菌(Bacillus sp.Priestia filamentosa 菌株 AL4 的 HCN 产量最高,而 B. paralicheniformis 菌株 CR1 的辅酶产量较高。与其他分离菌株相比,芽孢杆菌 SS4 和 CS1 菌株在含有 600 毫摩尔 NaCl 的培养基中表现出更强的耐受性。此外,将这些分离菌株接种到土壤中可明显减轻玉米幼苗的盐碱和干旱胁迫。这些研究结果表明,进一步研究这些菌株作为微生物接种剂可能有利于减轻植物的盐胁迫和干旱胁迫。
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引用次数: 0
Roseomonas aestuarii, as a Potential In Situ Surfactin Producer During Hydrocarbon Biodegradation. 玫瑰单胞菌(Roseomonas aestuarii)是碳氢化合物生物降解过程中潜在的原位表面活性素生产者。
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-13 DOI: 10.1002/jobm.202400538
Saman Hosseini, Rouhallah Sharifi, Alireza Habibi, Sholeh Khezri

In situ biosurfactant production by hydrocarbon degrader microorganisms is an attractive approach in the bioremediation of oil contamination because of their compatibility, biodegradability, environmental safety, and stability under extreme environmental conditions. Given the high efficiency of bacteria in degrading petroleum hydrocarbons, the present work studied the detection and characterization of a biosurfactant-producing hydrocarbon degrader, Roseomonas aestuarii NB833. This strain was able to synthesize a biosurfactant during the biodegradation of crude oil, which reduced the surface tension of the aqueous system from 70 to 34 mN m-1, with a critical micelle concentration of 200 mg L-1. The emulsification ability of the biosurfactant was sustained at various temperatures, pH values, and salinities. The biosurfactant chemical structure was identified via FT-IR, LC-MS, and NMR analyses. These analyses confirmed the production of surfactin-C14 with a molecular mass of 1007 g mol-1. These results revealed the high potential of R. aestuarii NB833 as an in situ surfactin-producing bacteria for bioremediation applications under extreme environmental conditions.

由于碳氢化合物降解微生物具有兼容性、生物降解性、环境安全性以及在极端环境条件下的稳定性,因此由它们原位生产生物表面活性剂是一种具有吸引力的石油污染生物修复方法。鉴于细菌降解石油碳氢化合物的高效性,本研究对一种生产生物表面活性剂的碳氢化合物降解菌 Roseomonas aestuarii NB833 进行了检测和表征。该菌株能在原油生物降解过程中合成一种生物表面活性剂,它能将水体系的表面张力从 70 mN m-1 降低到 34 mN m-1,临界胶束浓度为 200 mg L-1。生物表面活性剂的乳化能力在不同的温度、pH 值和盐度下都能保持。通过 FT-IR、LC-MS 和 NMR 分析确定了生物表面活性剂的化学结构。这些分析证实,产生了分子质量为 1007 g mol-1 的表面活性素-C14。这些结果揭示了 R. aestuarii NB833 作为原位表面活性剂生产菌在极端环境条件下进行生物修复应用的巨大潜力。
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引用次数: 0
Regulation of MareA Gene on Monascus Growth and Metabolism Under Different Nitrogen Sources. 不同氮源条件下 MareA 基因对蒙那斯古斯生长和代谢的调控
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-13 DOI: 10.1002/jobm.202400611
Zhuolan Li, Sicheng Zhang, Shixin Guo, Ailing Li, Yurong Wang

Monascus is a widely used natural microorganism in our country, which can produce useful secondary metabolites. Studies have shown that the nitrogen source directly affects the growth, reproduction, and secondary metabolites of Monascus. As a global transcriptional regulator of nitrogen metabolism, MareA gene is involved in the regulation of secondary metabolism. In this study, we found the MareA gene that is highly homologous to the AreA gene sequence, and used MareA to obtain ΔMareA and OE-MareA. Three strains were cultured with glutamine, urea, NaNO3, and (NH4)2SO4 nitrogen sources. The Monascus pigments and related genes were analyzed by solid-state fermentation under different nitrogen sources. The results showed that the pigment production of the ΔMareA decreased, but the OE-MareA did the opposite. The secondary metabolites of the three strains were analyzed by HPLC and expression level of pigment biosytnthesis gene was determined by RT-qPCR. The relative expression levels of four key Monascus pigment genes in ΔMareA were significantly upregulated in mppE gene, but downregulated in MpPKS5, mppG, and mppD genes. Monascus pigment genes were increased in OE-MareA. In terms of growth regulation, the expression of VosA and LaeA genes was significantly reduced in ΔMareA, while OE-MareA significantly promoted the expression of GprD genes. The pigment production and gene expression in ΔMareA were significantly lower than that of C100, while the opposite was true of OE-MareA when NaNO3 was added to the culture medium. In conclusion, MareA gene had different regulatory effects on Monascus growth and pigments metabolism under different nitrogen sources.

莫纳氏菌是我国广泛使用的天然微生物,可产生有用的次生代谢产物。研究表明,氮源直接影响莫纳氏菌的生长、繁殖和次生代谢产物。作为氮代谢的全局转录调控因子,MareA基因参与了次生代谢的调控。本研究发现了与 AreA 基因序列高度同源的 MareA 基因,并利用 MareA 获得了 ΔMareA 和 OE-MareA。用谷氨酰胺、尿素、NaNO3 和 (NH4)2SO4 氮源培养了三个菌株。在不同氮源条件下,通过固态发酵分析了莫纳斯卡色素及相关基因。结果表明,ΔMareA 的色素产量减少,而 OE-MareA 则相反。通过高效液相色谱分析了三株菌株的次级代谢产物,并通过 RT-qPCR 测定了色素生物合成基因的表达水平。在ΔMareA中,四个关键的莫纳色素基因的相对表达水平显著上调,其中mppE基因上调,而MpPKS5、mppG和mppD基因下调。OE-MareA中的蒙脱石色素基因有所增加。在生长调节方面,ΔMareA 中 VosA 和 LaeA 基因的表达明显减少,而 OE-MareA 则明显促进了 GprD 基因的表达。在培养基中加入 NaNO3 时,ΔMareA 的色素产量和基因表达量明显低于 C100,而 OE-MareA 则相反。总之,在不同氮源条件下,MareA基因对蒙那斯菌的生长和色素代谢具有不同的调控作用。
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引用次数: 0
Conservation of the Polyamines Pathway in Ustilaginomycetes A Genomic and Experimental Approach. 多胺途径在子囊菌中的保存 基因组和实验方法
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-11 DOI: 10.1002/jobm.202400561
Domingo Martínez-Soto, Albo J Hernández-Rojas, Laura Valdés-Santiago, Luis F García-Ortega, Adriana Ramírez-Martínez, Elías Trujillo-Esquivel, Fernando Pérez-Rodríguez, Lucila Ortiz-Castellanos, Claudia G León-Ramírez, Edgardo Ulises Esquivel-Naranjo, José Ruiz-Herrera, José Antonio Cervantes-Chávez

Polyamines are organic and aliphatic molecules essential for the growth, development, and survival of both eukaryotes and prokaryotes. In fungi, polyamines play a crucial role in cellular differentiation and pathogenesis. Since fungi and animals are closely related evolutionarily, and fungi can be easily genetically manipulated in the lab, they serve as excellent models for studying polyamine metabolism and the molecular mechanisms controlled by these biomolecules. Although the metabolism of polyamines has been extensively studied in model fungi such as Saccharomyces cerevisiae and Ustilago maydis, the conservation of the polyamine biosynthesis pathway in other Ustilaginomycetes, a class of fungi that includes phytopathogens, saprophytes, mutualists, and mycorrhizae, has not been thoroughly investigated. In this study, using a genomic and bioinformatics approach, we analyzed the conservation of the polyamine biosynthesis pathway in Ustilaginomycetes. Additionally, we confirmed the functional conservation of ornithine decarboxylase (Odc), which is involved in the synthesis of putrescine, one of the most important polyamines in fungi and complex multicellular eukaryotic organisms, using genetics and molecular biology tools. Moreover, we identified the differentially regulated genes by this polyamine in U. maydis. This research provides insights into the similarities and differences in the conservation of the polyamine biosynthesis pathway in fungi, and it expands our understanding of the role of polyamines and the mechanisms regulated by these molecules in eukaryotes.

多胺是真核生物和原核生物生长、发育和生存所必需的有机脂肪族分子。在真菌中,多胺在细胞分化和致病过程中起着至关重要的作用。由于真菌和动物在进化过程中关系密切,而且真菌很容易在实验室中进行遗传操作,因此它们是研究多胺代谢和这些生物大分子控制的分子机制的极佳模型。虽然多胺的新陈代谢在模式真菌如酿酒酵母(Saccharomyces cerevisiae)和麦角菌(Ustilago maydis)中得到了广泛的研究,但多胺生物合成途径在其他子囊菌(Ustilaginomycetes)中的保存情况还没有得到深入的研究。在这项研究中,我们利用基因组学和生物信息学方法,分析了多胺生物合成途径在子囊菌中的保存情况。此外,我们还利用遗传学和分子生物学工具证实了鸟氨酸脱羧酶(Odc)的功能保守性,该酶参与了腐胺的合成,而腐胺是真菌和复杂多细胞真核生物中最重要的多胺之一。此外,我们还确定了这种多胺在 U. maydis 中的不同调控基因。这项研究深入揭示了真菌中多胺生物合成途径的异同,拓展了我们对真核生物中多胺的作用及其调控机制的认识。
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引用次数: 0
Harnessing Biocontrol Potential of Streptomyces rochei Against Pythium aphanidermatum: Efficacy and Mechanisms. 利用 Streptomyces rochei 对 Pythium aphanidermatum 的生物防治潜力:功效与机制。
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-10 DOI: 10.1002/jobm.202400531
Iruthayasamy Johnson, Rangasamy Kavitha, Muthusamy Karthikeyan, Mookkan Paramasivan, Dhanabalan Shanmuga Priya, Rangasamy Anandham, Sevugapperumal Nakkeeran

Tomato (Solanum lycopersicum) and chilli (Capsicum annuum) are globally significant vegetable crops susceptible to damping-off disease caused by Pythium aphanidermatum, leading to substantial yield losses. The study aimed to document the biocontrol and plant growth promotion potential of Streptomyces rochei against damping-off disease in tomato and chilli. The actinobacterial isolates ACS18 followed by ACT30, and AOE12 were accomplished as the most effective antagonists against P. aphanidermatum in vitro. Molecular characterization confirmed these isolates as members of Streptomyces genus, with ASH 18 the top performer identified as S. rochei isolate. Analysis of biomolecule through GC-MS during ditrophic interaction between pathogen and S. rochei showed the presence of various antifungal metabolites which were directly related to suppression of the pathogen. Subsequently, S. rochei was formulated into a talc-based preparation and used as seed treatment and soil application against damping-off. In greenhouse trials, significant reductions in damping-off incidence were observed, Furthermore, seedlings treated with S. rochei displayed enhanced root and shoot lengths compared to the uninoculated controls. These benefits potentiate S. rochei as a promising biocontrol agent and demonstrating its dual benefits of disease suppression and promotion of seedling growth.

番茄(Solanum lycopersicum)和辣椒(Capsicum annuum)是全球重要的蔬菜作物,容易感染由蚜虫(Pythium aphanidermatum)引起的潮湿病,导致大量减产。本研究旨在记录链霉菌对番茄和辣椒受潮病的生物防治和植物生长促进潜力。在体外实验中,放线菌分离物 ACS18、ACT30 和 AOE12 是对 P. aphanidermatum 最有效的拮抗剂。分子鉴定证实这些分离物属于链霉菌属,其中表现最好的 ASH 18 被鉴定为 S. rochei 分离物。通过 GC-MS 分析病原体与 S. rochei 的双营养相互作用过程中的生物大分子,发现存在多种抗真菌代谢物,这些代谢物与抑制病原体直接相关。随后,S. rochei 被配制成以滑石粉为基础的制剂,用于种子处理和土壤施用,以防治潮湿病。此外,与未接种的对照组相比,用 S. rochei 处理过的幼苗根长和芽长均有所提高。这些益处增强了 S. rochei 作为生物防治剂的潜力,并显示出其抑制病害和促进秧苗生长的双重功效。
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引用次数: 0
Optimizing pH and Light for Enhanced Carotenoid Synthesis and Antioxidant Properties in Sub-Aerial Cyanobacteria. 优化 pH 值和光照,增强亚气态蓝藻的类胡萝卜素合成和抗氧化特性。
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-07 DOI: 10.1002/jobm.202400570
Lakshmi Singh, Dibyani Prusty, Maheswari Behera, Kahkashan Perveen, Najat A Bukhari

Carotenoid, natural pigments, synthesized by plants and microbes are now much favored in global markets due to the awareness of their putative health benefits, and a wide array of commercial applications. There is a diversity of natural and synthetic carotenoid, but only a few of them are commercially produced, including carotenes (β-carotene and lycopene) and xanthophylls (astaxanthin, canthaxanthin, lutein, zeaxanthin, and capsanthin). However, for commercial production, plants and algae are more favored than cyanobacteria because of their much less carotenoid synthesis than land plants; although they are well known for producing commercially important carotenoid. But with advances in optimization of their carotenoid production, cyanobacteria can be used as a potential source of carotenoid production in the future allowing us to exploit its various applications. Hence, this study investigated the effects of pH and light conditions on carotenoid production in the sub-aerial cyanobacterium Desertifilum dzianense ON358232.1. The results revealed that the highest carotenoid synthesis occurred under alkaline conditions (pH 9) and red-light exposure, significantly increasing compared to the control (pH 7.2, white light). UV-Vis and FTIR analyses confirmed the presence of β-carotene as the primary carotenoid, demonstrating strong antioxidant potential. The study's findings highlight the optimal environmental parameters for enhancing carotenoid yield, which can be applied for industrial and pharmaceutical uses due to their antioxidant properties.

类胡萝卜素是由植物和微生物合成的天然色素,目前在全球市场上备受青睐,这是因为人们认识到它们对健康的益处,以及广泛的商业应用。天然类胡萝卜素和合成类胡萝卜素种类繁多,但只有少数几种可以进行商业生产,其中包括胡萝卜素(β-胡萝卜素和番茄红素)和黄绿素(虾青素、角黄素、叶黄素、玉米黄素和辣椒黄素)。不过,就商业生产而言,植物和藻类比蓝藻更受青睐,因为它们的类胡萝卜素合成量远低于陆地植物;尽管它们以生产具有重要商业价值的类胡萝卜素而闻名。但是,随着类胡萝卜素生产优化技术的进步,蓝藻在未来可作为类胡萝卜素生产的潜在来源,使我们能够开发其各种应用。因此,本研究调查了 pH 值和光照条件对亚气态蓝藻 Desertifilum dzianense ON358232.1 类胡萝卜素产量的影响。结果发现,在碱性条件(pH 值为 9)和红光照射下,类胡萝卜素的合成量最高,与对照组(pH 值为 7.2,白光照射)相比显著增加。紫外可见光和傅立叶变换红外光谱分析证实,β-胡萝卜素是主要的类胡萝卜素,具有很强的抗氧化潜力。研究结果突出了提高类胡萝卜素产量的最佳环境参数,由于其抗氧化特性,类胡萝卜素可用于工业和医药用途。
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引用次数: 0
Issue Information: Journal of Basic Microbiology. 11/2024 期刊信息:基础微生物学杂志》。11/2024
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-05 DOI: 10.1002/jobm.202470102
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引用次数: 0
Establishing an Interactive Sequence Database for Shiitake Cultivar Identification. 建立香菇栽培品种鉴定互动序列数据库
IF 3.5 4区 生物学 Q2 MICROBIOLOGY Pub Date : 2024-11-05 DOI: 10.1002/jobm.202400452
Jie-Hao Ou, Han-Yun Li, Yun-Shen Lu, Chi-Yu Chen, Yu-Hsuan Fan, Guan Jie Phang, Guan-Ying Huang, Sung-Yuan Hsieh, Yin-Tse Huang

Shiitake mushrooms (Lentinula edodes) hold significant cultural and economic value, particularly in Asia where they are extensively cultivated. The diversification of shiitake cultivars, driven by the need to adapt to various climatic conditions and cultivation methods, has resulted in over 200 distinct cultivars. Reliable identification of these cultivars is crucial for breeding, intellectual property protection, and effective genetic resource management. Traditional morphological methods are inadequate due to their subjectivity and labor-intensive nature. This study leverages nanopore high-throughput sequencing to comprehensively analyze the rDNA regions (SSU, ITS, LSU, IGS) of 41 shiitake strains from Taiwan's Bioresource Collection and Research Center (BCRC), comprising 5 wild strains, 33 commercial strains, and 3 wild-commercial hybrids. Our results identified the IGS1 region as the most variable and suitable for cultivar differentiation. Consequently, we developed an interactive online database (https://github.com/Raingel/ShiitakeIGS1) that integrates 317 IGS1 sequences from Taiwan, Japan, and China. This platform allows users to upload their IGS1 sequences and identify similar cultivars through a user-friendly interface, enhancing the precision and efficiency of shiitake cultivar identification.

香菇(Lentinula edodes)具有重要的文化和经济价值,尤其是在广泛种植香菇的亚洲。由于需要适应各种气候条件和栽培方法,香菇栽培品种不断多样化,目前已有 200 多个不同的栽培品种。这些栽培品种的可靠鉴定对于育种、知识产权保护和有效的遗传资源管理至关重要。传统的形态学方法因其主观性和劳动密集型而存在不足。本研究利用纳米孔高通量测序技术,全面分析了台湾生物资源收集与研究中心(BCRC)41个香菇菌株的rDNA区域(SSU、ITS、LSU、IGS),包括5个野生菌株、33个商业菌株和3个野生-商业杂交种。我们的研究结果表明,IGS1 区域的变化最大,适合用于栽培品种的区分。因此,我们开发了一个交互式在线数据库(https://github.com/Raingel/ShiitakeIGS1),整合了来自台湾、日本和中国的 317 个 IGS1 序列。该平台允许用户上传其 IGS1 序列,并通过友好的用户界面识别相似的栽培品种,从而提高香菇栽培品种鉴定的精确度和效率。
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Journal of Basic Microbiology
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