Methodological bias in the seed bank flora holds significant implications for understanding seed bank community functions

• Persistent seed banks are a key plant regeneration strategy, buffering environmental variation to allow population and species persistence. Understanding seed bank functioning within herb layer dynamics is therefore important. However, rather than assessing emergence from the seed bank in herb layer gaps, most studies evaluate the seed bank functioning via a greenhouse census. We hypothesise that greenhouse data may not reflect seed bank‐driven emergence in disturbance gaps due to methodological differences. Failure in detecting (specialist) species may then introduce methodological bias into the ecological interpretation of seed bank functions using greenhouse data.
• The persistent seed bank was surveyed in 40 semi‐natural grassland plots across a fragmented landscape, quantifying seedling emergence in both the greenhouse and in disturbance gaps. Given the suspected interpretational bias, we tested whether each census uncovers similar seed bank responses to fragmentation.
• Seed bank characteristics were similar between censuses. Census type affected seed bank composition, with >25% of species retrieved better by either census type, dependent on functional traits including seed longevity, production and size. Habitat specialists emerged more in disturbance gaps than in the greenhouse, while the opposite was true for ruderal species. Both censuses uncovered fragmentation‐induced seed bank patterns.
• Low surface area sampling, larger depth of sampling and germination conditions cause underrepresentation of the habitat‐specialised part of the persistent seed bank flora during greenhouse censuses. Methodological bias introduced in the recorded seed bank data may consequently have significant implications for the ecological interpretation of seed bank community functions based on greenhouse data.

     

围封沙质草甸土壤种子库与幼苗库的特征

采用野外定点取样和萌发实验相结合的方法,研究了科尔沁沙地围封沙质草甸土壤种子库和幼苗库的特征.结果表明:土壤种子库总密度为13854±1651有效种子数/m2,而幼苗库的总密度为808±164株/m2,仅为土壤种子库总密度的6%,土壤种子库与幼苗库总密度之间存在显著的差异 F=36.0,n=219,P<0.001 .土壤种子库与幼苗库的植物种数分别为37和44,其中一、二年生草本植物分别占种子库与幼苗库植物种数的62%和50%,而多年生草本植物所占的比例分别为24%和41%,灌木所占的比例很小,分别为14%和9%.土壤种子库与幼苗库种类组成上的相似性系数为0.667,表现出较小的异质性.土壤种子库密度与幼苗库密度之间存在显著的相关性,其间关系可用三次曲线来描述.     

Organisation of the soil seed bank in mixed chaparral

Seed densities, estimated from germinations under glasshouse conditions, were determined for fire-treated and control soils sampled from north and south facing stands of mixedAdenostoma fasciculatum-Ceanothus greggii chaparral that last burned 10, 17, 36, 62 and 86 years before 1987. A total of 53 species was recorded. Total germinable seed density was not influenced by aspect nor by an experimental fire treatment, however, densities varied significantly, but not predictably, over the time since fire sequence. Species diversity was significantly lower in the 86 year old stand, but neither diversity or richness was influenced by the fire treatment. Soils from north facing slopes supported a higher species diversity overall, and seed densities of six species were significantly higher on north than on south slopes.We identify two functional groups in the seed bank on the basis of the direct effects of fire on seed densities: a fire-dependent group, comprising 6 species and about 21% of the total seed bank, in which germinable densities increased after the fire treatment, and a fire-independent group, made up of 11 species and almost two-thirds of the seed bank. The fire-independent group is further separated into two: a shrub-centred sub-group (Crassula erecta, Filago californica, Pterostegia drymarioides, Streptanthus heterophyllus andCryptantha intermedia) maintained larger seed banks in older stands and was associated with shrub cover; and an opportunistic sub-group (Camissonia hirtella, Gnaphalium chilense, Mimulus pilosus andSenecio vulgaris) tended to have larger seed banks in younger stands and was associated with canopy gaps.Overall, the soil seed assemblage from this mixed chaparral does not appear to be tightly coupled to fire-generated opportunities for recruitment. The reason for this is that the fire-dependent group represents only 6 species. In addition, among the fire-independent species, the shrub-centred group of 5 annuals made up almost 40% of total soil seed density. This group shows ecological and taxonomic affinities with desert annuals.     

城市绿地种子库的初步研究

对城市绿地土壤种子库的组成、种群数量、空间分布和物种多样性进行了初步研究,结果表明：城市绿地土壤种子库存中共出现植物42种,其中在第一层中共出现植物1 477株,多样性指数为2.05,均匀度是0.58,最大的物种多样性指数是3.56,第二层的物种多样性指数,均匀度和最大物种多样性指数均比第一层要低,分别为1.94、0.56和3.47,植物种类也要少一些。城市绿地土壤种子库中种的丰富度、种子苗量、多样性指数均不如远郊区山地天然次生林。城市绿地土壤种子库中蕴藏着一些潜在种群,有些植物种可以用于城市绿化建设。     

Postfire seed bank dynamics in semiarid grasslands

We evaluated the combined effects of fire after drought on the seed bank composition and its role in the postfire recovery of NW Patagonia grasslands. During three years, we monitored the seed bank and the aboveground vegetation. Species were arranged in functional groups and Detrended Correspondence Analysis was used to separate sites according to species and functional groups. Similarity between aboveground vegetation and seed bank was calculated with SØrensen Index. In the first year, the seed density was similar in the control and burned sites and was lower than following years in all the sites. The species that survived the high temperatures were all annuals with the exception of the perennial species Fabiana imbricata and Rumex acetosella. In the second postfire year, the diversity and seed density increased due to the contribution of fugitive species (rare in the community) and exotic annual species. Seed bank of perennial species was the most affected by fire and just recovered in the third year. Drought did not affect the similarity between the seed bank and vegetation. Fire had low impact on the total seed bank, probably due to the heat buffering nature of the soil, whereas drought reduced significantly seed bank size and richness. Seed bank contributes to grassland richness maintenance.     

Timing of seed dispersal generates a bimodal seed bank depth distribution

The density of soil seed banks is normally highest at the soil surface and declines monotonically with depth. Sometimes, for a variety of reasons, peak density occurs below the surface but, except in severely disturbed soils, it is generally true that deeper seeds are older. In seasonally dry habitats that develop deep soil cracks during the dry season, it is possible that some seeds fall down cracks and rapidly become deeply buried. We investigated this possibility for three dominant clonal perennials (Scirpus maritimus, S. litoralis, and Juncus subulatus) in the Do?ana salt marsh, a nontidal marsh with a Mediterranean climate located in southwest Spain. Two species, which shed most of their seed during the dry season and have seeds with low buoyancy, had bimodal viable seed depth distributions, with peak densities at the surface and at 16-20 cm. A third species, which shed most seeds after soil cracks had closed and had seeds with high buoyancy, had viable seeds only in surface soil. Bimodal seed bank depth distributions may be relatively common in seasonally dry habitats with fine-textured soils, but their ecological significance has not been investigated.     

Shading results in depletion of the soil seed bank

To what extent is the decline of characteristic dry alvar species related to the decline in the soil seed bank during scrub encroachment? We recorded the number of flower stems in the vegetation in relation to light attenuation along an encroachment series progressing from open alvar through small gaps inside dense scrub of Juniperus communis (cover of 60%) to intact dense scrub (cover of 100%) on the island of Öland, Sweden. This measurement of potential reproduction (number of flower stems) was then compared to the number of species in the soil seed bank at each site along the alvar encroachment series. Scrub encroachment results in light attenuation between and under the shrubs. The total number of flower stems averaged over all species was similar between gaps and open alvar, but that of alvar species was significantly lower in the gaps, indicating that light attenuation could reduce their seed set. Shading in gaps is related to depletion of the soil seed bank and loss of alvar species, particularly those that do not form a persistent soil seed bank.     

Management history affects grassland seed bank build-up

Disturbance in the form of different management regimes affects established vegetation, but how the same management affects the corresponding seed banks is poorly understood. We used the seedling emergence method to investigate how present and previous management intensity impacts the dynamics of established vegetation and corresponding seed bank in six semi-natural grasslands (three pastures and three road verges) in W Norway. The increased management intensity reduced seed bank species richness but increased seedling density and the fraction of species with a persistent seed bank. Higher intensity also increased the components’ floristic similarity, probably through formation of gaps where seeds may germinate. Moreover, the seed bank responded in parallel with the established vegetation to underlying environmental variables as well as to management intensity. Management intensity hence impacted directly on many aspects of seed bank—established vegetation relationships, and controlled established vegetation partly through seed bank dynamics involving both temporal and spatial dispersal.     

Influence of management on the seed production and seed bank of calcareous fen species

Abstract. The dynamics of the seed production and seed bank of two dominant perennial species of calcareous fens were investigated in response to different mowing frequency, fallow or pasture. The production of fertile shoots responded strongly to management practices. On sites where mowing alternated with fallow, autumn mowing led to an increase of fertile shoot density in Schoenus ferrugineus and a decrease in Molinia caerulea in the subsequent season. Repeated annual mowing after long-term fallow raised the density in Schoenus and inhibited initiation of flowering shoots in Molinia. Seed set and viability were influenced mainly by climatic or other factors. Variation of seed production between sites and in consecutive years at the same site could thus be large. The relationship between total seed production and seed bank was weak, but it improved when germination rates were included in the calculation. As the seed bank was generally smaller than the viable seed production, low survival and a high turnover of seeds in the upper soil layers is assumed for both species. Implications for recruitment strategies are discussed.     

Recent advances in soil seed bank research

Soil seed bank is an important component of ecosystem resilience and represents a stock of regeneration potential in many plant assemblages. Soil seed banks can be used to predict the composition of new plant recruitment. Species overcome periods of unfavorable weather conditions by building up a large seed bank. With this strategy, the species diversity is preserved and information on their dynamics and structure is retained. The research on soil seed bank has received wide interest because of its important role in plantation renovation and restoration, biological diversity preservation, vegetation succession and diffusion processes and other aspects. This paper reviews the relationship between soil seed bank and disturbance, geographic factor, vegetation and seed size and is aimed at providing some useful reference for future research.     

Relationships among the seed rain,seed bank and vegetation of a Hawaiian forest

Abstract. Hawaiian ecosystems are prone to invasion by alien plant species. I compared the seed rain, seed bank, and vegetation of a native Hawaiian forest to examine the potential role that seed ecology plays in allowing alien species to invade native forest. Absolute cover of seed plants in the forest was 126 %, annual seed rain was 5 713 seeds m^-2 yr^-1, and the mean density of seedlings emerging from the seed bank averaged across four seasons was 1 020/m². The endemic tree Metrosideros polymorpha was the most abundant species in the vegetation, seed rain and winter seed bank. Overall, native seed plants comprised 95 % of the relative cover in the vegetation and 99 % of the seeds in the seed rain, but alien species comprised 67 % of the seeds in the seed bank. Alien species tended to form persistent seed banks while native species formed transient or pseudo-persistent seed banks. Dominance of the seed bank by alien species with persistent seed banks suggests that aliens are favorably placed to increase in abundance in the vegetation if the forest is disturbed.     

Restoration of ditch bank plant species richness: The potential of the soil seed bank

Abstract. Small‐scale landscape elements, such as ditch banks, play an important role in preserving plant species richness in agricultural landscapes. In this study, we investigate whether the seed bank might be useful for restoring the above‐ground plant species richness. We studied the vegetation and seed bank composition at six species‐rich and six species‐poor ditch banks, where agri‐environment schemes are running to maintain and enhance ditch bank plant diversity. We show that the number of species in the seed bank was low, regardless of the number of species in the established vegetation. Moreover, the seed bank was always dissimilar to the established vegetation. Target species for nature conservation were occasionally present in the seed bank at both species‐poor and species‐rich sites, but rarely so if the species was absent from the established vegetation. We conclude that the potential use of the seed bank for restoration of ditch banks is minimal. At present, plant species richness seems to be largely controlled by germination opportunities; high biomass and competition appear to hamper germination at species‐poor sites. We recommend continued nutrient reduction at such sites. Soil disturbance measures and deliberate sowing should also be considered.     

Soil seed bank of the waste landfills in South Korea

The restoration of urban landfill is a topic of growing interest in reclamation ecology as the acreage of abandoned sites near cities increases. The goals of this study were to assess the ecological status of waste landfills and to elucidate the role of seed banks in the establishment of vegetation at these sites. The study sites were located at five landfills around Seoul and Kyongki Province. On average, soils were sampled on 20 plots per landfill in 2001 to record species composition and to estimate the number of seeds in the soil. Soil seed bank vegetation and the individual number of seedlings that germinated were recorded using the seedling emergence method. Relative density per species was calculated from the number of individual seedlings. We conducted canonical correspondence analysis (CCA) using the program CANOCO to survey the relationships between 23 environmental variables and plant importance values. Environmental variables included categorical and numerical variables (landfill age, landfill size, distance from landfill edge, human disturbance level, slope, periodic management level) and soil physico-chemical variables (bulk density, soil moisture content, organic matter content, total N, available P, K, Na, Ca, Mg, Cd, Cr, Cu, Fe, Mn, Ni, Pb, and Zn). The mean seedling density per m ² differed significantly among sites (P < 0.05). As landfill age increased, the mean seedling density per m ² decreased. The mean seedling density of the Sangpaedong landfill, which was less than 1 year old, was higher than that found in 6- and 7-year-old landfills. The Sangpaedong landfill mainly contained seeds of Chenopodium albumL. and Digitaria ciliaris(L.) SCOP. With regard to early vegetative colonization in landfills, our results highlighted the importance of seed banks occurring in cover soils. Cover soils, derived from various sources, will determine landfill landscapes because of different seed banks present in them. The first axis of the CCA was correlated with landfill age, Na, and human disturbance level, while the second axis was correlated with landfill size, slope, periodic management level, Zn, total N, and organic matter content. Understanding seed banks in landfill cover soils is important, therefore, for proper landfill management and restoration.     

Comprehensive genotyping of the USA national maize inbred seed bank

Background

Genotyping by sequencing, a new low-cost, high-throughput sequencing technology was used to genotype 2,815 maize inbred accessions, preserved mostly at the National Plant Germplasm System in the USA. The collection includes inbred lines from breeding programs all over the world.

Results

The method produced 681,257 single-nucleotide polymorphism (SNP) markers distributed across the entire genome, with the ability to detect rare alleles at high confidence levels. More than half of the SNPs in the collection are rare. Although most rare alleles have been incorporated into public temperate breeding programs, only a modest amount of the available diversity is present in the commercial germplasm. Analysis of genetic distances shows population stratification, including a small number of large clusters centered on key lines. Nevertheless, an average fixation index of 0.06 indicates moderate differentiation between the three major maize subpopulations. Linkage disequilibrium (LD) decays very rapidly, but the extent of LD is highly dependent on the particular group of germplasm and region of the genome. The utility of these data for performing genome-wide association studies was tested with two simply inherited traits and one complex trait. We identified trait associations at SNPs very close to known candidate genes for kernel color, sweet corn, and flowering time; however, results suggest that more SNPs are needed to better explore the genetic architecture of complex traits.

Conclusions

The genotypic information described here allows this publicly available panel to be exploited by researchers facing the challenges of sustainable agriculture through better knowledge of the nature of genetic diversity.     

森林土壤种子库与天然更新

论述了森林土壤种子库的特点：（1）森林土壤种子库密度小于耕作土壤和草地,并且受森林类型和年龄的影响,变化幅度很大;（2）森林土壤种库的种类组成在森林的不同演替阶段,受其地上植被影响的程度不同;（3）森林土壤种子库的动态变化是周期化因数和随机性因数的结合,并从土壤种子库的时间动态和空间分布角度,分析了土壤种子库对天然更新的影响,森林土壤种子库是天然更新的物质基础,种子库的结构和功能影响天然更新能力的方向,因此能影响土壤种子库格局变化的各种因子或措施,均能显著地促进或妨碍森林的天然更新,根据森林土训种子库的时空格局特点及影响更新的障碍因子,可以采用人工的辅助措施促进更新,同时,对于森林土壤种子库的研究应着眼于应用干扰生态学的基本理论,以退化生态系统的重建和群落交错区的演替为主要内容,研究方法应以长期定位观测为宜。     

天然东北红豆杉土壤种子库研究

在黑龙江省穆棱东北红豆杉自然保护区内,对10株天然东北红豆杉结实母树冠下的土壤种子库进行了调查分析.结果表明:东北红豆杉土壤种子库中的种子数量在垂直方向和水平方向上都表现出明显的规律性.在不同深度土层中的种子数量差异显著(p＜0.05).枯枝落叶层及0～5cm土层集中了最大量的种子,占总量的84%,随土层深度的增加,种子数量逐渐减少,15cm以下极少有种子出现.土壤种子库中具有活力的种子数量极少,不到总量的1%.种子丧失活力的首要原因是被昆虫和啮齿类动物啃食,占损失量的52%,其次是腐烂,占29%.在水平方向上,东北红豆杉种子具有近母株分布的特点,且在不同方向上种子数量差异极显著(p＜0.01).当年下落到地面的东北红豆杉种子,按远离母株的顺序,种子数量逐渐减少;在围绕母株的八个方向上,东向的种子数量最多,其次是东北、北和东南方向,西面的种子数量最少.当年下落的3%的完好种子补充到土壤种子库中.自然条件下,东北红豆杉以种子繁殖,土壤种子库是其自然更新及种群恢复的重要基础,本研究结果对于东北红豆杉濒危机制的探索及种群恢复具有重要的理论意义.     

持久土壤种子库研究综述

土壤种子库是指存在于土壤上层凋落物和土壤中全部存活种子,简单地可分为短暂土壤种子库和持久土壤种子库。即使给予理想的萌发条件如季节、温度、湿度等,土壤种子库中也仍有部分种子保持休眠状态,休眠的种子组成了持久土壤种子库。持久土壤种子库具有在承受了空间或时间上不可预测的干扰的植被中发挥繁殖能力的潜势,因此,其在植被承受干扰后的恢复、管理和重建中常常起关键作用。研究持久土壤种子库能丰富生物多样性的内容,同时,可以为深入了解植被更新提供更多的信息。本文从持久土壤种子库的研究方法、分类方法、指示因子、生态意义,以及持久土壤种子库研究中存在的问题和今后的工作进行综述,试图为将来的工作奠定基础。     

Structural properties of the seed bank and the two island diffusion

Journal of Mathematical Biology - We investigate various aspects of the (biallelic) Wright–Fisher diffusion with seed bank in conjunction with and contrast to the two-island model analysed...