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Epitranscriptomic modulations optimize crop traits via messenger RNA modifications. 通过信使RNA修饰,表观转录组调节优化作物性状。
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-23 DOI: 10.1111/nph.71117
Yicheng Ren,Dong Li,Brian D Gregory,Fei Li,Fredy Agil Raynaldo,Quan Ma,Zisheng Luo
Rising global demand for food quantity and quality requires precision strategies on fine-tuning trait-related gene expression targeting crop improvement. Dynamic covalent modifications on mRNA add a reversible layer of post-transcriptional regulation on gene expression, yet their trait-level logic in crops remains fragmented. Recent studies connect epitranscriptomic enzymes and readers to yield components, quality traits and stress resilience. Here, we summarize regulatory mechanisms of covalent modifications emerging from 13 functionally validated crop cases across cereals, fiber and horticultural species, focusing on how m6A, m5C, m1A, ac4C, and Ψ reprogramme mRNA molecular functions, such as stability, translation, and RNA compartmentalization. We further discuss the sufficiency and insufficiency of applying current Arabidopsis-based mechanisms to crop improvements, where whole-genome duplication and paralog specialization diversify writer-eraser-reader repertoires and enable species-specific control circuits. Finally, we highlight future directions to transform descriptive maps into predictive breeding tools, emphasizing the need for quantitative, base-resolution profiling with stoichiometric accuracy and the development of programmable, site-specific perturbation systems that can test causal relationships in defined tissues and developmental stages. These advances position epitranscriptomic reprogramming as a complementary route to precision engineering of crop yield and quality.
全球对粮食数量和质量的需求不断增长,需要在微调性状相关基因表达方面采取精确策略,以作物改良为目标。mRNA的动态共价修饰为基因表达增加了一个可逆的转录后调控层,但它们在作物中的性状水平逻辑仍然是碎片化的。最近的研究将表转录组酶和读取器与产量成分、质量性状和应激恢复能力联系起来。在这里,我们总结了13种功能验证的作物中出现的共价修饰的调控机制,包括谷物、纤维和园艺物种,重点关注m6A、m5C、m1A、ac4C和Ψ如何重编程mRNA分子功能,如稳定性、翻译和RNA区室化。我们进一步讨论了将当前基于拟南芥的机制应用于作物改良的充充性和不足性,其中全基因组复制和平行特化使写入-擦除-读取器多样化,并启用物种特异性控制电路。最后,我们强调了将描述性图谱转化为预测育种工具的未来方向,强调了对具有化学计量精度的定量、基本分辨率分析的需求,以及可编程的、特定位点的扰动系统的开发,这些系统可以测试特定组织和发育阶段的因果关系。这些进展使表转录组重编程成为作物产量和品质精确工程的补充途径。
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引用次数: 0
Interplay between high‐energy quenching and state transitions in Chlamydomonas reinhardtii : a single‐cell approach 莱茵衣藻高能猝灭和状态转变之间的相互作用:单细胞方法
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-23 DOI: 10.1111/nph.71001
Aliénor Lahlou, Marcelo Orlando, Sandrine Bujaldon, William Gaultier, Eliora Israelievitch, Peter Hanappe, Thomas Le Saux, Ludovic Jullien, David Colliaux, Benjamin Bailleul
Summary Studying cell‐to‐cell heterogeneity is essential to understand how unicellular organisms respond to stresses. We introduce a single‐cell analysis framework that enables the study of intercellular heterogeneity of photosynthetic traits, particularly their interactions within individual cells that have identical genotypes, cellular contexts and histories. Our approach combines single‐cell imaging of Chl a fluorescence with machine learning, and we study light stress responses in Chlamydomonas reinhardtii as a proof of concept. This framework allows us to score the extent of high‐light responses such as state transitions (qT) and high‐energy quenching (qE). We reveal significant cell‐to‐cell heterogeneity and a strong correlation between qT and qE, undetectable in bulk measurements. This study highlights the value of single‐cell phenotypic analysis for investigating light stress responses in unicellular organisms. We detail the key aspects that come into play to generalize the method to other complex stress responses involving multiple traits.
研究细胞间异质性对于理解单细胞生物如何应对压力至关重要。我们引入了一个单细胞分析框架,可以研究光合特性的细胞间异质性,特别是它们在具有相同基因型、细胞背景和历史的单个细胞内的相互作用。我们的方法结合了Chla荧光的单细胞成像和机器学习,我们研究了莱茵衣藻的光胁迫反应作为概念证明。这个框架允许我们对高光响应的程度进行评分,如状态转换(qT)和高能猝灭(qE)。我们揭示了显著的细胞间异质性和qT与qE之间的强相关性,在批量测量中无法检测到。这项研究强调了单细胞表型分析在研究单细胞生物光胁迫反应中的价值。我们详细介绍了将该方法推广到涉及多个特征的其他复杂应激反应的关键方面。
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引用次数: 0
Status of mycorrhiza research in 2026. 2026年菌根研究现状。
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-23 DOI: 10.1111/nph.71119
Alexandra Dallaire,Hiromu Kameoka
Mycorrhizal symbiosis improves the nutrition of most land plants and plays key roles in nutrient cycling and ecosystem function. To understand and leverage the biology of mycorrhizal symbioses for sustainable agriculture and silviculture and the preservation of terrestrial ecosystems, molecular mechanisms enabling its establishment, function, and regulation are being investigated. Technological and conceptual advances are transforming the field and provide a detailed understanding of the mycorrhizal symbiosis on both the fungal and plant sides. In this viewpoint, we summarize recent advances that move the field toward a mechanistic understanding of mycorrhizal symbiosis, with a particular focus on studies presented at the 7th International Molecular Mycorrhiza Meeting (iMMM) held in Munich in September 2025.
菌根共生改善了大多数陆地植物的营养,在养分循环和生态系统功能中起着关键作用。为了了解和利用菌根共生体的生物学,促进可持续农业和造林以及陆地生态系统的保护,人们正在研究使其建立、功能和调控的分子机制。技术和概念的进步正在改变这一领域,并为真菌和植物方面的菌根共生提供了详细的了解。在这一观点下,我们总结了将该领域推向菌根共生机制理解的最新进展,特别关注于2025年9月在慕尼黑举行的第七届国际分子菌根会议(iMMM)上发表的研究。
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引用次数: 0
Root and microbial contributions to anoxic microsite formation in the rhizosphere: a microfluidic approach 根和微生物对根际缺氧微站点形成的贡献:微流体方法
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-21 DOI: 10.1111/nph.71109
Emily M. Lacroix, Giulia Ceriotti, Daniel Garrido‐Sanz, Sergey M. Borisov, Jasmine S. Berg, Christoph Keel, Pietro de Anna, Marco Keiluweit
Summary Plant root‐associated anoxic microsites may influence the fate of nutrients and contaminants in the rhizosphere, but their dynamics remain relatively unknown. To examine the formation of root‐induced anoxic microsites over space and time, we use microfluidic devices integrated with transparent, planar oxygen sensors in a wheat ( Triticum aestivum ) rhizosphere, with and without soil microorganisms. We found that suboxic (< 2% air saturation) conditions commonly establish at root tips and more rarely establish along more mature root segments, particularly in the presence of soil organic matter and complex microbial communities. Additionally, the distribution of oxygen, and thus root‐induced anoxic microsites, depends on complex interactions among light–dark cycles, growth rate, and presence of microorganisms in the rhizosphere. This study provides real‐time observations of the micron‐scale oxygen dynamics around actively growing roots, thereby linking root physiology to anoxic microsite formation in the rhizosphere. Our work suggests a strong potential for root‐driven anoxic microsite formation, prompting important questions about anoxic microsite impact on biogeochemical processes in natural rhizosphere soil.
植物根相关的缺氧微位点可能影响根际营养物质和污染物的命运,但其动态仍相对未知。为了研究根诱导的缺氧微位点在空间和时间上的形成,我们在小麦(Triticum aestivum)根际中使用了集成了透明平面氧传感器的微流控装置,有和没有土壤微生物。我们发现,低氧(2%空气饱和度)条件通常建立在根尖上,很少沿着更成熟的根段建立,特别是在土壤有机质和复杂微生物群落存在的情况下。此外,氧的分布以及根诱导的缺氧微位点取决于光暗循环、生长速度和根际微生物的存在之间复杂的相互作用。该研究提供了活跃生长根系周围微米尺度氧动力学的实时观测,从而将根系生理学与根际缺氧微站点形成联系起来。我们的工作表明,根驱动的缺氧微站点形成的巨大潜力,引发了关于缺氧微站点对自然根际土壤生物地球化学过程影响的重要问题。
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引用次数: 0
Balancing mutualism: choice and sanctions in root–microbe symbioses 平衡互惠:根-微生物共生中的选择与制裁
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-21 DOI: 10.1111/nph.71107
Athira Sethu Madhavan, Lena Maria Müller
Summary Plant roots form symbioses with beneficial microorganisms to enhance nutrient acquisition. Most terrestrial plants form arbuscular mycorrhizal symbiosis (AMS) with obligate biotrophic Glomeromycotina fungi, which supply hosts with mineral nutrients in exchange for carbon through specialized symbiotic hyphal structures (arbuscules) that develop within root cortex cells. Legumes form root nodule symbiosis (RNS) with nitrogen‐fixing rhizobia, which are housed as differentiated bacteroids within specialized symbiotic organs (nodules) and provide plants with ammonia in return for carbon. RNS exhibits high partner specificity, occurring only between compatible hosts and microbes. Conversely, AMS is less specific, although symbiosis outcomes are context‐dependent and influenced by host and fungal genotype, environmental conditions, and microbial competition. In both cases, plants favor high‐performing microsymbionts by recognizing them during symbiosis initiation or by punishing low‐performing symbionts through postcolonization sanctions. Microbes, in turn, employ strategies to manipulate plants for their own benefit. Here, we review the molecular mechanisms underlying partner preference in beneficial plant–microbe interactions and discuss how host partner selection strategies maintain mutualistic stability in AMS and RNS, alongside microbial strategies to evade host control. Understanding the dynamic interplay of functionally diverse plant–microbe symbioses provides a basis for improving mutualisms in both natural and agricultural systems.
植物根系与有益微生物形成共生关系以增强养分获取。大多数陆生植物与专性生物营养型肾小球菌根真菌形成丛枝菌根共生(AMS),通过在根皮质细胞内发育的特殊共生菌丝结构(丛枝)为宿主提供矿物质营养以换取碳。豆科植物与固氮根瘤菌形成根结共生(RNS),根瘤菌作为分化的类细菌被安置在专门的共生器官(根瘤)内,为植物提供氨以换取碳。RNS表现出高度的伴侣特异性,仅发生在兼容的宿主和微生物之间。相反,AMS的特异性较低,尽管共生结果依赖于环境,并受宿主和真菌基因型、环境条件和微生物竞争的影响。在这两种情况下,植物通过在共生开始时识别高效共生菌或通过定殖后制裁惩罚低效共生菌来支持高效共生菌。反过来,微生物也会为了自己的利益而采取各种策略来操纵植物。在这里,我们回顾了有益植物与微生物相互作用中伴侣偏好的分子机制,并讨论了寄主伴侣选择策略如何在AMS和RNS中维持互惠稳定,以及微生物策略如何逃避宿主控制。了解功能多样的植物-微生物共生的动态相互作用,为改善自然和农业系统中的共生关系提供了基础。
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引用次数: 0
Correction to ‘The genetic architecture of floral trait divergence between hummingbird‐ and self‐pollinated monkeyflower ( Mimulus ) species’ 修正“蜂鸟和自花猴花(Mimulus)物种花性状差异的遗传结构”
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-21 DOI: 10.1111/nph.71081
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引用次数: 0
Correction to ‘Novel major loci shape habitat‐associated flowering time variation in Yellowstone monkeyflowers’ 修正“黄石猴花中新的主要基因座形状栖息地相关的开花时间变化”
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-21 DOI: 10.1111/nph.71077
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引用次数: 0
Limitations of temporally linearized soil-water flux gradients in estimating root water uptake. 时间线性化土壤-水通量梯度在估算根系水分吸收方面的局限性。
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-20 DOI: 10.1111/nph.70889
Han Fu,Bingcheng Si,Wenxiu Zou
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引用次数: 0
Metabolic capacities and potential microbial interactions in red and green snow of the Antarctic Peninsula. 南极半岛红、绿雪中的代谢能力和潜在微生物相互作用。
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-20 DOI: 10.1111/nph.71089
Xuejing Chen,Mukan Ji,Decun Yan,Yang Liu,Yunjie Chen,Ruyi Dong,Liang Shen,Nozomu Takeuchi,Weidong Kong
Colored (red and green) snow is widespread in Antarctica due to climate warming. This phenomenon reduces snow albedo, accelerates snowmelt, alters microbial functions, and impacts regional geochemical cycles. Diverse microorganisms are associated with this phenomenon, yet their functions remain poorly understood. We employed metagenomic sequencing to reveal the metabolic interactions and functional specialization within microbial communities of colored snow, focusing on carbon, nitrogen, phosphorus, and sulfur metabolism. While broad metabolic profiles were similar between red and green snow, targeted analysis of specific pathways revealed significant enrichment of denitrification and organic-phosphorus mineralization genes in green snow and labile carbon degradation genes in red snow. Betaproteobacteria were dominant drivers of nitrogen, sulfur, and phosphorus transformation, while diverse eukaryotic algae and bacteria were responsible for carbon fixation. Additionally, we recovered 2257 bacteriophages, 529 algal viruses, and 2302 secondary metabolite gene clusters. Specifically, viruses encoded 126 auxiliary metabolic genes that may influence the elemental cycling of hosts, while secondary metabolites, such as pyoverdine, may assist algal iron acquisition. Our findings offer new insights into the metabolic potentials and interactions of microbial communities in Antarctic colored snow, highlighting their potential relevance to snow biogeochemical processes.
由于气候变暖,彩色(红色和绿色)雪在南极洲广泛存在。这种现象降低了雪的反照率,加速了融雪,改变了微生物的功能,并影响了区域地球化学循环。不同的微生物与这种现象有关,但它们的功能仍然知之甚少。我们利用宏基因组测序揭示了有色雪微生物群落的代谢相互作用和功能专门化,重点研究了碳、氮、磷和硫的代谢。虽然红雪和绿雪的广泛代谢谱相似,但对特定途径的针对性分析显示,绿雪的反硝化和有机磷矿化基因显著富集,红雪的碳降解基因显著富集。Betaproteobacteria是氮、硫和磷转化的主要驱动因子,而各种真核藻类和细菌则负责碳固定。此外,我们还回收了2257个噬菌体,529个藻病毒和2302个次级代谢物基因簇。具体来说,病毒编码了126个辅助代谢基因,这些基因可能影响宿主的元素循环,而次级代谢物,如吡啶,可能有助于藻类获取铁。我们的研究结果为南极彩色雪中微生物群落的代谢潜力和相互作用提供了新的见解,突出了它们与雪生物地球化学过程的潜在相关性。
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引用次数: 0
Soil phosphorus drives subcontinental patterns of carbon isotope discrimination across Australia. 土壤磷驱动澳大利亚次大陆碳同位素区分模式。
IF 9.4 1区 生物学 Q1 PLANT SCIENCES Pub Date : 2026-03-19 DOI: 10.1111/nph.71069
Iftakharul Alam,Alexander W Cheesman,Graham D Farquhar,Thomas J Givnish,Martin G De Kauwe,Ernst-Detlef Schulze,Andrea C Westerband,Ian J Wright,Lucas A Cernusak
Several transects have been established to study the sensitivity of carbon isotope discrimination (Δ13C) in woody plants to mean annual precipitation (MAP) across Australia. These have shown a surprising divergence in Δ13C-MAP sensitivity among subcontinental regions. We analysed previously reported data alongside new measurements from a transect in northeastern Queensland to explore potential drivers of regional-scale Δ13C-MAP sensitivity. Multiple lines of evidence indicated this sensitivity is related to soil phosphorus. In phosphorus-poor regions, Δ13C decreased less with decreasing MAP than in phosphorus-rich regions. Along two contrasting transects in northern Australia, Δ13C correlated with leaf phosphorus in the phosphorus-poor Northern Territory, but not in phosphorus-rich northeastern Queensland, where it instead correlated with leaf nitrogen. Common garden experiments for species from phosphorus-poor vs phosphorus-rich regions showed contrasting relationships between Δ13C and species range MAP. Finally, using an Australia-wide leaf gas exchange dataset, we showed that soil phosphorus influenced the ratio of intercellular to ambient CO2 concentrations (ci : ca), which in turn controls Δ13C; the influence was through stomatal conductance, not photosynthetic capacity. Higher stomatal conductance in phosphorus-poor regions appeared to moderate the decrease in Δ13C with decreasing precipitation. We suggest that high transpiration rates in these regions help to facilitate phosphorus foraging in phosphorus-impoverished, ancient soils.
为了研究木本植物碳同位素识别(Δ13C)对澳大利亚平均年降水量(MAP)的敏感性,建立了几个样带。这些数据显示,次大陆区域在Δ13C-MAP敏感性方面存在令人惊讶的差异。我们分析了以前报告的数据以及昆士兰州东北部样带的新测量结果,以探索区域尺度Δ13C-MAP敏感性的潜在驱动因素。多项证据表明,这种敏感性与土壤磷有关。贫磷区Δ13C随MAP的减小而减小的幅度小于富磷区。在澳大利亚北部的两个对比样带上,Δ13C与缺磷的北领地的叶片磷相关,但在富磷的昆士兰东北部却与叶片氮相关。对贫磷区和富磷区物种进行的普通园林试验表明,Δ13C与物种范围MAP之间存在差异关系。最后,利用澳大利亚范围内的叶片气体交换数据集,我们发现土壤磷影响细胞间与环境CO2浓度的比率(ci: ca),这反过来控制Δ13C;影响主要是通过气孔导度,而不是光合能力。贫磷地区气孔导度较高,减缓了Δ13C随降水的减少。我们认为,这些地区的高蒸腾速率有助于促进磷在磷贫瘠的古代土壤中的觅食。
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