长白山阔叶红松林树种的空间分布格局：机会还是竞争？

森林群落中物种是怎样分布的？各物种是如何共存于同一群落中的？物种的分布格局是如何随尺度变化的？哪些过程影响了物种的空间分布格局？森林群落中是否存在着强烈的种内或者种间竞争？是机会还是竞争在构建森林群落中起着更为重要的作用？这些问题的回答，对于我们了解森林群落的结构特征及其内在的生态学过程、揭示物种多样性维持和共存机制具有极其重要的意义。本论文以长白山阔叶红松林25 ha大型固定样地为研究平台，基于第一次样地调查数据，采用不同的空间格局分析方法，从不同的研究角度，对阔叶红松林的群落组成与结构特征、空间格局、种间关系、密度制约机制、物种共有度格局等进行了较详尽的研究。主要研究结论如下： 1) 样地内胸径≥1cm的木本植物共18科32属52种。总的独立个体数为38902，包括分枝的总个体数为59121。个体数最多的前3个种的个体数占总个体数的60%，前14个种占95%，而其余38个种仅占5%。从物种多度、胸高断面积、平均胸径和重要值来看，群落成层现象显著，具有明显的优势种。 2) 对树种空间分布格局的分析发现：树种的空间分布格局随树种、径级、垂直高度、空间尺度的变化表现出不同的分布格局；大多数树种在较小的空间尺度上是聚集的，聚集程度随林层的增高而降低，而在较大的空间尺度则主要表现为规则或者随机分布；小树在小尺度上表现出不同程度的聚集；一些树种的分布格局表现出一定的空间异质性。 3) 对树种的种间相关性分析发现：树种的种间相关性随树种、径级、垂直高度、空间尺度而变化；红松与紫椴在整体上表现为正相关，但并不是在各林层间都表现为正相关；红松和紫椴的幼树和小树大多聚集在母树的周围，蒙古栎和水曲柳的幼树和小树在母树周围分布较少；对不同树种在不同径级和垂直层的空间相关性的分析发现，蒙古栎和水曲柳多分布在光环境比较好的地方，而红松和紫椴这两个耐阴树种则分布在郁闭的冠层下，表明不同的物种具有不同的生境要求以满足其存活和建成的需求；通过比较6个个体数差异极大的槭属树种的种群结构、空间格局和空间相关性等发现，15个物种对中的7个物种对不存在明显的相关性，不同径级的物种对之间的比较也没有发现明显的相关性，即它们之间并不存在明显的种间竞争。 4) 分析密度制约机制对树木存活的影响，可以发现：死亡前树种的格局大多是比死亡后更加聚集的；对于死亡后存活树木的格局，5个主林层树种中的3个和8个次林层和林下层树种中的3个树种的死亡都是随机的，8个次林层和林下层树种中的5个表现出正的密度制约存活；13个树种中的9个树种的存活与其自身的胸高断面积负相关，表明在大树之间存在着强烈的种内或种间竞争；主林层树种存活与近邻距离内同种的个体数没有明显相关性，而次林层和林下层树种的存活与近邻距离内同种的个体数大多呈正相关；大多数树种的存活与同种的胸高断面积表现出负相关，表明了强烈的种内竞争的存在，树木个体的大小对种内竞争的贡献要远远大于该树种种群的密度。 5) 对物种共有度格局的分析发现：阔叶红松林群落在小的空间尺度上出现了较少的物种共有度格局，表明也许存在强烈的种间竞争；而在较大尺度上，基于群落等级、个体数较多的物种组和径级较大的物种组的分析，都出现了随机的物种共有度格局，表明在较大的尺度上并不存在明显地影响物种分布的生态学过程；基于系统发生的物种组的物种共有度格局明显地不同于群落等级的物种共有度格局，在系统发生的物种组内，没有发现种间竞争的证据，而在小尺度上却存在正的种间相关性。 6) 从不同角度对物种分布格局的分析可以看出，森林群落结构与空间尺度是密切相关的。树种的空间分布格局随尺度而变化，在一个尺度上表现为一种格局，而在另一个尺度上则可能表现为另一种不同的格局。种内和种间相关性的分析也在不同的空间尺度上表现出不同的空间相关性。

青藏高原东缘高山林线乔木种群生态特征研究

青藏高原东部分布着世界最高的林线，该区域也是由欧亚北温带物种形成的林线的南界。在大面积野外踏勘的基础上，选择青藏高原东部具有典型高山林线分布的三个地点（滇西北白马雪山、川西北鹧鸪山及岷江源地区）作为研究区，从种群的结构、生存特征、分布格局及分形特征等方面对青藏高原东缘高山林线乔木种群生态学特征进行了研究，并在此基础上探讨了人类活动对林线种群生态特征及林线格局的影响。结果表明，林线区乔木树种多以单种群形式存在，林线区群落结构简单，乔木层多为单一树种组成，其生长型较之郁闭林发生了急剧的变化：树木高度急剧下降，而发展多茎多分枝的生长型。生长型的转变是高山林线乔木对恶劣自然条件的形态适应。 研究发现，在青藏高原东缘，阴坡林线乔木主要是冷杉（Abies spp.），阳坡主要由圆柏（Sabina spp.）组成，少数地方还有云杉（Picea spp.）。阴坡乔木种群结构多表现为增长型，幼苗和幼树在种群中占较大比重，种群潜在自然更新能力较强，但幼龄个体死亡率非常高，存活曲线多接近Deevey-Ⅲ型；阳坡乔木种群幼苗个体数极少，幼树相对增加。野外调查表明，人为活动较频繁的阳坡林线区幼苗数量极少甚至缺失，而受人为活动干扰较小的样地中幼苗和幼树数量明显增多，从一个侧面说明放牧等人类活动可能对林线种群的更新带来较大影响，而对卡卡沟围栏内外的样地分析也进一步证明了这一结果。 所研究林线乔木种群各龄级的空间格局在不同尺度上表现为聚集、随机和均匀分布，以聚集分布为主；各龄级在不同尺度上表现出显著的相关性，幼苗通常与另外两个龄级的关联性较密切。各龄级间显著的相关性表明不同龄级个体在空间交错分布，有利于对各种资源的充分利用，对种群的生存和发展非常有利，反映了高山生态系统恶劣生境中种群的一种适应对策。 林线乔木种群各龄级分布格局的计盒维数有差别，林线种群的计盒维数总是小于郁闭林种群的计盒维数。另外，郁闭林各龄级计盒维数通常也高于林线各龄级，表明不同海拔或者不同群落类型中的乔木树种具有不同的水平空间占据能力。林线区种群分布格局的计盒维数都很低，占据现实水平空间的程度较低，具有相对较高的生态间隙维，其潜在占据空间的能力较高，群落还可提供给种群的最大空间限度较大，但实际上由于受群落中种内、种间的竞争及林线区恶劣的生态环境条件的限制，其潜在空间占据能力可能难以表现出来。 青藏高原东缘高海拔地带以季节性游牧为主要的资源利用和生产方式，阳坡森林郁闭度低于阴坡，灌丛数量和种类较阴坡少，融雪早且积雪时间短，所以阳坡包括高山林线区成为当地牧民游牧路线的必经之地。牲畜的践踏、啃食使得幼龄乔木树种个体数量大大减少，严重阻碍了林线乔木种群的自然更新，同时种群占据空间的能力也明显降低。因此可以认为，在青藏高原东部地区，山地游牧等人为干扰叠加于恶劣的自然条件，阳坡林线的自然更新潜力受到抑制，其生存状态较之阴坡林线显著恶化，并可使阳坡林线高度逐渐降低。高山林线区森林一旦破坏在短时间内很难有效更新和恢复，因此，对于处于恶劣高山生境中的乔木种群应加强保护，同时适度控制人为干扰强度和幅度以减少其直接和间接破坏，防止阳坡林线退化并促进高山生态系统的自然恢复。 Eastern Qinghai-Tibetan Plateau has the highest timberline of the world. On the basis of field surveys and literature reviews, three typical alpine timberlines were chosen for in-depth studies, i.e., Baima Snow Mountain in northwest Yunnan, Zhegu Mountain and the waterhead area of Minjiang River in west Sichuan. Using the methodologis of population ecology, we analyzed the population structure, survival characteristics, spatial point patterns and fractal dimensions of the timberline tree populations and discussed the impacts of grazing on the structure and spatial pattern of alpine timberline. Compared with closed forests, the community structure of timberline is simpler, usually with one or two species constituting the tree layer. Differences also exist in the growth forms: the trees were significantly shorter with more stems and branches, reflecting morphological adaptation of trees to the severe conditions at timberline. In the eastern Qinghai-Tibetan Plateau, Abies spp. often formed alpine timberline in the north-facing slope while Sabina spp. and sometimes Picea spp. in the south- facing slope. The population structures of north-facing slope showed an increasing trend, with numerous seedlings and saplings. However, the survival curves tend to follow Deevy-III because of high dead ratio of young individuals. There are only few seedlings in the south-facing slope with heavy grazing, demonstrating that human disturbance may prevent regeneration at alpine timberline, which was confirmed by comparisons between fenced enclosures and control plots in the Kaka Valley. Depending on the spatial scales on consideration, the individuals of different age-classes showed clumping, random or even distribution, but mostly with clumping distribution. At all scales, individuals in different age-classes were all significantly correlated with each other while the seedlings were usually more correlated to two other age classes. This high degree of correlation among different age classes indicates that individuals of different age classes are spatially interlocked with each other, which helps sufficient utilization of various resources and is conducive to the survival and development of population. It is another adaptation strategy for trees at the severe environment. The spatial patterns of different age classes had different box dimension. In general, the box dimensions of total individuals and each age class at timberline are always smaller than that of closed forests, suggesting that space occupation capacity is not the same for populations at different altitude or in different communities. Populations on both the south- and the north-facing slopes had a very low box dimensions (far away from the max., 2), however, the lower the box dimension, the bigger the potential space provided by community. In fact, because of inner- and inter- competition as well as the severe conditions at timberline, this kind of potential ability can hardly be realized. Mountain pastoralism is the major type of as well as the only most effective way of resource uses in the high elevation regions of the eastern Qinghai-Tibetan Plateau. Due to lower canopy cover, less bushes and short snow-cover time, south-facing slopes became the favorite pastures. Damages from livestock through tramping, browsing and others have greatly reduced the number of young individuals. As a result, the potential of timberline trees to regenerate and their ability to occupy more space are greatly inhitibted. We conclude that human disturbances (mountain pastoralism) as well as harsh environmental conditions co-worked to inhibit the regeneration of tree populations in the south-facing slope and made south slopes more difficult than the north-facing slopes for trees to survive and develop, resulting a gradual retreat of timberline in the north-facing slopes. Forests at alpine timberline are susceptible to disturbance and difficult to regenerate and restore once damaged and controlling human disturbances is important for protecting the forest ecosystems at the timberline area.

川西亚高山森林生态系统辐射传输研究

辐射传输研究是贯穿森林生态系统的纽带，太阳辐射为植物的生长发育提供光合能量、适宜的环境温度以及发育信息。一方面，气候变化使到达地面辐射能的质和量发生变化，影响到植被的生长发育，改变森林的结构，而森林结构的变化又会影响林冠内辐射能的分配和质量，这些变化会进一步影响到林下土壤温度，改变森林根系活性以及土壤营养转化的效率；连锁反应的结果有可能会使森林生态系统的生产力发生变化，改变碳素和氮素源库的调节方向，从而反馈影响地球气候系统。另一方面，人类作为生态系统的成员，必然需要森林生态系统为其提供更多的原材料和更好的生态服务功能，如何实现这些目标，就需要人类适度调整干预方式和频度，达到预期的目的。本文在建立适合于川西亚高山森林的叶面积测量技术、光照辐射模型和土壤温度变化模型的基础上，对川西亚高山地带森林生态系统的辐射传输特征进行了分析，并从森林结构的角度探讨了林分内的辐射分布以及对土壤温度的影响。主要成果如下： 1. 提出了一种照相法测量叶面积的方法。通过对摆放在平面上的叶片照相，利用投影变化，把非正射图像转化为正射图像，然后经过计算机图像处理得到每一片叶片的面积、周长、长度、宽度等信息。这种方法可使用户以任意方向和距离拍摄处于平面上的叶片，能同时处理大量的叶片，适于野外离体或活体叶片测量。叶片面积分辨率可调，分辨率可以与常用的激光叶面积仪相近甚至更高，而且叶片图像可以存档查询。 2. 提出一种模拟林内光照变化的模型。利用林冠半球照片，记录视点以上半球内的林冠构件空间分布，作为林冠子模型；天空辐射子模型采用国际照明委员会(CIE)的标准晴天和阴天以及插值模型。该模型能够模拟林下某一位点处的实时光斑变化。 3. 提出一种土壤温度变化模型。把土壤视为具有容量和阻力性质的结构，利用电阻和电容器件构建土壤能量分布模型。外界太阳辐射能经过植被以及其它一些能量分配器后进入土壤，其中有一部分转化为土壤势能，即土壤温度。土壤温度的变化类似于电池的充放电过程。在已知模型参数的情况下，可以从太阳辐射计算土壤温度的变化。在模型参数未知的情况下，通过输入和输出值推算模型的参数，而模型参数中的时间常数与土壤组成和含水量有关，这样就可以知道土壤水分的变化情况。 4. 从王朗亚高山森林典型样地林分结构的测量获得林地三维结构图、树冠形态、叶面积密度等参数，这些参数输入到Brunner (1998)开发的tRAYci 模型中计算出一段时间内林分任意位置处的光照值。与林下辐射计测量值以及半球照片计算结果的比较，该模型基本上能够满足对林分光环境了解的要求。 5. 从川西亚高山森林生产力的角度，探讨了森林生产力研究的方法以及川西地区的研究历史和成果，发现了其中的一些规律和问题，特别是在叶面积测量上，还没有使用标准的叶面积指数定义。综合来看，川西地区针叶林叶面积指数(单位土地面积上植物冠层总叶面积的一半) 应在4-5 之间。降雨丰富的华西雨屏带是川西地区森林生产力最高的地区，而向西北森林生产力逐渐降低。川西地区云冷杉林森林生产力平均约为600 gDM m-2 a-1，但是根据辐射能计算的潜在生产力则达到1800 gDM m-2 a-1。实际与潜在森林生产力的巨大差异说明其它因子对生产力的影响。 6. 王朗亚高山3 个典型森林林分中，白桦林样地(BF) 林下草本以糙野青茅、牛至、紫菀等喜阳性物种为主，林下透光度较高；冷杉林样地(FF) 林下透光度最低，以喜阴性物种水金凤、蟹甲草、囊瓣芹等为主；而云杉林样地(SF)林分林龄最大，林下透光度介于冷杉林和白桦林之间，草本层仍然以喜阴性物种东方草莓、紫花碎米芥、酢浆草等为主。冷杉林和云杉林的灌木层也很丰富，卫矛属、五加属、茶藨子属、忍冬属植物很丰富，而在白桦林则以栒摘要子属、榛子属、鹅耳枥属等植物为主。藓类植物在云杉林中最丰富，并且形成毯状层，其它两个林分则很稀少。3 个样地林分结构与林下光环境有很强的相关性，从光环境特征可以在一定程度上推测林分的结构。各样地单纯从乔木层材积推算的NPP 排列顺序为BF>FF>SF，与林下辐射透射率和林分年龄的顺序相同，暗示辐射对群落演替过程的驱动作用。 7. 用半球照相法测得BF、FF 和SF 3 个样地的有效叶面积指数以SF 样地最高，BF 最低。如果考虑针叶树叶片在小枝上的丛聚分布，利用北方针叶林的数值进行校正，则SF 样地LAI 显著增加(达到89%)，其它样地的LAI 基本不变甚至有所下降。校正后的数值与文献中地面测量的结果较相近，说明在使用半球照相法测量川西亚高山针叶林LAI 时必须加以校正。 8. 在3 个样地中，白桦、岷江冷杉和方枝柏种群为丛聚分布，紫果云杉在FF和SF 样地中基本上为随机分布。3 个物种出现丛聚分布的最短距离约为2m，在最短距离以内则为随机分布。最短距离可能与树冠大小有关，种子传播特征以及对光照的需求状况可能是造成这种分布格局类型的原因。 Radiative transfer plays a key role in forest ecosystems. Solar radiation providesenergy for photosynthesis, appropriate ambient temperature and development informationfor plants. However, quality and quantity of radiation reaching land surface are affected byweather and subsequently influence the growth and development of plants, which in turnchanges the budget of radiation in forest. Soil temperature changes with the variation ofradiation under forest canopy and influences the activity of roots and rate of nutrientturnover. Thus, any changes of radiation will induce chain reactions in the entireecosystem and display in the value of net primary productivity which will possibly shiftthe relationship between carbon source and sink at local or regional scale and feed back tothe global climate system. On the other hand, as a component of ecosystems, humanbeings of course need to demand more materials and better service from ecosystems. Forthese purpose, man must adapt their pattern and frequency of interference to ecosystems.This paper aims to research on the canopy structure, the radiation distribution and theirinfluence on soil temperature from the process of radiative transfer in subalpine forestecosystem of western Sichuan. The main results are: 1 Present a new photogrammetric method for leaf area. The main idea is to convertnon-vertically taken images of planar leaves to orthoimages through projectivetransformation. The resultant images are used to get leaf morphological parametersthrough image processing. This method enables users to take photos at almost anyorientation and distance if only the leaves are placed on same plane, and to processlarge quantity of leaves in a short time, which is suitable for field measurement. Theresolution of leaf area is adjustable to fit for special requirement. 2 A model using hemispherical photos combining with solar tracks and radiation courseis provided to simulate light variation in forest. The hemispherical photos of canopyrecord the real spatial distribution of each element of plants viewed from a point. Skyradiance is simulated with CIE standard clear sky or cloudy sky model. This modelcan be used to simulate real time light variation under canopy. 3 Present a soil temperature model. Soil could be regarded as a body of resistor andcapacitor. Some of the budget of solar radiation in soil body is transformed into soilpotential energy, the soil temperature. Variation of soil temperature is driven by solarradiation, vegetation, soil properties, etc. This model has two parameters, one of whichis time constant and is related to soil water content. The inversed model can be used tosimulate the variation of soil water. 4 By using model tRAYci developed by Brunner (1998), the 3-D distribution of light inthree subalpine forest stands of Wanglang Nature Reserve has been simulated andvalidated with value of radiometers in these stands. This model can basically satisfythe need for understanding light regimes of these stands. 5 Present some principles and questions of NPP (net primary of productivity) researchesin western Sichuan. The standard leaf area index (LAI) defined by Chen and Black(1997) has not been used in this region. Total leaf area and projected leaf area indexare still used in NPP researches which may differ around 1-fold in magnitude. Thestandard LAI which is a half of total leaf area above unit land area should be between4 and 5 for typical subalpine coniferous forest of western Sichuan concluded fromliteratures. The maximum forest NPP occurs in West China rain belt and decreasesnorthwestwards. Average NPP of spruce-fir forest in western Sichuan is about600gDM m-2 a-1, which is below the potential NPP of 1800gDM m-2 a-1 based onmeasured radiation in this region. The significant difference between potential and realNPP suggests that other factors influence the growth of stands. 6 In the three subalpine forest stands of Wanglang Nature Reserve, herbage layer ofAbstractbirch stand (BF) with age of 40 is dominated by heliophytes of Deyeuxia scabrescens,Origanum vulgare, Aster tongoloa etc.. However, both of the other two stands aredominated by shade tolerent species, such as Impatiens noli-tangere, Impatiensdicentra, Cacalia deltophylla and Pternopetalum tanakae etc. in fir stand (FF) withage of 180 and Fragaria orientalis, Cardamine tangutorum and Oxalis corniculata etc.in spruce stand (SF) with age of 330. Shrub species in the latter two stands arerelatively rich, typical dominant genera being Euonymus, Acanthopanax, Ribes andLonicera. Birch stand has relatively sparse shrubs dominated by genera of Cotoneaster,Corylus and Carpinus. Mosses are significant only in spruce stand. The canopystructure controls the light regime of stand, which influence the composition of herblayers beneath the canopy. This light regime-community structure relationship can beused to infer the herb community from canopy structure. The NPP derived from timbervolume of arbor layer of the three stands decreases from BF to SF, which is in thesame order of transmitted total radiation under canopy and age of these stands,suggesting the driving effect of radiation in the succession of community. 7 The highest effective LAI of the three stands obtained by hemispherical photos is inplot SF and lowest in plot BF. After rectification of the clumping effect of leaves onshoot, the real LAI in plot SF increases significantly (89%) and approximate to theaverage LAI of coniferous forest in western Sichuan. Therefore, the LAI obtainedfrom hemispherical photos needs rectification for clumping effect. 8 Spatial distribution pattern for Betula platyphylla, Abies faxoniana and Sabinasaltuaria is clumpy, but Picea purpurea almost random in plot FF and SF. The shortestdistance for clumpy distribution for Betula platyphylla and Sabina saltuaria is 1.5m,and 2m for Abies faxoniana. And random pattern for these trees is exhibited within thisrange which almost coincides with the diameter of crown. Seed dispersalcharacteristics and light requirement may be the reason for different spatial pattern.

克隆植物东方草莓对异质生境的适应对策

克隆植物被认为比非克隆植物更宜于利用异质性环境。在复杂的空间异质环境中，克隆植物可能形成了各种有效利用环境异质性的适应对策。对于克隆植物适应机制的研究，前人已做了大量的工作，特别是从形态和生物量分配等方面对简单异质生境下克隆植物的克隆整合和克隆分工进行了详细的研究。本研究以分布广泛的克隆植物东方草莓（Fragaria orientalis）作为研究对象，应用野外调查和实验生态学方法，采用多对比度单资源模型和不同向双资源模型，从形态和生理生态的角度，研究复杂异质生境下克隆植物的整合和分工及其耗益问题，分析不同类型的生境对克隆植物整合和分工的修饰作用，进而探讨克隆植物对异质生境的适应策略。克隆构型和分株种群特征是植物克隆生长及其生态适应对策研究的基本内容。本文通过野外调查，研究在不同光照条件下东方草莓克隆构型、分株种群特征以及点分布格局。结果表明：东方草莓的克隆构型随光照发生相应的变化，低光照下其匍匐茎节间长和分枝角度均增大而分枝强度减小；随光照减弱，东方草莓分株种群的生物量、根冠比和分株种群密度显著降低；不同光照下东方草莓分株均以随机分布为主但不同尺度下有所差异，其分布格局强度依次为旷地<林缘<林下。结合克隆植物对资源的利用对策，探讨了克隆构型和分株种群特征以及分布格局随环境条件变化的生态适应意义。不同生境斑块条件下克隆植物可能采取不同的适应对策。采用盆栽实验，研究不同水分对比度下克隆整合及其生理生态特征，并对单向和交互资源中东方草莓的克隆整合做了对比研究。结果显示：高的水分对比度能够促进东方草莓的克隆整合，并能刺激相连分株增加光合作用，东方草莓体内的氧化—抗氧化系统也II随对比度做出相应的反应。耗-益分析表明胁迫分株的受益是以供给分株的损耗为代价的，但从克隆片段总体来说是受益的。单向资源中东方草莓生长的绝对值高于交互资源，但耗-益分析表明生长于交互资源下东方草莓的克隆整合获益大于生长于单向资源下东方草莓的克隆整合获益。长期生长于特定生境的克隆植物，在进化过程中其克隆整合和克隆分工在对资源异质性的适应策略方面可能有所侧重。采用盆栽实验对来自不同海拔梯度的东方草莓的克隆整合和克隆分工对异质资源的适应对策进行了研究。实验结果表明，来自高海拔的东方草莓可塑性较差。来自两个海拔的东方草莓对切断匍匐茎的表现有所差异，总体上切断匍匐茎对来自高海拔的东方草莓影响更大些。另外，来自高海拔的东方草莓表现出更高的克隆分工。IIIClonal plants are known to be more suitable for the habitats of heterogeneousresources than nonclonal plants, perhaps due to their well developed adaptivestrategies to environmental heterogeneity. Many studies have been done on theadaptive mechanisms of clonal plants, especially on the clonal integration anddivision of labor with morphology and biomass allocation under simpleheterogeneous habitats. Based on field surveys, laboratory experiments, multi-contrastunidirectional resource model and reciprocal resource model, Fragaria orientalis, aRosaceae stoloniferous herb that widely distributes in China, was used to study thisplant’s morphological and physiological responses to complicated heterogeneoushabitats in terms of its clonal integration, division of labor and cost-benefit, as well astheir modifications by different habitats, so as to better understand the adaptivestrategies of clonal plants under heterogeneous environments.Clonal architecture and ramet population characteristics are of the major concernin the studies on growth and adaptive strategies of clonal plants. Clonal architecture,ramet population characteristics and spatial point pattern of F. orientalis underdifferent light intensity were studied with field observations. The results showed that,clonal architecture changed with light availability: Internode-lengths and branchangels of stolons were larger while branch intensities were smaller under lower lightintensity than those under higher light intensity; Biomass of ramet population,root-shoot ratio and density of ramet population decreased significantly with reduce oflight intensity; Under all light intensities, spatial pattern of ramets was mainlyrandomly distributed but it changed with different scales, with pattern intensity as:open space < forest edge < understory. Adaptation significance of the clonal architecture, the ramet population characteristics and the spatial pattern changing withdifferent environments was discussed according to these results.Clonal plants may take different adaptive strategies under different patches. Withpot culture, clonal integration and physiological parameters of F. orientalis underdifferent water contrasts were studied, and clonal integration under unilateralresources and reciprocal resources were also compared. The results suggested that,high water contrast improve the clonal integration of F. orientalis and increase thephotosynthesis of connected ramets. Oxidative and antioxidative system of F.orientalis also responded with changing water contrasts. According to cost-benefitanalysis, the drought-stressed ramets obtained benefits from the connectedwell-watered ramets, and as a whole, the clonal fragment could also get benefits.Growth of F. orientalis in homogeneous resources was better than that inheterogeneous resources, but the whole plant got more benefit through clonalintegration in heterogeneous resources than in homogeneous resources.Pot culture experiments were also used to study the adaptive strategies inutilizing heterogeneous resources by the plant populations from different altitudes.The results showed that, F. orientalis from alpine zones were shorter and lessexpanded with poorer clonal plasticity than those from middle mountains. F.orientalis from two different altitudes showed different responses to stolon severing,and as a whole, stolon severing had more influence on F. orientalis from alpine zones.In addition, F. orientalis from alpine zones exhibited higher division of labor, whichsuggested that clonal plants from different habitats develop their own adaptivemechanisms in their clonal integration and division of labor in response toenvironmental heterogeneity.

Grassland degradation in the

Supported by MSS images in the mid and late 1970s, TM images in the early 1990s and TM/ETM images in 2004, grassland degradation in the "Three-River Headwaters" region (TRH region) was interpreted through analysis on IRS images in two time series, then the spatial and temporal characteristics of grassland degradation in the TRH region were analyzed since the 1970s. The results showed that grassland degradation in the TRH region was a continuous change process which had large affected area and long time scale, and rapidly strengthen phenomenon did not exist in the 1990s as a whole. Grassland degradation pattern in the TRH region took shape initially in the mid and late 1970s. Since the 1970s, this degradation process has taken place continuously, obviously characterizing different rules in different regions. In humid and semi-humid meadow region, grassland firstly fragmentized, then vegetation coverage decreased continuously, and finally "black-soil-patch" degraded grassland was formed. But in semi-arid and and steppe region, the vegetation coverage decreased continuously, and finally desertification was formed. Because grassland degradation had obviously regional differences in the TRH region, it could be regionalized into 7 zones, and each zone had different characteristics in type, grade, scale and time process of grassland degradation.

Two modes of dipole events in tropical Indian Ocean

By analyzing the distributions of subsurface temperature and the surface wind stress anomalies in the tropical Pacific and Indian Oceans during the Indian Ocean Dipole (IOD) events, two major modes of the IOD and their formation mechanisms are revealed. (1) The subsurface temperature anomaly (STA) in the tropical Indian Ocean during the IOD events can be described as a "<" -shaped and west-east-oriented dipole pattern; in the east side of the "<" pattern, a notable tongue-like STA extends westward along the equator in the tropical eastern Indian Ocean; while in the west side of the "<" pattern, the STA has opposite sign with two centers (the southern one is stronger than the northern one in intensity) being of rough symmetry about the equator in the tropical mid-western Indian Ocean. (2) The IOD events are composed of two modes, which have similar spatial pattern but different temporal variabilities due to the large scale air-sea interactions within two independent systems. The first mode of the IOD event originates from the air-sea interaction on a scale of the tropical Pacific-Indian Ocean and coexists with ENSO. The second mode originates from the air-sea interaction on a scale of the tropical Indian Ocean and is closely associated with changes in the position and intensity of the Mascarene high pressure. The strong IOD event occurs when the two modes are in phase, and the IOD event weakens or disappears when the two modes are out of phase. Besides, the IOD events are normally strong when either of the two modes is strong. (3) The IOD event is caused by the abnormal wind stress forcing over the tropical Indian Ocean, which results in vertical transports, leading to the upwelling and pileup of seawater. This is the main dynamic processes resulting in the STA. When the anomalous easterly exists over the equatorial Indian Ocean, the cold waters upwell in the tropical eastern Indian Ocean while the warm waters pileup in the tropical western Indian Ocean, hence the thermocline in the tropical Indian Ocean is shallowed in the east and deepened in the west. The off-equator component due to the Coriolis force in the equatorial area causes the upwelling of cold waters and the shallowing of the equatorial India Ocean thermocline. On the other hand, the anomalous anticyclonic circulations and their curl fields located on both sides of the equator, cause the pileup of warm waters in the central area of their curl fields and the deepening of the equatorial Indian Ocean thermocline off the equator. The above three factors lead to the occurrence of positive phase IOD events. When anomalous westerly dominates over the tropical Indian Ocean, the dynamic processes are reversed, and the negative-phase IOD event occurs.

Distribution patterns of chlorophyll a in spring and autumn in association with hydrological features in the southern Yellow Sea and northern East China Sea

Two field studies were conducted to measure pigments in the Southern Yellow Sea (SYS) and the northern East China Sea (NECS) in April (spring) and September (autumn) to evaluate the distribution pattern of phytoplankton stock (Chl a concentration) and the impact of hydrological features such as water mass, mixing and tidal front on these patterns. The results indicated that the Chl a concentration was 2.43 +/- 2.64 (Mean +/- SD) mg m(-3) in April (range, 0.35 to 17.02 mg m(-3)) and 1.75 +/- 3.10 mg m(-3) in September (from 0.07 to 36.54 mg m(-3)) in 2003. Additionally, four areas with higher Chl a concentrations were observed in the surface water in April, while two were observed in September, and these areas were located within or near the point at which different water masses converged (temperature front area). The distribution pattern of Chl a was generally consistent between onshore and offshore stations at different depths in April and September. Specifically, higher Chl a concentrations were observed along the coastal line in September, which consisted of a mixing area and a tidal front area, although the distributional pattern of Chl a concentrations varied along transects in April. The maximum Chl a concentration at each station was observed in the surface and subsurface layer (0-10 m) for onshore stations and the thermocline layer (10-30 m) for offshore stations in September, while the greatest concentrations were generally observed in surface and subsurface water (0-10 m) in April. The formation of the Chl a distributional pattern in the SYS and NECS and its relationship with possible influencing factors is also discussed. Although physical forces had a close relationship with Chl a distribution, more data are required to clearly and comprehensively elucidate the spatial pattern dynamics of Chl a in the SYS and NECS.

Summertime ciliate and copepod nauplii distributions and micro-zooplankton herbivorous activity in the Laizhou Bay, Bohai Sea, China

The abundance and biomass of ciliated protozoa and copepod nauplii were investigated at 21 grid stations and two anchored stations in the Laizhou Bay, Bohai Sea, China in June 1998. Dilution incubations were carried out to investigate micro-zooplankton grazing pressure at the anchored stations during spring tide and neap tide. The dominant species were Tintinnopsis amoyensis, T. chinglanensis, T. pallida and aloricate ciliates. A total of 13 species of tintinnids were found. The total abundance of ciliates and nauplii ranged from 30 to 2390 ind l(-1) at grid stations. Tintinnopsis amoyensis was the only ciliate found at the anchored stations and in concentrations which varied from 0 to 6700 ind l(-1). The spatial distribution of ciliates was patchy. Tintinnopsis amoyensis and T. pallida were distributed in the Weihe River mouth and Xiaoqinghe River mouth respectively. The aloricate ciliates, T. chinglanensis and Codonellopsis ostenfeldi dominated offshore in sequence. The water mixing process may affect the spatial pattern of the dominant ciliate species. The abundance and biomass of copepod nauplii were in the range of 0-140 ind l(-1) and 0-7 mu g C l(-1) respectively, with the peak appearing at grid station 15. The total biomass of ciliates and copepod nauplii was in the range of 1(.)5-25 mu g C l(-1). Water column biomass of ciliates and nauplii varied from 2(.)37 to 52(.)3 mg C m(-2). At the anchored stations, the phytoplankton growth rates ranged from undetectable to 0 21 d(-1) and micro-zooplankton grazing rates from 0 13 to 0(.)57 d(-1). The grazing pressure of micro-zooplankton were 12 to 43% of the chlorophyll standing stock and 84 to 267% of the chlorophyll (C) 2000 Academic Press.

三门峡宋家店黄土－古土壤序列的地层学研究及其古环境记录

The Sanmen Gorge area is located in the southernmost margin of the Chinese Loess Plateau with well developed eolian deposit sequence for the past 2.6 Ma, providing a key site for further understanding of the evolution history of the East Asian monsoon since late Pliocene. This study attempted to characterize the stratigraphy and paleoclimate record of the loess-paleosol sequence in the Songjiadian section. The work involved includes systematic field investigation, paleomagnetic and rock magnetic analyses, grain size and major chemical composition analyses, and multiple proxy measurements of magnetic susceptibility, color reflectance and the ratio of CBD-dissolvable iron to the total iron (FeD/FeT). By comparisons of the Songjiadian section with well studied loess sections in the west of the Sanmen Gorge, the spatial variations of the East Asian monsoon was evaluated for some periods during which typical loess or paleosols developed. The following conclusions have been obtained. 1. Stratigraphic correlation and paleomagnetic result demonstrate that the loess-paleosol sequence in the Songjiadian section was accumulated from 2.6Ma, and is generally a complete and continuous loess sequence. However, notable differences from type loess sections have been identified for a few loess and paleosol units, featured by absence or anomalous thickness in the Songjiadian section. 2. Magnetic susceptibility and chromaticity records clearly reveal the loess-paleosol cycles, and indicate that the Sanmen Gorge area has been warmer and more humid than the Lingtai and Jingchuan sections in the western central Loess Plateau since the Early Pleistocene. 3. Grain size distribution patterns are typical of eolian dust, and show a great similarity between various units of loess and paleosols, and between the S32 and the underlying Red Clay through the Songjiadian profile, suggesting the eolian origin for the loess, paleosols and the Red Clay. 4. Comparison of the FeD/FeT curves from different loess sections indicates a stronger chemical weathering in the Songjiadian section and notable enhancement around 1800, 800 and 600 ka BP, implying the strengthening of the East Asian monsoon during these periods. In contrast, it was weakened at 1100 ka BP. Generally, the summer monsoon shows a gradually decreasing trend during the entire Pleostocene, but the spatial pattern typified by an increasing trend in weathering intensity from north to south remained the same. 5. The loess unit L9 in the Songjiadian section displays two geomagnetic field anomalies with the midpoint ages of 0.917 and 0.875 Ma respectively, with a segment of 12 ka. They are demonstrated to be equivalent to the Santa Rosa and Kamikatsura geomagnetic excursions. 6. Magnetite is the main magnetic carrier for both loess and paleosols. Maghemite concentration is higher in paleosols than in loess, and is an important carrier for the enhanced magnetic susceptibility in paleosols. Magnetic fabric analysis suggests a dominant N-S wind direction prevailing in the L9 and L15, while the summer winds were dominantly in NNE-SSW direction during the S8 period, notably differing from previous studies.

渭南地区末次冰期以来的蜗牛化石记录及古气候古环境研究

In this study, 172 mollusk assemblages from the Weinan loess section in the southeast of Loess Plateau, China, were identified quantitatively at relative high resolution. The results show: 1) the history and processes of paleoclimatic and paleoenvironmental changes in Weinan since the last 70 ka; 2) the characteristics of climatic changes during the period of the last glacial maximum (LGM); 3) the spatial pattern of paleoclimate variations at the south and middle parts of the Loess Plateau during the LGM period; 4) the timing of the last deglaciation and the return event of rapid climate change during the last deglaciation. The main conclusions are as follows: 1) 172 mollusk samples taken from the uppermost 9 m deposits cover the past 70 ka, which were sampled at the internals of 5 cm for S_0, 3 cm for L_(1-1) and L_(1-2), and 10 cm for L_(1-3), L_(1-4) and L_(1-5). Author analyzed quantitatively all individuals including broken pieces of snail shells, percentages of 15 species identified from 172 samples. Three main groups were determined according to the ecological requirement of each taxon. Based on the variations of three ecological groups and typical ecological species, The author intended to reconstruct the history of and processes of climate and environment since the last 70 ka in the Weinan region. The climate and environment in this region experienced the following changes: relative warm and humid stage from 67.5-20.3 cal. ka B.P., a period of forest-steppe or steppe developed; cold and arid stage from 20.3-15.5 cal. ka B.P., a dry steppe period, later wetter and colder; cold and humid period once time from 15.5 to 12.3 cal. ka B.P., a typical steppe or forest-steppe stage; cold and humid again from 12.3 cal. ka B.P. to 8.2 cal. ka B.P., a tropical steppe stage; warm and humid climate, a forest-steppe developed. 2) The climate during the period of the last glacial maximum (LGM) in Weinan was characterized by a general cold-humid condition, represented by occurrence of a number of the cool-humidiphilous mollusk species such as Gastocopta amigerella and Vallonia cf. pulchella in the section. 3) Comparison of the variations in abundance of Puncture orphana at Weinan with those at Luochuan and Changwu sections suggests that the summer monsoon intensity influenced differently at the three regions during the LGM period. The Weinan was weaker summer monsoon impact during all the period, the Luochuan was influenced occasionally, and Changwu was only a very short time affected, which indicated it might be located at the western margin of the summer monsoon influence during that period. 4) The ratio of thermo-humidiphilous mollusk group to cold-aridiphilous one shows an increase tendency at about 15 cal. ka B.P., reflecting the climate warming after the deglaciation in Weinan, which is approximately corresponding to the timing of warming period of the last deglaciation, found in the East Atlantic Ocean, the South China Sea and the Loess Plateau (indicated by the phytolith study). 5) A remarkable decrease in the number of thermo-humidiphilous and cool-humidiphilous mollusk species from 12.7 - 11.6 cal. ka B.P. indicates a cooling in climate and might be the reflection of the Younger Dryas event in Weinan. 6) Variations in the ratios of thermo-humidiphilous mollusk species to cold-aridiphilous ones reflect the climate instability in Holocene. There were four warm-humid periods (10-8.1 cal. ka B.P., 6.9-6.1 cal. ka B.P., 5.2-2.6cal. ka B.P., 1.6cal. ka B.P. to the present ) and three relative cold-arid periods (8.1-6.9 cal. ka B.P., 6.1-5.2 cal. ka B.P., 2.6-1.6 cal. ka B.P.), showing about a 1,000 year climatic oscillation.

AIRSTREAM: A Neural Network Model of Auditory Scene Analysis and Source Segregation

Multiple sound sources often contain harmonics that overlap and may be degraded by environmental noise. The auditory system is capable of teasing apart these sources into distinct mental objects, or streams. Such an "auditory scene analysis" enables the brain to solve the cocktail party problem. A neural network model of auditory scene analysis, called the AIRSTREAM model, is presented to propose how the brain accomplishes this feat. The model clarifies how the frequency components that correspond to a give acoustic source may be coherently grouped together into distinct streams based on pitch and spatial cues. The model also clarifies how multiple streams may be distinguishes and seperated by the brain. Streams are formed as spectral-pitch resonances that emerge through feedback interactions between frequency-specific spectral representaion of a sound source and its pitch. First, the model transforms a sound into a spatial pattern of frequency-specific activation across a spectral stream layer. The sound has multiple parallel representations at this layer. A sound's spectral representation activates a bottom-up filter that is sensitive to harmonics of the sound's pitch. The filter activates a pitch category which, in turn, activate a top-down expectation that allows one voice or instrument to be tracked through a noisy multiple source environment. Spectral components are suppressed if they do not match harmonics of the top-down expectation that is read-out by the selected pitch, thereby allowing another stream to capture these components, as in the "old-plus-new-heuristic" of Bregman. Multiple simultaneously occuring spectral-pitch resonances can hereby emerge. These resonance and matching mechanisms are specialized versions of Adaptive Resonance Theory, or ART, which clarifies how pitch representations can self-organize durin learning of harmonic bottom-up filters and top-down expectations. The model also clarifies how spatial location cues can help to disambiguate two sources with similar spectral cures. Data are simulated from psychophysical grouping experiments, such as how a tone sweeping upwards in frequency creates a bounce percept by grouping with a downward sweeping tone due to proximity in frequency, even if noise replaces the tones at their interection point. Illusory auditory percepts are also simulated, such as the auditory continuity illusion of a tone continuing through a noise burst even if the tone is not present during the noise, and the scale illusion of Deutsch whereby downward and upward scales presented alternately to the two ears are regrouped based on frequency proximity, leading to a bounce percept. Since related sorts of resonances have been used to quantitatively simulate psychophysical data about speech perception, the model strengthens the hypothesis the ART-like mechanisms are used at multiple levels of the auditory system. Proposals for developing the model to explain more complex streaming data are also provided.

Micro-Anatomical Quantitative Imaging Towards Enabling Automated Diagnosis of Thick Tissues at the Point of Care

Histopathology is the clinical standard for tissue diagnosis. However, histopathology has several limitations including that it requires tissue processing, which can take 30 minutes or more, and requires a highly trained pathologist to diagnose the tissue. Additionally, the diagnosis is qualitative, and the lack of quantitation leads to possible observer-specific diagnosis. Taken together, it is difficult to diagnose tissue at the point of care using histopathology.

Several clinical situations could benefit from more rapid and automated histological processing, which could reduce the time and the number of steps required between obtaining a fresh tissue specimen and rendering a diagnosis. For example, there is need for rapid detection of residual cancer on the surface of tumor resection specimens during excisional surgeries, which is known as intraoperative tumor margin assessment. Additionally, rapid assessment of biopsy specimens at the point-of-care could enable clinicians to confirm that a suspicious lesion is successfully sampled, thus preventing an unnecessary repeat biopsy procedure. Rapid and low cost histological processing could also be potentially useful in settings lacking the human resources and equipment necessary to perform standard histologic assessment. Lastly, automated interpretation of tissue samples could potentially reduce inter-observer error, particularly in the diagnosis of borderline lesions.

To address these needs, high quality microscopic images of the tissue must be obtained in rapid timeframes, in order for a pathologic assessment to be useful for guiding the intervention. Optical microscopy is a powerful technique to obtain high-resolution images of tissue morphology in real-time at the point of care, without the need for tissue processing. In particular, a number of groups have combined fluorescence microscopy with vital fluorescent stains to visualize micro-anatomical features of thick (i.e. unsectioned or unprocessed) tissue. However, robust methods for segmentation and quantitative analysis of heterogeneous images are essential to enable automated diagnosis. Thus, the goal of this work was to obtain high resolution imaging of tissue morphology through employing fluorescence microscopy and vital fluorescent stains and to develop a quantitative strategy to segment and quantify tissue features in heterogeneous images, such as nuclei and the surrounding stroma, which will enable automated diagnosis of thick tissues.

To achieve these goals, three specific aims were proposed. The first aim was to develop an image processing method that can differentiate nuclei from background tissue heterogeneity and enable automated diagnosis of thick tissue at the point of care. A computational technique called sparse component analysis (SCA) was adapted to isolate features of interest, such as nuclei, from the background. SCA has been used previously in the image processing community for image compression, enhancement, and restoration, but has never been applied to separate distinct tissue types in a heterogeneous image. In combination with a high resolution fluorescence microendoscope (HRME) and a contrast agent acriflavine, the utility of this technique was demonstrated through imaging preclinical sarcoma tumor margins. Acriflavine localizes to the nuclei of cells where it reversibly associates with RNA and DNA. Additionally, acriflavine shows some affinity for collagen and muscle. SCA was adapted to isolate acriflavine positive features or APFs (which correspond to RNA and DNA) from background tissue heterogeneity. The circle transform (CT) was applied to the SCA output to quantify the size and density of overlapping APFs. The sensitivity of the SCA+CT approach to variations in APF size, density and background heterogeneity was demonstrated through simulations. Specifically, SCA+CT achieved the lowest errors for higher contrast ratios and larger APF sizes. When applied to tissue images of excised sarcoma margins, SCA+CT correctly isolated APFs and showed consistently increased density in tumor and tumor + muscle images compared to images containing muscle. Next, variables were quantified from images of resected primary sarcomas and used to optimize a multivariate model. The sensitivity and specificity for differentiating positive from negative ex vivo resected tumor margins was 82% and 75%. The utility of this approach was further tested by imaging the in vivo tumor cavities from 34 mice after resection of a sarcoma with local recurrence as a bench mark. When applied prospectively to images from the tumor cavity, the sensitivity and specificity for differentiating local recurrence was 78% and 82%. The results indicate that SCA+CT can accurately delineate APFs in heterogeneous tissue, which is essential to enable automated and rapid surveillance of tissue pathology.

Two primary challenges were identified in the work in aim 1. First, while SCA can be used to isolate features, such as APFs, from heterogeneous images, its performance is limited by the contrast between APFs and the background. Second, while it is feasible to create mosaics by scanning a sarcoma tumor bed in a mouse, which is on the order of 3-7 mm in any one dimension, it is not feasible to evaluate an entire human surgical margin. Thus, improvements to the microscopic imaging system were made to (1) improve image contrast through rejecting out-of-focus background fluorescence and to (2) increase the field of view (FOV) while maintaining the sub-cellular resolution needed for delineation of nuclei. To address these challenges, a technique called structured illumination microscopy (SIM) was employed in which the entire FOV is illuminated with a defined spatial pattern rather than scanning a focal spot, such as in confocal microscopy.

Thus, the second aim was to improve image contrast and increase the FOV through employing wide-field, non-contact structured illumination microscopy and optimize the segmentation algorithm for new imaging modality. Both image contrast and FOV were increased through the development of a wide-field fluorescence SIM system. Clear improvement in image contrast was seen in structured illumination images compared to uniform illumination images. Additionally, the FOV is over 13X larger than the fluorescence microendoscope used in aim 1. Initial segmentation results of SIM images revealed that SCA is unable to segment large numbers of APFs in the tumor images. Because the FOV of the SIM system is over 13X larger than the FOV of the fluorescence microendoscope, dense collections of APFs commonly seen in tumor images could no longer be sparsely represented, and the fundamental sparsity assumption associated with SCA was no longer met. Thus, an algorithm called maximally stable extremal regions (MSER) was investigated as an alternative approach for APF segmentation in SIM images. MSER was able to accurately segment large numbers of APFs in SIM images of tumor tissue. In addition to optimizing MSER for SIM image segmentation, an optimal frequency of the illumination pattern used in SIM was carefully selected because the image signal to noise ratio (SNR) is dependent on the grid frequency. A grid frequency of 31.7 mm-1 led to the highest SNR and lowest percent error associated with MSER segmentation.

Once MSER was optimized for SIM image segmentation and the optimal grid frequency was selected, a quantitative model was developed to diagnose mouse sarcoma tumor margins that were imaged ex vivo with SIM. Tumor margins were stained with acridine orange (AO) in aim 2 because AO was found to stain the sarcoma tissue more brightly than acriflavine. Both acriflavine and AO are intravital dyes, which have been shown to stain nuclei, skeletal muscle, and collagenous stroma. A tissue-type classification model was developed to differentiate localized regions (75x75 µm) of tumor from skeletal muscle and adipose tissue based on the MSER segmentation output. Specifically, a logistic regression model was used to classify each localized region. The logistic regression model yielded an output in terms of probability (0-100%) that tumor was located within each 75x75 µm region. The model performance was tested using a receiver operator characteristic (ROC) curve analysis that revealed 77% sensitivity and 81% specificity. For margin classification, the whole margin image was divided into localized regions and this tissue-type classification model was applied. In a subset of 6 margins (3 negative, 3 positive), it was shown that with a tumor probability threshold of 50%, 8% of all regions from negative margins exceeded this threshold, while over 17% of all regions exceeded the threshold in the positive margins. Thus, 8% of regions in negative margins were considered false positives. These false positive regions are likely due to the high density of APFs present in normal tissues, which clearly demonstrates a challenge in implementing this automatic algorithm based on AO staining alone.

Thus, the third aim was to improve the specificity of the diagnostic model through leveraging other sources of contrast. Modifications were made to the SIM system to enable fluorescence imaging at a variety of wavelengths. Specifically, the SIM system was modified to enabling imaging of red fluorescent protein (RFP) expressing sarcomas, which were used to delineate the location of tumor cells within each image. Initial analysis of AO stained panels confirmed that there was room for improvement in tumor detection, particularly in regards to false positive regions that were negative for RFP. One approach for improving the specificity of the diagnostic model was to investigate using a fluorophore that was more specific to staining tumor. Specifically, tetracycline was selected because it appeared to specifically stain freshly excised tumor tissue in a matter of minutes, and was non-toxic and stable in solution. Results indicated that tetracycline staining has promise for increasing the specificity of tumor detection in SIM images of a preclinical sarcoma model and further investigation is warranted.

In conclusion, this work presents the development of a combination of tools that is capable of automated segmentation and quantification of micro-anatomical images of thick tissue. When compared to the fluorescence microendoscope, wide-field multispectral fluorescence SIM imaging provided improved image contrast, a larger FOV with comparable resolution, and the ability to image a variety of fluorophores. MSER was an appropriate and rapid approach to segment dense collections of APFs from wide-field SIM images. Variables that reflect the morphology of the tissue, such as the density, size, and shape of nuclei and nucleoli, can be used to automatically diagnose SIM images. The clinical utility of SIM imaging and MSER segmentation to detect microscopic residual disease has been demonstrated by imaging excised preclinical sarcoma margins. Ultimately, this work demonstrates that fluorescence imaging of tissue micro-anatomy combined with a specialized algorithm for delineation and quantification of features is a means for rapid, non-destructive and automated detection of microscopic disease, which could improve cancer management in a variety of clinical scenarios.

Interactions spatiales et auto-organisation des végétations semi-arides

Les recherches récapitulées dans cette thèse de doctorat ont porté sur les causes de l’organisation spatiale des végétations périodiques. Ces structures paysagères aux motifs réguliers, tachetés, tigrés ou labyrinthiques, d’échelle décamétrique à hectométrique, couvrant des étendues considérables sur au moins trois continents, constituent un cas d’école dans l’étude des processus endogènes présidant à l’hétérogénéité du couvert végétal. Ces structures prennent place sur un substrat homogène, mis à part la rétroaction du couvert lui-même, et sont marquées par des écotones abrupts et la persistance d’une proportion considérable de sol nu. Plusieurs modèles ont mis en avant l’existence possible d’un phénomène d’auto-organisation du couvert, qui verrait une structure d’ensemble émerger des interactions locales entre individus. Ces modèles se basent sur le jeu simultané de la consommation de la ressource (compétition) et de l’amélioration de l’un ou l’autre des éléments du bilan de la même ressource par le couvert (facilitation). La condition à l’existence d’une structure d’ensemble spatialement périodique et stable réside dans une différence entre la portée de la compétition (plus grande) et celle de la facilitation. L’apparition de ces structures est modulée par le taux de croissance biologique, qui est le reflet des contraintes extérieures telles que l’aridité, le pâturage ou la coupe de bois. Le modus operandi des interactions spatiales supposées entre individus reste largement à préciser.

Nos recherches ont été menées au sud-ouest de la République du Niger, à l’intérieur et dans les environs du parc Régional du W. Trois axes ont été explorés :(i) Une étude de la dépendance spatiale entre la structure de la végétation (biovolumes cartographiés) et les paramètres du milieu abiotique (relief, sol), sur base d’analyses spectrales et cross-spectrales par transformée de Fourier (1D et 2D). (ii) Une étude diachronique (1956, 1975 et 1996) à large échelle (3000 km²) de l’influence de l’aridité et des pressions d’origine anthropique sur l’auto-organisation des végétations périodiques, basée sur la caractérisation de la structure spatiale des paysages sur photos aériennes via la transformée de Fourier en 2D. (iii) Trois études portant sur les interactions spatiales entre individus :En premier lieu, via l’excavation des systèmes racinaires (air pulsé) ;Ensuite, par un suivi spatio-temporel du bilan hydrique du sol (blocs de gypse) ;Enfin, via le marquage de la ressource par du deutérium.

Nous avons ainsi pu établir que les végétations périodiques constituent bien un mode d’auto-organisation pouvant survenir sur substrat homogène et modulé par les contraintes climatiques et anthropiques. Un ajustement rapide entre l’organisation des végétations périodiques et le climat a pu être montrée en zone protégée. La superficie et l’organisation des végétations périodiques y ont tour à tour progressé et régressé en fonction d’épisodes secs ou humides. Par contre, en dehors de l’aire protégée, la possibilité d’une restauration du couvert semble fortement liée au taux d’exploitation des ressources végétales. Ces résultats ont d’importantes implications quant à la compréhension des interactions entre climat et écosystèmes et à l’évaluation de leurs capacités de charge. La caractérisation de la structure spatiale des végétations arides, notamment par la transformée de Fourier d’images HR, devrait être généralisée comme outil de monitoring de l’état de ces écosystèmes. Nos études portant sur les modes d’interactions spatiales ont permis de confirmer l’existence d’une facilitation à courte portée du couvert végétal sur la ressource. Cependant, cette facilitation ne semble pas s’exercer sur le terme du bilan hydrique traditionnellement avancé, à savoir l’infiltration, mais plutôt sur le taux d’évaporation (deux fois moindre à l’ombre des canopées). Ce mécanisme exclut l’existence de transferts diffusifs souterrains entre sols nu et fourrés. Des transferts inverses semblent d’ailleurs montrés par le marquage isotopique. L’étude du bilan hydrique et la cartographie du micro-relief, ainsi que la profondeur fortement réduite de la zone d’exploitation racinaire, jettent de sérieux doutes quant au rôle communément admis des transferts d’eau par ruissellement/diffusion de surface en tant que processus clé dans la compétition à distance entre les plantes. L’alternative réside dans l’existence d’une compétition racinaire de portée supérieure aux canopées. Cette hypothèse trouve une confirmation tant par les rhizosphères excavées, superficielles et étendues, que dans le marquage isotopique, montrant des contaminations d’arbustes situés à plus de 15 m de la zone d’apport. De même, l’étude du bilan hydrique met en évidence les influences simultanées et contradictoires (facilitation/compétition) des ligneux sur l’évapotranspiration.

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This PhD thesis gathers results of a research dealing with the causes of the spatial organisation of periodic vegetations. These landscape structures, featuring regular spotted, labyrinthine or banded patterns of decametric to hectometric scale, and extending over considerable areas on at least three continents, constitute a perfect study case to approach endogenous processes leading to vegetation heterogeneities. These patterns occur over homogeneous substratum, except for vegetation’s own feedbacks, and are marked by sharp ecotones and the persistence of a considerable amount of bare soil. A number of models suggested a possible case of self-organized patterning, in which the general structure would emerge from local interactions between individuals. Those models rest on the interplay of competitive and facilitative effects, relating to soil water consumption and to soil water budget enhancement by vegetation. A general necessary condition for pattern formation to occur is that negative interactions (competition) have a larger range than positive interactions (facilitation). Moreover, all models agree with the idea that patterning occurs when vegetation growth decreases, for instance as a result of reduced water availability, domestic grazing or wood cutting, therefore viewing patterns as a self-organised response to environmental constraints. However the modus operandi of the spatial interactions between individual plants remains largely to be specified.

We carried out a field research in South-West Niger, within and around the W Regional Park. Three research lines were explored: (i) The study of the spatial dependency between the vegetation pattern (mapped biovolumes) and the factors of the abiotic environment (soil, relief), on the basis of spectral and cross-spectral analyses with Fourier transform (1D and 2D). (ii) A broad scale diachronic study (1956, 1975, 1996) of the influence of aridity and human induced pressures on the vegetation self-patterning, based on the characterisation of patterns on high resolution remote sensing data via 2D Fourier transform. (iii) Three different approaches of the spatial interactions between individuals: via root systems excavation with pulsed air; via the monitoring in space and time of the soil water budget (gypsum blocks method); and via water resource labelling with deuterated water.

We could establish that periodic vegetations are indeed the result of a self-organisation process, occurring in homogeneous substratum conditions and modulated by climate and human constraints. A rapid adjustment between vegetation patterning and climate could be observed in protected zones. The area and patterning of the periodic vegetations successively progressed and regressed, following drier or wetter climate conditions. On the other hand, outside protected areas, the restoration ability of vegetation appeared to depend on the degree of vegetation resource exploitation. These results have important implications regarding the study of vegetation-climate interactions and the evaluation of ecosystems’ carrying capacities. Spatial pattern characterisation in arid vegetations using Fourier transform of HR remote sensing data should be generalised for the monitoring of those ecosystems. Our studies dealing with spatial interaction mechanisms confirmed the existence of a short range facilitation of the cover on water resource. However, this facilitation does not seem to act through the commonly accepted infiltration component, but rather on the evaporative rate (twice less within thickets). This mechanism excludes underground diffusive transfers between bare ground and vegetation. Inverse transfers were even shown by deuterium labelling. Water budget study and micro-elevation mapping, along with consistent soil shallowness, together cast serious doubts on the traditional mechanism of run-off/diffusion of surface water as a key process of the long range competition between plants. An alternative explanation lies in long range root competition. This hypothesis find support as well in the excavated root systems, shallow and wide, as in isotopic labelling, showing contaminations of shrubs located up to 15 m of the irrigated area. Water budget study also evidenced simultaneous contradictory effects (facilitation/competition) of shrubs on evapotranspiration.

Intertidal molluscan and algal species richness around the UK coast

Geographically referenced databases of species records are becoming increasingly available. Doubts over the heterogeneous quality of the underlying data may restrict analyses of such collated databases. We partitioned the spatial variation in species richness of littoral algae and molluscs from the UK National Biodiversity Network database into a smoothed mesoscale component and a local component. Trend surface analysis (TSA) was used to define the mesoscale patterns of species richness, leaving a local residual component that lacked spatial autocorrelation. The analysis was based on 10 km grid squares with 115035 records of littoral algae (729 species) and 66879 records of littoral molluscs (569 species). The TSA identified variation in algal and molluscan species richness with a characteristic length scale of approximately 120 km. Locations of the most species-rich grid squares were consistent with the southern and western bias of species richness in the UK marine flora and fauna. The TSA also identified areas which showed significant changes in the spatial pattern of species richness: breakpoints, which correspond to major headlands along the south coast of England. Patterns of algal and molluscan species richness were broadly congruent. Residual variability was strongly influenced by proxies of collection effort, but local environmental variables including length of the coastline and variability in wave exposure were also important. Relative to the underlying trend, local species richness hotspots occurred on all coasts. While there is some justification for scepticism in analyses of heterogeneous datasets, our results indicate that the analysis of collated datasets can be informative.

How do grazers achieve their distribution? A continuum of models from random diffusion to the ideal free distribution using biased random walks

A conceptual model is described for generating distributions of grazing animals, according to their searching behavior, to investigate the mechanisms animals may use to achieve their distributions. The model simulates behaviors ranging from random diffusion, through taxis and cognitively aided navigation (i.e., using memory), to the optimization extreme of the Ideal Free Distribution. These behaviors are generated from simulation of biased diffusion that operates at multiple scales simultaneously, formalizing ideas of multiple-scale foraging behavior. It uses probabilistic bias to represent decisions, allowing multiple search goals to be combined (e.g., foraging and social goals) and the representation of suboptimal behavior. By allowing bias to arise at multiple scales within the environment, each weighted relative to the others, the model can represent different scales of simultaneous decision-making and scale-dependent behavior. The model also allows different constraints to be applied to the animal's ability (e.g., applying food-patch accessibility and information limits). Simulations show that foraging-decision randomness and spatial scale of decision bias have potentially profound effects on both animal intake rate and the distribution of resources in the environment. Spatial variograms show that foraging strategies can differentially change the spatial pattern of resource abundance in the environment to one characteristic of the foraging strategy.</