Factors affecting plant diversity during post-fire recovery and succession of mediterranean-climate shrublands in California, USA

Plant community diversity, measured as species richness, is typically highest in the early post‐fire years in California shrublands. However, this generalization is overly simplistic and the present study demonstrates that diversity is determined by a complex of temporal and spatial effects. Ninety sites distributed across southern California were studied for 5 years after a series of fires. Characteristics of the disturbance event, in this case fire severity, can alter post‐fire diversity, both decreasing and increasing diversity, depending on life form. Spatial variability in resource availability is an important factor explaining patterns of diversity, and there is a complex interaction between landscape features and life form. Temporal variability in resource availability affects diversity, and the diversity peak in the immediate post‐fire year (or two) appears to be driven by factors different from subsequent diversity peaks. Early post‐fire diversity is influenced by life‐history specialization, illustrated by species that spend the bulk of their life cycle as a dormant seed bank, which is then triggered to germinate by fire. Resource fluctuations, precipitation in particular, may be associated with subsequent post‐fire diversity peaks. These later peaks in diversity comprise a flora that is compositionally different from the immediate post‐fire flora, and their presence may be due to mass effects from population expansion of local populations in adjacent burned areas.     

Population diversity in salmon: linkages among response,genetic and life history diversity

Response diversity and asynchrony are important for stability and resilience of meta‐populations, however little is known about the mechanisms that might drive such processes. In salmon populations, response diversity and asynchrony have been linked to the stability of their meta‐populations and the fisheries that integrate across them. We examined how population diversity influenced response diversity and asynchrony in 42 populations of Chinook salmon from the Fraser River, British Columbia. We examined diversity in the survival responses to large‐scale ocean climate variables for populations that differed in life history. Different life‐histories responded differently to ocean environmental conditions. For instance, an increase of offshore temperature was associated with decreased survival for a population with ocean rearing juveniles but increased survival for a population with stream rearing juveniles. In a second analysis, we examined asynchrony in abundance between populations, which we then correlated with life history, spatial, and genetic diversity. Populations that were more genetically distant had the most different population dynamics. Collectively, these results suggest that fine‐scale population diversity can contribute to the asynchrony and response diversity that underpins the stability of fisheries or metapopulation dynamics, and emphasize the need to manage and conserve this scale of population diversity.     

不同种植年限薰衣草根际土壤真菌群落结构的演变

土壤真菌群落结构和多样性对植物生长起着重要作用,了解种植年限对薰衣草根际土壤真菌群落结构的影响对薰衣草病害防治和增产的研究具有重要意义。探究不同种植年限薰衣草根际土壤真菌群落结构和多样性特征,及其随种植年限的演变规律。采集新疆伊犁霍城县种植年限1、3、5 a,以及未种植薰衣草土壤,对ITS序列进行Illumina高通量测序。对测序结果进行分析,比较各样品组真菌多样性和群落分布规律及与种植年限的关联。结果表明,Alpha多样性分析显示随着种植年限的增加Shannon指数逐渐降低,而Chao1指数先降低后增高。在种植薰衣草土壤中共检测到12个门,28个纲,72个目,146个科,236个属。在门水平上,子囊菌门(Ascomycota)、担子菌门(Basidiomycota)、球囊菌门(Glomeromycota)为优势菌门。随着种植年限的增加,子囊菌门相对丰度逐渐降低,担子菌门逐渐增高,而球囊菌门先增加后降低。在属水平上优势菌属为Xylodon、锐孔菌属(Oxyporus)、镰刀菌属(Fusarium)、枝孢属(Cladosporium),均属于植物致病菌。随着种植年限的增加,Xylodon...     

放牧干扰下高寒草甸物种、生活型和功能群多样性与生物量的关系

为明晰放牧强度对高寒草甸物种、生活型以及功能群多样性和生物量的时间累积作用以及对多样性与生物量之间相互关系的影响。选择青藏高原东北缘高寒草甸,在6个放牧强度样地连续4 a(2012—2015)进行物种、生活型、功能群多样性和生物量调查。采用重复测量方差分析和线性回归法分析放牧强度和放牧年份对物种、生活型、功能群多样性以及多样性与生物量之间的相关关系的影响。结果表明:(1)放牧强度和放牧年份均对生物量产生显著影响。随放牧强度增加,生物量显著降低。但随放牧年份延长,不同放牧强度区生物量无一致的变化规律。(2)放牧年份对物种、生活型和功能群丰富度、均匀度和优势度的影响均达到显著水平。但放牧强度和放牧年份只对物种丰富度产生交互作用,放牧强度对物种丰富度的影响具有时间的累积效应。(3)放牧干扰下不同层次多样性,仅物种丰富度与所有多样性指数显著相关,物种丰富度可以作为物种多样性测度的代表性指标。(4)多样性与生物量关系的研究,对丰富度而言,仅低放牧强度样地(Plot2)中物种丰富度随生物量增加而显著降低,其余放牧强度样地的物种、生活型和功能群丰富度均与生物量无关。对均匀度而言,高放牧强度样地(Plot4、Plot5、Plot6)生活型均匀度随生物量的增加而显著降低。对优势度而言,高放牧强度样地生活型优势度随生物量的增加而显著增加。生活型多样性可作为放牧干扰下生物量变化快速预测的有效指标。     

Evolutionary analysis of life span, competition, and adaptive radiation, motivated by the Pacific rockfishes (Sebastes)

The Pacific rockfishes (Sebastes spp) are remarkable for both their diversity (on the order of 100 species) and range of maximum life span ( approximately 10 years for Calico rockfish to approximately 200 years for Rougheye rockfish). We describe the natural history and patterns of diversity and life span in these species and then use independent contrasts to explore correlates of these. When phylogenetic history is taken into account, maximum life span is explained by age at maturity, size at maturity, and the interaction of these two. We introduce a life-history model that allows insight into the origin of these correlations. We then describe a variety of mechanisms that may increase lifepans and diversity. These include fluctuating environments (in which organisms basically have to "wait out" bad periods to reproduce successfully), diversity, and longevity inspired by interspecific competition and physiological complexity in growth and accumulation of cellular damage. All of the results point toward the importance of flat or "indifferent" fitness surfaces as a key element in the evolution of diversity. We conclude that further development of the theory of flat or indifferent fitness surfaces as applied to diversity and life span is clearly warranted.     

Plant traits determine the phylogenetic structure of arbuscular mycorrhizal fungal communities

Functional diversity in ecosystems has traditionally been studied using aboveground plant traits. Despite the known effect of plant traits on the microbial community composition, their effects on the microbial functional diversity are only starting to be assessed. In this study, the phylogenetic structure of arbuscular mycorrhizal (AM) fungal communities associated with plant species differing in life cycle and growth form, that is, plant life forms, was determined to unravel the effect of plant traits on the functional diversity of this fungal group. The results of the 454 pyrosequencing showed that the AM fungal community composition differed across plant life forms and this effect was dependent on the soil collection date. Plants with ruderal characteristics tended to associate with phylogenetically clustered AM fungal communities. By contrast, plants with resource‐conservative traits associated with phylogenetically overdispersed AM fungal communities. Additionally, the soil collected in different seasons yielded AM fungal communities with different phylogenetic dispersion. In summary, we found that the phylogenetic structure, and hence the functional diversity, of AM fungal communities is dependent on plant traits. This finding adds value to the use of plant traits for the evaluation of belowground ecosystem diversity, functions and processes.     

A comment on Hubbell's zero-sum ecological drift model

In Hubbell's model of zero-sum ecological drift, loss of species from communities by stochastic change in population size is balanced by the production of new species by processes analogous to mutation or to the fission of populations. Large regional metacommunities contain so many individuals that species are lost slowly and infrequent speciation events can maintain high diversity. However, validation of Hubbell's model requires that community size, diversity, and species life spans match up, and this is shown to be a problem with both the mutation and fission mechanisms of speciation. In the first case, most species are rare and ephemeral and would fail to be recognized by traditional taxonomic practices. In the second case, species life spans are so long that diversity builds to unrealistic levels. Thus, the problem confronting community drift probably is not the maintenance of diversity but rather its control, requiring such mechanisms as environmental change or occasional evolution of competitively superior species that sweep the metacommunity. Testing the community drift model will require close attention to community size and species life spans.     

CRISPR/Cas工具——分子遗传研究的新刃

遗传与变异体现着生命之美和生命之奥妙,前人在不断探求的过程中逐渐形成了严谨的体系和科学的方法——遗传学。在遗传学的研究中基因编辑工具的作用是不可或缺的,近年来发现的CRISPR/Cas系统作为基因编辑工具箱中的新刃,以其特异性强、靶向性好、适用性广的特点迅速成为广大科研工作者研究和开发的热点。并且,在探索生命暗物质的过程中,会有更多的新的CRISPR/Cas系统被发现并应用在遗传研究等领域。为此,本文综述目前CRISPR/Cas系统的最新研究进展,力图从其系统多样性、分子工作机制及遗传研究应用等方面,为广大科研工作者提供一个系统了解CRISPR/Cas系统及其研究现状的窗口,以期为该领域的研究与应用提供一些有益的参考。     

ARE LIFE HISTORY CHARACTERISTICS GOOD PREDICTORS OF GENETIC DIVERSITY AND STRUCTURE? A CASE STUDY OF THE INTERTIDAL ALGA FUCUS SPIRALIS (HETEROKONTOPHYTA; PHAEOPHYCEAE)1

Characteristics of an organism's life history are often good predictors of genetic diversity and genetic structure. We tested hypotheses about genetic structure and diversity in an intertidal alga based on life history and life form. Fucus spiralis L. is a perennial monoecious alga that is abundant on the shores of Maine. Reproduction in fucoids is highly sensitive to water motion, resulting in fertilization success close to 100%. Given these life history characteristics, we predicted genetic structure among populations to be high and genetic diversity within populations to be low. We used five microsatellite loci to analyze genetic structure and diversity in F. spiralis from four sites on each of two coastal points, Maine, USA. Observed heterozygosities were relatively low (0.23 to 0.56), and F_IS estimates were usually significantly large, ranging from 0.021 to 0.476. This suggests that selfing and/or inbreeding may occur. Contrary to predictions, genetic differentiation between the two coastal points was insignificant. Moreover, few sites were genetically different from one another. Pairwise tests revealed complex patterns among sites. Genetic differentiation was not correlated with distance (P>0.05). Life history characteristics are good predictors of genetic diversity but not of population genetic structure in F. spiralis. We suggest that long distance dispersal of F. spiralis via drifting algal rafts increases gene flow. In addition, low levels of genetic structure may arise due to episodic recruitment or recent recolonization events. We discuss the implications of our results in terms of using life history characteristics as predictors of genetic diversity and structure in algae.     

Do life history traits account for diversity of polychaete annelids?

Abstract. Within many phylogenetic assemblages, a pattern of domination has been observed: one or a few clades have had many more speciation events or fewer extinctions than other clades in a particular assemblage. We investigated this phenomenon in the polychaete annelids. Polychaetes comprise ∼9000 described species classified in over 70 families and exhibit a great variety of life history strategies. Our goal was to test whether diverse polychaete families are characterized by species with short generation times, high reproductive output, small body size, or with planktotrophic larval development. Each of these factors has been advanced as cause for high diversity in other taxonomic assemblages. Here, we establish that the diversification pattern of polychaete families is non-random, but the data collected show no significant correlations between familial diversity and several life history traits including age at first reproduction, life span, body size, fecundity, and egg size. Pairwise comparisons of sister families do not reveal any trends between familial diversity and any of the life history traits. The great variability of life history traits within polychaete families may explain the lack of significant results; perhaps no trends are seen because polychaete life history traits cannot be generalized at the family level.     

Life history and environmental variation interact to determine effective population to census size ratio

Successful recovery and sustainability of threatened and exploited species depends in part on retention and maintenance of genetic diversity. Theory indicates that genetic diversity is lost at a rate inversely proportional to the genetically effective population size (N(e)), which is roughly equal to one-half the adult census size (N) in many organisms. However, N(e) has been reported to be up to five orders of magnitude lower than N in species with life histories that result in type III survivorship (high fecundity, but heavy mortality in early life stages, e.g. bony fishes), prompting speculation that low values of N(e) may be a general feature of such organisms despite sometimes vast abundances. Here, we compared N(e) and the ratio N(e)/N across three ecologically similar fish species from the arid southwestern United States, all with type III life histories but with differing expectations of egg and larval survivorship that correlate with the degree of human-imposed habitat fragmentation. Our study indicates that type III life history may be necessary, but this alone is insufficient to account for extraordinarily low values of N(e)/N. Rather, life history interacts with environmentally imposed mortality to determine the rate and magnitude of change in genetic diversity in these desert fish species.     

Whither life? Conjectures on the future evolution of biochemistry

Life has existed on the Earth for approximately four billion years. The sheer depth of evolutionary time, and the diversity of extant species, makes it tempting to assume that all the key biochemical innovations underpinning life have already happened. But we are only a little over halfway through the trajectory of life on our planet. In this Opinion piece, we argue: (i) that sufficient time remains for the evolution of new processes at the heart of metabolic biochemistry and (ii) that synthetic biology is providing predictive insights into the nature of these innovations. By way of example, we focus on engineered solutions to existing inefficiencies in energy generation, and on the complex, synthetic regulatory circuits that are currently being implemented.     

欧亚大陆东部毛茛科植物多样性格局及主导因子

毛茛科是真双子叶植物的基部类群之一, 包含多种药用植物, 具有较高的保护价值, 但关于毛茛科物种多样性和谱系多样性大尺度格局及其影响因子的研究还比较匮乏, 特别是以较高分辨率分布数据为基础的物种多样性格局研究尚未见报道。本文旨在: (1)建立欧亚大陆东部毛茛科植物分布数据库, 估算不同生活型物种多样性和谱系多样性格局, 并探究格局的形成机制。(2)分析毛茛科物种多样性和谱系多样性的相关关系, 确定多样性热点地区, 为毛茛科保护规划提供依据。根据中国、哈萨克斯坦、吉尔吉斯斯坦、塔吉克斯坦、土库曼斯坦、乌兹别克斯坦、蒙古和俄罗斯等国家的区域和地方植物志, 建立了“欧亚大陆东部地区毛茛科物种分布数据库”。该数据库包含了欧亚大陆东部地区1,688种毛茛科物种的分布数据, 空间分辨率为100 km × 100 km。在此基础上, 估算了毛茛科全部及不同生活型的物种多样性和谱系多样性格局, 并利用广义线性模型和等级方差分离方法分析了毛茛科物种和谱系多样性格局与环境因子的关系。最后比较了物种多样性和谱系多样性的相关关系, 确定了毛茛科的古热点地区。结果显示: (1)欧亚大陆东部毛茛科植物物种和谱系多样性均呈明显的纬度格局, 且在山区具有较高的多样性。(2)毛茛科植物物种和谱系多样性受现代气候、地形异质性和末次冰期以来的气候变化的共同影响, 但不同影响因子的相对贡献率在物种和谱系多样性及不同生活型之间差异显著。(3)中高纬度地区的谱系多样性高于给定物种数的预期, 是毛茛科的古热点地区, 在毛茛科保护规划中应受到重视。     

山西太岳山脱皮榆群落的功能多样性

功能多样性是生物多样性的重要组成部分, 是连接生物多样性和生态系统功能的桥梁。以山西太岳山脱皮榆(Ulmuslamellosa)群落为研究对象, 选取生境类型、种子扩散方式、传粉方式、固氮类型、生活史、生活型、叶型、植物高度、盖度、开花期和花期时长11个功能性状, 采用FAD指数、Rao’s指数、SL指数以及CL指数比较了7个群丛的功能多样性差异, 并分析了脱皮榆群落的功能多样性海拔梯度格局。结果表明: (1) 从群丛I到群丛VII, FAD指数、SL指数以及CL指数减小, Rao’s指数增大, 均表明功能多样性呈下降趋势; (2) 脱皮榆群落的功能多样性海拔梯度格局明显, 海拔升高, 功能多样性降低。     

Inbreeding, outbreeding and environmental effects on genetic diversity in 46 walleye (Sander vitreus) populations

Genetic diversity is recognized as an important population attribute for both conservation and evolutionary purposes; however, the functional relationships between the environment, genetic diversity, and fitness-related traits are poorly understood. We examined relationships between selected lake parameters and population genetic diversity measures in 46 walleye (Sander vitreus) populations across the province of Ontario, Canada, and then tested for relationships between six life history traits (in three categories: growth, reproductive investment, and mortality) that are closely related to fitness, and genetic diversity measures (heterozygosity, d2, and Wright's inbreeding coefficient). Positive relationships were observed between lake surface area, growing degree days, number of species, and hatchery supplementation versus genetic diversity. Walleye early growth rate was the only life history trait significantly correlated with population heterozygosity in both males and females. The relationship between FIS and male early growth rate was negative and significant (P < 0.01) and marginally nonsignificant for females (P = 0.06), consistent with inbreeding depression effects. Only one significant relationship was observed for d2: female early growth rate (P < 0.05). Stepwise regression models showed that surface area and heterozygosity had a significant effect on female early growth rate, while hatchery supplementation, surface area and heterozygosity had a significant effect on male early growth rate. The strong relationship between lake parameters, such as surface area, and hatchery supplementation, versus genetic diversity suggests inbreeding and outbreeding in some of the populations; however, the weak relationships between genetic diversity and life history traits indicate that inbreeding and outbreeding depression are not yet seriously impacting Ontario walleye populations.     

Influences of multilocus heterozygosity on size during early life

Genetic diversity has been hypothesized to promote fitness of individuals and populations, but few studies have examined how genetic diversity varies with ontogeny. We examined patterns in population and individual genetic diversity and the effect of genetic diversity on individual fitness among life stages (adults and juveniles) and populations of captive yellow perch (Perca flavescens) stocked into two ponds and allowed to spawn naturally. Significant genetic structure developed between adults and offspring in a single generation, even as heterozygosity and allelic richness remained relatively constant. Heterozygosity had no effect on adult growth or survival, but was significantly and consistently positively related to offspring length throughout the first year of life in one pond but not the other. The largest individuals in the pond exhibiting this positive relationship were more outbred than averaged size individuals and also more closely related to one another than they were to average‐sized individuals, suggesting potential heritability of body size or spawn timing effects. These results indicate that the influence of heterozygosity may be mediated through an interaction, likely viability selection, between ontogeny and environment that is most important during early life. In addition, populations may experience significant genetic change within a single generation in captive environments, even when allowed to reproduce naturally. Accounting for the dynamic influences of genetic diversity on early life fitness could lead to improved understanding of recruitment and population dynamics in both wild and captive populations.     

The impact of herbivore exclusion on forb diversity: Comparing species and functional responses during a drought

Rainfall and herbivory shape savannah herbaceous communities, but these disturbances are being altered globally. To assess potential consequences of such alterations, we evaluated herbivore effects on species and functional diversity during an episodic drought in a sodic savannah using data collected from long-term herbivore exclosures in the Kruger National Park, South Africa. Herbaceous life forms are rarely acknowledged as distinct functional entities. Moreover, the functional ecology of forbs remains elusive. Here, we present disturbances–responses by forbs separately from grasses. We hypothesised that combinations of intense utilisation and drought would be associated with low diversity and high dominance at species and functional levels for both life forms. Contrary to our hypothesis, low forb and grass diversity was associated with long-term herbivore exclusion, which exceeded expected undesirable effects of intense utilisation and drought. Grasses responded less sensitively, suggesting that forbs respond dynamically to changes in herbivore assemblage when these alterations are combined with drought. Consistent with patterns in savannah systems, forbs contributed significantly to species and functional trait diversity. High forb diversity is suggested to enhance resilience of this nutrient-rich ecosystem against declines in its functioning when subjected to drought and alterations in herbivory.     

Population and community level approaches for analysing microbial diversity in natural environments

The enormous diversity available at the microbial level is just beginning to be realized. The richness of diversity amongst the bacteria that have been described so far is between 2 and 3000, whereas estimates indicates that millions of microorganisms still remains to be discovered. Microbiologists have realized that there are at least a dozen major evolutionary groups of the microbial life forms on earth (bacteria, fungi, algae and protozoa) that are even more diverse than the better known animal and plant kingdom. Indeed, we can state that microorganisms dominate the tree of life. Microorganisms have inhabited Earth for more than 3.7 billion years, whereas plants and animals have evolved rather recently in Earth's history. Possible reports of evidence for microbial life on Mars is also consistent with the concept that microorganisms precede plants and animals on Earth. The applications of molecular-phylogenetic techniques have provided the tools for studying natural microbial communities, including those that we are not able to grow in the laboratory. The utilization of these techniques has resulted in the discovery of many new evolutionary lineages, some of them only distantly related to known organisms. Here I discuss some environmental factors controlling bacterial diversity in different environments and the utility of modern methods developed for describing this diversity.     

Diversity of life strategies and population structure of Kamchatka mykiss <Emphasis Type="Italic">Parasalmo mykiss</Emphasis> in the ecosystems of small salmon rivers of various types

The diversity of life strategies and population structure of Kamchatka mykiss Parasalmo mykiss in the ecosystems of small salmon rivers of various types are considered. Hydrogeomorphological differences of the model rivers Kol and Kekhta are found. The preferred habitats are investigated, and their area is determined. It is shown that, in the Kol River, the mykiss having a resident life strategy predominated, and in the Kekhta River—the mykiss with migratory strategy. The key parameter controlling the prevalence of life strategies in each river is the ratio of the area of spawning grounds to the area of feeding grounds and their productivity. The hypothesis is confirmed that, in complex river systems, due to the diversity of biotopes and a higher productivity, the food resources are sufficient for maturation of mykiss and for realization of the resident life strategy (without migration to the sea for feeding). In small rivers of the channel type with their insufficient food resources, the specimens having a migratory life strategy prevail.     

Life-history stage and the population genetics of the tiger mosquito Aedes albopictus at a fine spatial scale

As a widespread vector of disease with an expanding range, the mosquito Aedes albopictus Skuse (Diptera: Culicidae) is a high priority for research and management. A. albopictus has a complex life history with aquatic egg, larval and pupal stages, and a terrestrial adult stage. This requires targeted management strategies for each life stage, coordinated across time and space. Population genetics can aid in A. albopictus control by evaluating patterns of genetic diversity and dispersal. However, how life stage impacts population genetic characteristics is unknown. We examined whether patterns of A. albopictus genetic diversity and differentiation changed with life stage at a spatial scale relevant to management efforts. We first conducted a literature review of field-caught A. albopictus population genetic papers and identified 101 peer-reviewed publications, none of which compared results between life stages. Our study uniquely examines population genomic patterns of egg and adult A. albopictus at five sites in Wake County, North Carolina, USA, using 8425 single nucleotide polymorphisms. We found that the level of genetic diversity and connectivity between sites varied between adults and eggs. This warrants further study and is critical for research aimed at informing local management.