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Genome-wide association study on seed dormancy in barley 大麦种子休眠的全基因组关联研究
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-04-30 DOI: 10.1017/s0960258524000114
Gaofeng Zhou, Lee-Anne McFawn, Xiao-qi Zhang, Tefera Tolera Angessa, Sharon Westcott, Chengdao Li

Seed dormancy is an important trait associated with pre-sprouting and malting quality in barley. Genome-wide association studies (GWASs) have been used to detect quantitative trait loci (QTLs) underlying complex traits in major crops. In the present study, we collected 295 barley (Hordeum vulgare L.) accessions from Australia, Europe, Canada and China. A total of 25,179 single nucleotide polymorphism (SNP)/diversity arrays technology sequence markers were used for population structure, linkage disequilibrium and GWAS analysis. Candidate genes within QTL regions were investigated, and their expression levels were analysed using RNAseq data. Five QTLs for seed dormancy were identified. One QTL was mapped on chromosome 1H, and one QTL was mapped on chromosome 4H, while three QTLs were located on chromosome 5H. This is the first report of a QTL on the short arm of chromosome 5H in barley. Molecular markers linked to the QTL can be used for marker-assisted selection in barley breeding programmes.

种子休眠是与大麦发芽前和发芽质量相关的一个重要性状。全基因组关联研究(GWAS)已被用于检测主要农作物复杂性状的数量性状位点(QTL)。在本研究中,我们从澳大利亚、欧洲、加拿大和中国收集了 295 个大麦(Hordeum vulgare L.)品种。总共 25,179 个单核苷酸多态性(SNP)/多样性阵列技术序列标记被用于种群结构、连锁不平衡和 GWAS 分析。研究了 QTL 区域内的候选基因,并利用 RNAseq 数据分析了这些基因的表达水平。共鉴定出五个种子休眠 QTL。一个 QTL 位于 1H 染色体上,一个 QTL 位于 4H 染色体上,三个 QTL 位于 5H 染色体上。这是首次报道大麦 5H 染色体短臂上的 QTL。与 QTL 相连的分子标记可用于大麦育种计划中的标记辅助选择。
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引用次数: 0
Differences in germination traits of time-separated seed collections of dry forest species from Central Zambia and the potential role of climate 赞比亚中部干旱森林物种分时种子采集的萌芽特性差异及气候的潜在作用
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-04-24 DOI: 10.1017/s0960258524000102
Emmanuel N. Chidumayo

Time-separated seed collections with a separation period of 12–18 years were used to study recent changes in germination traits and the role of climate factors in seven tropical dry forest (TDF) woody species in Zambia, southern Africa. In all the species, peak and final germination were lower in recent (2016–2021) seed collections than in historic (1998–2005) seed collections during the first germination season. However, in species with seed dormancy, both peak and final germination after one year burial were higher in recent seed collections than in historic seed collections. Three monthly climate factors had significant effects on final germination in the different species and the timing of most of these factors was during seed development and ripening that suggest that these factors operated through mother plants. In species with seed dormancy, post-first-year germination of buried seeds responded to climate factors in the regeneration niche. Climate factors that significantly affected germination included those that changed over the separation period between historic and recent seed collections. This indicates that short-time climatic changes may have the potential to impact germination in TDF woody species of southern Africa. The germination responses to climate factors were both positive and negative and it is not clear whether these are adaptations or not. Further research is required to assess the adaptive significance of these changes in germination traits in TDF species of southern Africa.

研究人员利用时间间隔为12-18年的种子采集,研究了非洲南部赞比亚七个热带干旱森林(TDF)木本物种萌芽性状的近期变化以及气候因素的作用。在所有物种中,最近(2016-2021 年)采集的种子在第一个萌发季节的峰值和最终萌发率均低于历史(1998-2005 年)采集的种子。然而,在种子休眠的物种中,最近采集的种子在埋藏一年后的最高萌发率和最终萌发率均高于历史采集的种子。有三个月气候因子对不同物种的最终萌发有显著影响,而且这些因素的出现时间大多在种子发育和成熟期,这表明这些因素是通过母株发挥作用的。在种子休眠的物种中,埋藏种子第一年后的萌发与再生生态位中的气候因子有关。对萌发有重大影响的气候因子包括那些在历史种子采集与近期种子采集之间的间隔期内发生变化的气候因子。这表明,短时间的气候变化可能会影响南部非洲TDF木本物种的萌发。萌芽对气候因素的反应既有积极的,也有消极的,目前尚不清楚这些反应是否是适应性的。需要开展进一步研究,以评估这些变化对南部非洲 TDF 树种萌芽特性的适应意义。
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引用次数: 0
Can alpine species take the heat? Impacts of increased temperatures on early life stages 高山物种能否承受高温?温度升高对早期生命阶段的影响
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-04-22 DOI: 10.1017/s0960258524000096
Alexandra E. Seglias, Michelle DePrenger-Levin

Alpine plant species are particularly vulnerable to climate change. Temperature fluctuations are projected to be most severe at high elevations. Even small shifts in temperature have major consequences on phenology, reproduction, and community composition. Early life stages are arguably the most important processes in the fitness of an individual plant and the dynamics and persistence of plant populations. These initial developmental stages are expected to be more vulnerable to changes in climate than adult life stages. To understand how early life stages of alpine plant species will respond to warming temperatures, seeds and seedlings of two species were exposed to three different temperature regimes. Temperatures were based on current and projected conditions under low and high emission scenarios. Two rare alpine species performed better under warmer temperatures at both the germination and seedling stages. The results show that early life stages of alpine plants may not be at high risk from warming temperatures; however, there are many other shifting climatic factors to consider, resulting from climate change beyond temperature alone.

高山植物物种特别容易受到气候变化的影响。预计高海拔地区的温度波动将最为剧烈。即使是微小的温度变化也会对物候、繁殖和群落组成产生重大影响。可以说,生命早期阶段是植物个体健康状况以及植物种群动态和持久性的最重要过程。与成年生命阶段相比,这些最初的发育阶段预计更容易受到气候变化的影响。为了了解高山植物物种的早期生命阶段将如何应对气温变暖,我们将两个物种的种子和幼苗暴露在三种不同的温度条件下。温度是根据低排放和高排放情景下的当前和预测条件确定的。在温度较高的环境下,两种稀有的高山植物在发芽和幼苗阶段都表现较好。研究结果表明,高山植物的早期生命阶段可能不会因温度升高而面临高风险;然而,除了温度之外,气候变化还导致许多其他气候因素发生变化,需要加以考虑。
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引用次数: 0
Redox imbalance accompanies loss of viability in seeds of two cacti species buried in situ 氧化还原失衡导致两种仙人掌物种的种子失去活力
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-04-15 DOI: 10.1017/s0960258524000011
David A. Guzmán-Hernández, Claudia Barbosa-Martínez, Juan M. Villa-Hernández, Laura J. Pérez-Flores

This work provides insights into the deterioration of cacti seeds of Escontria chiotilla (F.A.C. Weber ex K. Schum) and Stenocereus pruinosus (Otto ex Pfeiff.) Buxbaum stored ex situ at 25 °C, under dry and dark conditions or buried in situ conditions in a xerophytic shrubland. Viability, germination speed, electrolyte leakage and indicators of the redox balance including glutathione content, glutathione half-cell reduction potential (EGSSG/2GSH) and malondialdehyde (MDA), oxidized protein content, together with water-soluble antioxidant enzyme activity were assessed. Over a period of two years of storage, viability was maintained when seeds were stored ex situ at 7–9% water content compared to seeds buried in the soil. A second burial experiment showed that seeds of E. chiotilla maintained viability during a year of storage that included a rainy season followed by a dry season. Thereafter, they died rapidly during the second rainy season. In contrast, those of S. pruinosus started to lose viability after 6 months of burial at the end of the rainy season and were mostly dead at the end of the dry season. This difference in persistence between species was related to a difference in the glutathione content and antioxidant enzyme activities. In both storage experiments, the loss of viability of both species was associated to a EGSSG/2GSH shift to a more oxidative state during burial. Yet, contents in MDA and oxidized soluble proteins were not related to redox imbalance and loss of viability, indicating that these compounds are not good markers of oxidative stress in cacti seeds during storage.

这项研究深入探讨了仙人掌种子 Escontria chiotilla (F.A.C. Weber ex K. Schum) 和 Stenocereus pruinosus (Otto ex Pfeiff.) Buxbaum 在 25 °C、干燥和黑暗条件下原地贮藏或在干旱灌木林中原地埋藏的退化情况。评估了活力、发芽速度、电解质渗漏和氧化还原平衡指标,包括谷胱甘肽含量、谷胱甘肽半电池还原电位(ESSG/2GSH)和丙二醛(MDA)、氧化蛋白质含量以及水溶性抗氧化酶活性。与埋在土壤中的种子相比,在含水量为 7-9% 的条件下原地贮藏的种子在两年的贮藏期内保持了活力。第二次埋藏实验表明,蚕豆种子在包括雨季和旱季在内的一年贮藏期间保持了活力。此后,它们在第二个雨季迅速死亡。相比之下,S. pruinosus 的种子在雨季结束时埋藏 6 个月后开始失去活力,在旱季结束时大部分死亡。物种间存活率的差异与谷胱甘肽含量和抗氧化酶活性的差异有关。在两次贮藏实验中,两个物种活力的丧失都与掩埋过程中 EGSSG/2GSH 转向更氧化的状态有关。然而,MDA 和氧化可溶性蛋白的含量与氧化还原失衡和活力丧失无关,这表明这些化合物不是仙人掌种子在贮藏期间氧化应激的良好标记。
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引用次数: 0
Phylogenetic trends in TZ staining analysis of six deep dormancy seeds 六种深休眠种子 TZ 染色分析的系统发育趋势
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-04-15 DOI: 10.1017/s0960258524000060
Chen Yin Peng, Yu Wu, Wen Hui Huang, Zhi Yun Deng, Xiao Rui Sun, Ming Zhu Wang, Hugh W. Pritchard, Yong Bao Shen, Jin Ya Xu, Xiang Yu Yu, Cong Cong Guo

The assessment of seed quality and physiological potential is essential in seed production and crop breeding. In the process of rapid detection of seed viability using tetrazolium (TZ) staining, it is necessary to spend a lot of labour and material resources to explore the pretreatment and staining methods of hard and solid seeds with physical barriers. This study explores the TZ staining methods of six hard seeds (Tilia miqueliana, Tilia henryana, Sassafras tzumu, Prunus subhirtella, Prunus sibirica, and Juglans mandshurica) and summarizes the TZ staining conditions required for hard seeds by combining the difference in fat content between seeds and the kinship between species, thus providing a rapid viability test method for the protection of germplasm resources of endangered plants and the optimization of seed bank construction. The TZ staining of six species of hard seeds requires a staining temperature above 35 °C and a TZ solution concentration higher than 1%. Endospermic seeds require shorter staining times than exalbuminous seeds. The higher the fat content of the seeds, the lower the required incubation temperature and TZ concentration for staining, and the longer the staining time. And the closer the relationship between the two species, the more similar their staining conditions become. The TZ staining method of similar species can be predicted according to the genetic distance between the phylogenetic trees, and the viability of new species can be detected quickly.

种子质量和生理潜力的评估在种子生产和作物育种中至关重要。在利用四氮唑(TZ)染色法快速检测种子活力的过程中,需要花费大量的人力和物力去探索具有物理障碍的硬质和实心种子的预处理和染色方法。本研究探索了六种硬质种子(椴树、椴树、檫木、亚绣线菊、西伯利亚绣线菊、曼秀雷敦绣线菊)的 TZ 染色方法,并结合种子脂肪含量的差异和物种间的亲缘关系,总结出硬质种子所需的 TZ 染色条件,从而为保护濒危植物种质资源和优化种子库建设提供了一种快速的活力测试方法。对六种硬种子进行 TZ 染色需要高于 35 °C 的染色温度和高于 1%的 TZ 溶液浓度。胚乳种子所需的染色时间短于外胚乳种子。种子的脂肪含量越高,染色所需的培养温度和 TZ 浓度就越低,染色时间就越长。两个物种之间的关系越密切,它们的染色条件就越相似。根据系统发育树之间的遗传距离,可以预测相似物种的 TZ 染色方法,从而快速检测新物种的生存能力。
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引用次数: 0
Likelihood ratio test for the analysis of germination percentages 发芽率分析的似然比检验
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-04-02 DOI: 10.1017/s0960258524000023
Yongha Rhie, Soyeon Lee, Hohsuk Noh
The germination percentage (GP) is commonly employed to estimate the viability of a seed population. Statistical methods such as analysis of variance (ANOVA) and logistic regression are frequently used to analyse GP data. While ANOVA has a long history of usage, logistic regression is considered more suitable for GP data due to its binomial nature. However, both methods have inherent issues that require attention. In this study, we address previously unexplored challenges associated with these methods and propose the utilization of a likelihood ratio test as a solution. We demonstrate the advantages of employing the likelihood ratio test for GP data analysis through simulations and real data analysis.
发芽率(GP)通常用于估算种子群体的存活率。方差分析 (ANOVA) 和逻辑回归等统计方法常用于分析 GP 数据。方差分析的使用历史悠久,而逻辑回归因其二项式性质被认为更适合 GP 数据。然而,这两种方法都有需要注意的固有问题。在本研究中,我们探讨了与这些方法相关的以前未曾探讨过的难题,并提出了使用似然比检验作为解决方案的建议。我们通过模拟和实际数据分析证明了在 GP 数据分析中使用似然比检验的优势。
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引用次数: 0
Interactions between seed functional traits and environmental factors and their influence on germination performance of Australian native species 种子功能特性与环境因素之间的相互作用及其对澳大利亚本土物种萌芽性能的影响
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-03-25 DOI: 10.1017/s0960258523000235
Fernanda C. Beveridge, Alwyn Williams, Robyn Cave, Sundaravelpandian Kalaipandian, Buddhi Dayananda, Steve W. Adkins

Climate variability is expected to increase due to climate change, with projected increases in temperature and erratic rainfall patterns. These changes will alter the environmental cues sensed by seeds, and therefore will impact plant recruitment. This study investigated the effects of seed functional traits (germinability, germination time, synchrony and seed mass) on germination responses of several sub-tropical native Australian plant species under different environmental factors (water stress, salinity and pH). The effect of a hot water pre-treatment was also tested on Fabaceae seeds with known physical dormancy. Seed traits, environmental factors and seed pre-treatments had significant effects on final germination percentage and germination time. Seed mass and time to 50% germination (t50) were also positively correlated. In contrast, pH did not affect germination and there was no interaction between pH and any of the measured seed functional traits. Some species showed a high thermal tolerance to germination and germination was indifferent to light conditions for all species. Results showed that certain seed functional traits interact with environmental factors to influence germination percentage and time. These findings highlight the importance of considering seed functional traits when determining a species germination response under a changing climate. In addition, the findings provide important knowledge to better guide seed-based land restoration programmes.

由于气候变化,气温预计会升高,降雨模式也不稳定,气候变异性预计会增加。这些变化将改变种子感知的环境线索,从而影响植物的吸收。本研究调查了在不同环境因素(水胁迫、盐度和 pH 值)下,种子功能特性(发芽率、发芽时间、同步性和种子质量)对几种澳大利亚亚热带本地植物物种发芽反应的影响。此外,还测试了热水预处理对已知物理休眠的豆科植物种子的影响。种子性状、环境因素和种子预处理对最终发芽率和发芽时间有显著影响。种子质量和 50% 发芽时间(t50)也呈正相关。相比之下,pH 值对萌发没有影响,pH 值与任何测定的种子功能特性之间也没有交互作用。一些物种的萌发表现出较高的耐热性,而所有物种的萌发与光照条件无关。结果表明,某些种子功能特性与环境因素相互作用,影响萌发率和萌发时间。这些发现突出表明,在确定物种对气候变化的萌发反应时,考虑种子功能特性非常重要。此外,这些发现还为更好地指导以种子为基础的土地恢复计划提供了重要知识。
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引用次数: 0
The re-establishment of desiccation tolerance in germinated tomato (Solanum lycopersicum) seeds 重新建立发芽番茄(Solanum lycopersicum)种子的干燥耐受性
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-03-01 DOI: 10.1017/s0960258524000047
Naoto Sano, Jerome Verdier

Desiccation tolerance (DT) of seeds, one of the plant's environmental adaptation mechanisms, allows them to survive as seeds in a quiescent state under extremely water-deficient conditions during the plant's life cycle, followed by seed germination and seedling establishment under favourable water conditions. The seed-DT is lost after radicle emergence; however, there is a developmental period called the ‘DT window’ during which the germinating seeds can re-induce DT following a cue from their ambient low water potential (i.e. mild osmotic stress). The DT re-inducibility within the DT window has been used as a model biosystem for understanding molecular mechanisms that activate/supress DT in a number of plant species. However, the characteristics of the DT window for species particularly important to the agroindustry are still largely fragmented. Here, physiological analyses were performed, aiming to elucidate the properties of the DT window in tomato, a model species for Solanaceae, holding a key strategic position for the seed industry and commercial use around the world. We revealed that (i) the DT window of tomato seeds is closed when the developing radicle reaches about 4 mm after germination, (ii) the most effective ambient water potential to re-induce DT into seeds is about −1.5 MPa and (iii) there is organ specificity of DT re-induction with hypocotyls, showing a longer DT window than cotyledons and roots in post-germination seeds.

种子的干燥耐受性(DT)是植物的环境适应机制之一,可使种子在植物生命周期中的极度缺水条件下以静止状态存活,然后在有利的水条件下萌发和成苗。种子 DT 在胚根萌发后就会消失;不过,有一个称为 "DT 窗口 "的发育期,在此期间,萌发的种子可以根据周围低水势(即轻微的渗透胁迫)的提示重新诱导 DT。DT 窗口内的 DT 再诱导性已被用作一个模型生物系统,用于了解激活/抑制一些植物物种 DT 的分子机制。然而,对于农业工业特别重要的物种来说,DT 窗口的特征在很大程度上仍然是零散的。番茄是茄科植物的典范物种,在全球种子产业和商业应用中具有重要的战略地位,本文对其进行了生理分析,旨在阐明其 DT 窗口的特性。我们发现:(i) 番茄种子的 DT 窗口在萌发后发育的胚根长到约 4 毫米时关闭;(ii) 重新诱导种子 DT 的最有效环境水势约为-1.5 兆帕;(iii) DT 的重新诱导具有器官特异性,在萌发后的种子中,下胚轴的 DT 窗口比子叶和根长。
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引用次数: 0
A classification system for seed (diaspore) monomorphism and heteromorphism in angiosperms 被子植物种子(子囊孢子)单形和异形分类系统
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-02-22 DOI: 10.1017/s0960258523000193
Jerry M. Baskin, Carol C. Baskin

‘Seed heteromorphism’ is a broadly- and loosely-defined term used to describe differences in size/mass, morphology, position on mother plants and ecological function (e.g. dispersal, dormancy/germination) of two or more seeds or other diaspores produced by an individual plant. The primary aim of this review paper was to characterize via an in-depth classification scheme the physical structural design (‘architecture’) of diaspore monomorphism and diaspore heteromorphism in angiosperms. The diaspore classification schemes of Mandák and Barker were expanded/modified, and in doing so some of the terminology that Zohary, Ellner and Shmida, and van der Pijl used for describing diaspore dispersal were incorporated into our system. Based on their (relative) size, morphology and position on the mother plant, diaspores of angiosperms were divided into two divisions and each of these into several successively lower hierarchical layers. Thus, our classification scheme, an earlier version of which was published in the second edition of ‘Seeds’ by Baskin and Baskin, includes not only heteromorphic but also monomorphic diaspores, the Division to which the diaspores of the vast majority of angiosperms belong. The scheme will be useful in describing the ecology, biogeography and evolution of seed heteromorphism in flowering plants.

种子异形 "是一个广义和松散定义的术语,用于描述单株植物产生的两个或多个种子或其他二孢子在大小/质量、形态、在母株上的位置和生态功能(如传播、休眠/发芽)方面的差异。本综述论文的主要目的是通过深入的分类方案,描述被子植物中二孢子单形性和二孢子异形性的物理结构设计("结构")特征。本文对曼达克(Mandák)和巴克(Barker)的二孢子分类方案进行了扩展/修改,并将佐哈里(Zohary)、埃勒纳(Ellner)和什米达(Shmida)以及范德佩尔(van der Pijl)用于描述二孢子散布的一些术语纳入了我们的系统。根据其(相对)大小、形态和在母株上的位置,被子植物的二孢子被分为两个部分,每个部分又被分为几个连续的较低层次。因此,我们的分类方案(其早期版本发表在 Baskin 和 Baskin 合著的《种子》第二版中)不仅包括异形二孢体,还包括单形二孢体,绝大多数被子植物的二孢体都属于单形二孢体。该计划将有助于描述有花植物种子异形的生态学、生物地理学和进化。
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引用次数: 0
Your P-values are significant (or not), so what … now what? 您的 P 值显著(或不显著),那么......现在怎么办?
IF 2.1 3区 生物学 Q2 PLANT SCIENCES Pub Date : 2024-02-16 DOI: 10.1017/s0960258524000035
Héctor E. Pérez

Statistical significance, or lack thereof, is often erroneously interpreted as a measure of the magnitude of effects, correlations between variables or practical relevance of research results. However, calculated P-values do not provide any information of this sort. Alternatively, effect sizes as measured by effect size indices provide complementary information to results of statistical hypothesis testing that is crucial and necessary to fully interpret data and then draw meaningful conclusions. Effect size indices have been used extensively for decades in the medical, psychological and social sciences but have received scant attention in the plant sciences. This Technical Update focuses on (1) raising awareness of these important statistical tools for seed science research, (2) providing additional resources useful for incorporating effect sizes into research programmes and (3) encouraging further applications of these tools in our discipline.

统计意义(或缺乏统计意义)常常被错误地解释为衡量研究结果的效果大小、变量之间的相关性或实际意义。然而,计算得出的 P 值并不能提供任何此类信息。相反,用效应大小指数衡量的效应大小为统计假设检验的结果提供了补充信息,这些信息对于充分解释数据并得出有意义的结论至关重要,也是必要的。数十年来,效应大小指数在医学、心理学和社会科学领域得到了广泛应用,但在植物科学领域却很少受到关注。本技术更新的重点是:(1) 提高对种子科学研究中这些重要统计工具的认识;(2) 提供更多有用的资源,将效应大小纳入研究计划;(3) 鼓励在本学科中进一步应用这些工具。
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引用次数: 0
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Seed Science Research
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