集合种群的理论框架与应用研究进展

集合种群的研究是当今国际生态学的重要前沿与热点。随着全球范围的生境破坏和破碎化,集合种群的研究方法已成为数学生态学、理论生态学和保护生物学的重要手段。由于其迅速的发展,集合种群的概念与理论得到迅速扩展与丰富。为了能总观集合种群进展的全局并开展进一步的工作．首先对集合种群的已有概念、理论和模型做了全面的分析和总结;其次对集合种群的发展和概念进行了探讨,以集合种群模型的中心框架：Levins的斑块占据模型为基础,展开对其它原理、效应和机制的探讨;主要包括了Levins原理．即当生境遭到破坏时,空斑块比例在集合种群灭绝前保持不变,然后还分析了Allee效应(集合种群的Allee效应主要是由于建群困难和扩散损失造成的);第三,分析了援救效应：迁入个体可以降低斑块中现有局域种群的灭绝风险。援救效应会增强集合种群的生存力,使空斑块比例下降。第四,探讨了两竞争集合种群的共存机制,即竞争,侵占妥协,其共存机制为空间生境中物种共存提供了有力的理论解释。最后,对集合种群群落中的灭绝债务进行了讨论。并给出了2种最为主要的集合种群空间模拟方法。     

均时作用——一个常见但不易识别的埋葬学现象

生物化石群落在埋葬过程中普遍经历了均时作用的过程。正是这种作用导致了同一生态环境域,但不同时期生物组合相混合的结果。因此,这种化石群落可能为一个连续演化群落的不同阶段的混合体,也可能是环境连续演化过程中不同生态群落的混合组合,这样的化石组合所记录的古生物学信息非常复杂。因此,对化石累积过程中的均时作用的清晰了解,将非常有助于古生物群落的分类学、居群动力学、埋葬学、古生态学、演化古生物学,甚至地层学研究精度的提高。文章根据前人的研究,扼要介绍和讨论均时作用的概念、过程、程度、效应和判别,及受均时作用影响的化石组合的分类。     

岛屿生物地理学与集合种群理论的本质与渊源

岛屿生物地理学和集合种群理论是目前生物多样性保育所依赖的主要生态学理论。人们通常强调这两种理论的区别,对它们之间的关联却很少注意到。事实上,这两种理论是同根同源的。以经典集合种群理论的创始者R．Levim对他与岛屿生物地理学的创始者R．H．MaeArthur的合作过程以及岛屿生物地理学对他提出集合种群理论的影响的回顾为基础,分析比较了岛屿生物地理学、经典集合种群理论、以Hanski为代表的现代集合种群理论的基本假设、研究范式和核心思想的异同,简要介绍了多物种集合种群与集合群落研究的差异,最后分析了岛屿生物地理学和集合种群理论在生物多样性保育实践中的应用和存在问题。     

20世纪的中国人类古生物学研究与展望

本文回顾中国人类古生物学在20世纪的主要研究进展。中国的化石曾经数度入围最早期的人类。目前中国已有60余处地点发现了人类化石, 其中最古老的暂时要推云南元谋上那蚌的两颗门齿。对中国人类化石的研究提出了连续进化附带杂交的模式, 支持现代人起源的多地区进化说。中国各时期的化石人类有较显著的地区差异。中国人类的发展可能比喻为既有分支间的杂交融合, 又有小分支的绝灭和局部替代的河网状。     

植物DNA条形码促进系统发育群落生态学发展

系统发育群落生态学是近年兴起的一个重要牛态学研究分支,它以群落生态学为基础并引入了系统发育的分析方法,全面动态地反映了群落中物种内和物种间的相互作用关系,揭示了群落格局形成的生态学过程,研究了生物多样性的形成及维持机制.巴拿马BCI(Barro Colorado Island)样地的成功例子说明,在固定样地进行长期的群落生态与系统发育研究切实可行且极具意义;DNA条形码的快速兴起对这一研究发挥着重要作用.本文先列举了群落生态与系统发育综合分析能解决的群落系统发育结构、群落生态位结构、生物地理学和性状进化等生态学问题;接着介绍了标准植物DNA条形码以及利用片段组合(rbcL+matK+trnH-psbA)进行快速物种识别和近缘种区分、精确群落系统发育关系的构建以及群落生态学研究;随后提出DNA条形码研究在类群水平上需注意两片段的条形码组合(matK+rbcL)在同属种鉴别能力上的不足,而在较大尺度群落水平上需对实验设计进行优化.DNA条形码将为探讨物种多样性及其维持机理、系统发育beta多样性以及群落水平上功能性状进化研究提供新的思路.     

集合群落(metacommunity)研究动态

由于人类活动等原因,自然生境在日益丧失和破碎化。因此,集合种群结构作为空间生态学的一个重要的研究途径越来越受到人们的重视,而斑块化环境中的生物群落即集合群落也成为生态学的一个研究热点。文中综述了集合群落动态,群落物种丰富度和物种分布,生境的丧失和破坏对集合群落的影响等的最新研究成果。     

我国无脊椎动物生态学研究进展概述

本文简要概述了我国近30年来陆生和水生无脊椎动物种群、群落生态学研究进展和成就。按照现代生态学前沿领域研究的发展趋势,结合我国具体的实际情况,就进一步提高我国无椎动物各种类群生态学研究水平,促进无脊椎动物生态学的发展,作者提出了几点建议。     

集合种群与生物多样性保护

集合种群的概念受到空前的重视,其精髓是强调物种受局域和区域两个空间尺度上生态学过程的共同作用。主要介绍了集合种群概念的由来、集合种群动态理论以及集合种群理论在生物多样性保护及生物防治中一些可能的应用。     

《生态理论透视》简介

“要让理论来指导你的观察”,达尔文的话道出了理论在科学研究中的重要性。理论在发现问题、解决问题及预测问题过程中起着举足轻重的作用。时至今日,生态理论的主题已甚为广泛,从个体或群体的生理学和行为学、种群动态和群落生态学到生态系统生态学和整个生物圈的地球化学循环,以及进化生物学的大部分内容,包括古生物学、分类学和地球科学,尤其是海洋地理学和大地构造学等方面,均有所涉及且占重要地位。     

北京猿人生存环境的变迁

通过对北京猿人的化石的研究使我们了解到人类在演化过程中身体体质所显示出的进化特征,而这些进化与当时的生存环境有着密切的关系。北京猿人化石的出土地点主要在周口店遗址的第一地点,出土北京猿人化石的堆积地层厚度超过30米。这些地层以及从中出土的动物化石和北京猿人的遗物为我们研究北京猿人的生存环境提供了很好的材料。     

Developmental bias in the fossil record

The role of developmental bias and plasticity in evolution is a central research interest in evolutionary biology. Studies of these concepts and related processes are usually conducted on extant systems and have seen limited investigation in the fossil record. Here, I identify plasticity‐led evolution (PLE) as a form of developmental bias accessible through scrutiny of paleontological material. I summarize the process of PLE and describe it in terms of the environmentally mediated accumulation and release of cryptic genetic variation. Given this structure, I then predict its manifestation in the fossil record, discuss its similarity to quantum evolution and punctuated equilibrium, and argue that these describe macroevolutionary patterns concordant with PLE. Finally, I suggest methods and directions towards providing evidence of PLE in the fossil record and conclude that such endeavors are likely to be highly rewarding.     

Stabilité de l'espèce et évolution: La théorie de l'équilibre intermittent («Punctuated equilibrium)

Paleontologists' traditional conceptions on evolution do not seem to be in perfect accord with these of biologists. The gradual phyletism is compatible neither with E. Mayr's model of the Founder, nor with the actual stability of most of the paleontological species. The punctuated equilibrium model proposed by N. Eldredge & S.J. Gould offers a solution which integrates both paleontological observations and the data of modern biology.     

Analysis of Form and Function in Fossils

SYNOPSIS. Paleontology and the fossil record contribute an historicalperspective on the form-function relationship that is essentialto an understanding of the particular range of biological formsand functions that exist in the living world. The record containsrich evidence of forms and functions that do not exist in themodern world and provides a context for exploring arenas oftheoretical possibility and impossibility for organisms. Althoughthe basic data of the fossil record are static forms and patternsin the rocks, paleontologists have developed methods of inferringfunction. Analogy is the most important source of hypothesesfor the function of extinct organisms and enigmatic structures.Paleontological analogy frequently extends beyond biologicalform and structure to engineering solutions in familiar simplemachines and a variety of other human artifacts. Three tools have proved especially useful in the analysis andinterpretation of form in fossils. The paradigm method is auseful procedure for rigorous evaluation of alternative functionalpossibilities for enigmatic structures in a predominantly adaptivecontext. Constructional morphology reaches beyond the adaptivecontext to provide a conceptual framework for understandingthe full range of factors that contribute to organic form. Theoreticalmorphology provides the basis for examining the range of formsand functions that have actually evolved against possible morphologicaland functional space. This essay is structured to provide applicationsof these paleontological tools and to encourage incorporationof paleontological data and perspective into instruction inintroductory biology courses.     

The relativity of Darwinian populations and the ecology of endosymbiosis

If there is a single discipline of science calling the basic concepts of biology into question, it is without doubt microbiology. Indeed, developments in microbiology have recently forced us to rethink such fundamental concepts as the organism, individual, and genome. In this paper I show how microorganisms are changing our understanding of natural aggregations and develop the concept of a Darwinian population to embrace these discoveries. I start by showing that it is hard to set the boundaries of a Darwinian population, and I suggest thinking of a Darwinian population as a relative property of a Darwinian individual. Then I argue, in contrast to the commonly held view, that Darwinian populations are multispecies units, and that in order to accept the multispecies account of Darwinian populations we have to separate fitness from natural selection. Finally, I show how all these ideas provide a theoretical framework leading to a more precise understanding of the ecology of endosymbiosis than is afforded by poetic metaphors such as ‘slavery’.     

Heuristic approaches to models and modeling in systems biology

Prediction and control sufficient for reliable medical and other interventions are prominent aims of modeling in systems biology. The short-term attainment of these goals has played a strong role in projecting the importance and value of the field. In this paper I identify the standard models must meet to achieve these objectives as predictive robustness—predictive reliability over large domains. Drawing on the results of an ethnographic investigation and various studies in the systems biology literature, I explore four current obstacles to achieving predictive robustness; data constraints, parameter uncertainty, collaborative constraints and system-scale requirements. I use a case study and the commentary of systems biologists themselves to show that current practices in the field, rather than pursuing these goals, frequently use models heuristically to investigate and build understanding of biological systems that do not meet standards of predictive robustness but are nonetheless effective uses of computation. A more heuristic conception of modeling allows us to interpret current practices as ways that manage these obstacles more effectively, particularly collaborative constraints, such that modelers can in the long-run at least work towards prediction and control.     

从新的古生物学及今生物学资料看羽毛的起源与早期演化(英文)

近年来关于羽毛和羽状皮肤衍生物的研究极大促进了我们对羽毛起源与早期演化的理解。结合最新的古生物学与今生物学资料,对一些保存了皮肤衍生物的非鸟恐龙标本进行观察研究,为这个重要的进化问题提供了新见解。推测羽毛的演化在鸟类起源之前就以下列顺序完成了5个主要的形态发生事件:1)丝状和管状结构的出现;2)羽囊及羽枝脊形成;3)羽轴的发生;4)羽平面的形成;5)羽状羽小支的产生。这些演化事件形成了多种曾存在于各类非鸟初龙类中的羽毛形态,但这些形态在鸟类演化过程中可能退化或丢失了;这些演化事件也产生了一些近似现代羽毛或者与现代羽毛完全相同的羽毛形态。非鸟恐龙身上的羽毛有一些现代羽毛具有的独特特征,但也有一些现生鸟羽没有的特征。尽管一些基于发育学资料建立的有关鸟类羽毛起源和早期演化的模型推测羽毛的起源是一个全新的演化事件,与爬行动物的鳞片无关,我们认为用来定义现代鸟羽的特征应该是逐步演化产生的,而不是突然出现。因此,对于羽毛演化而言,一个兼具逐步变化与完全创新的模型较为合理。从目前的证据推断,最早的羽毛既不是用来飞行也不是用来保暖,各种其他假说皆有可能,其中包括展示或者散热假说。展开整合性的研究有望为羽毛的起源问题提供更多思路。     

Four decades of teaching developmental biology in Germany

I have taught developmental biology in Essen for 30 years. Since my department is named Zoophysiologie (Zoophysiology), besides Developmental Biology, I also have to teach General Animal Physiology. This explains why the time for teaching developmental biology is restricted to a lecture course, a laboratory course and several seminar courses. However, I also try to demonstrate in the lecture courses on General Physiology the close relationship between developmental biology, physiology, morphology, anatomy, teratology, carcinogenesis, evolution and ecology (importance of environmental factors on embryogenesis). Students are informed that developmental biology is a core discipline of biology. In the last decade, knowledge about molecular mechanisms in different organisms has exponentially increased. The students are trained to understand the close relationship between conserved gene structure, gene function and signaling pathways, in addition to or as an extension of, classical concepts. Public reports about the human genome project and stem cell research (especially therapeutic and reproductive cloning) have shown that developmental biology, both in traditional view and at the molecular level, is essential for the understanding of these complex topics and for serious and non-emotional debate.     

Information in morphological characters

The construction of morphological character matrices is central to paleontological systematic study, which extracts paleontological information from fossils. Although the word information has been repeatedly mentioned in a wide array of paleontological systematic studies, its meaning has rarely been clarified nor specifically defined. It is important, however, to establish a standard to measure paleontological information because fossils are hardly complete, rendering the recognition of homologous and homoplastic structures difficult. Here, based on information theory, we show the deep connections between paleontological systematic study and communication system engineering. Information is defined as the decrease of uncertainty and it is the information in morphological characters that allows distinguishing operational taxonomic units (OTUs) and reconstructing evolutionary history. We propose that concepts in communication system engineering such as source coding and channel coding, correspond to the construction of diagnostic features and the entire character matrices in paleontological studies. The two coding strategies should be distinguished following typical communication system engineering, because they serve dual purposes. With character matrices from six different vertebrate groups, we analyzed their information properties including source entropy, mutual information, and channel capacity. Estimation of channel capacity shows character saturation of all matrices in transmitting paleontological information, indicating that, due to the presence of noise, oversampling characters not only increases the burden in character scoring, but also may decrease quality of matrices. We further test the use of information entropy, which measures how informative a variable is, as a character weighting criterion in parsimony‐based systematic studies. The results show high consistency with existing knowledge with both good resolution and interpretability.     

Genomics and post-genomics in parasitology: genome babble or a real opportunity?

The genome projects represent one of the most important developments in our knowledge of parasites. However, translation of this knowledge into an understanding of parasite biology and then on to drugs, vaccines and other healthcare developments for the diseases will need some élan and clarity of thought by scientists and funding organizations. Only then will the activity associated with post-genomics be turned from what I have termed 'genome babble' to real opportunities in understanding these parasites.