Community Similarity(社区相似度)研究综述
Community Similarity 社区相似度 - Beta nearest-taxon index analyses suggested a determinant role of dispersal limitation on fungal community in overall and most individual mangroves, with support from the strong distance-decay patterns of community similarity. [1] species richness gradient bounds possible values of Jaccard index of community similarity). [2] There were strong lagged correlations between viral diversity and community similarity of putative hosts, implying that the viruses influenced the composition of the host communities. [3] The effect of metal mixtures on the community was measured using the community effect concentration (EC) concept which assumes that as contamination increases, the community similarity between test and control treatments decreases producing a dose response curve allowing the calculation of community effect concentrations. [4] Non-metric multidimensional scaling and analysis of community similarity were used to analyse the butterfly community structure. [5] The Mantel test showed no significant relationship between geographic distance and community similarity (r = 0. [6] (3) For arthropods, environmental distance was the strongest driver of community similarity. [7] Relative importance value (RIV), species richness, diversity, dominance, as well as community similarity and productivity were calculated. [8] The distance decay of community similarity is one of the spatial scaling patterns observed in many forms of life, including plants, animals, and microbial communities. [9] Merging the environmental fungal and bacterial profiles based on the IC-derived F:B values revealed new relationships among samples in terms of community similarity. [10] In addition, we provide evidence for the community similarity and dissolved nutrients of different water bodies to highlight the potential origin of the Cold Water Mass. [11] Beta nearest-taxon index analyses suggested a determinant role of dispersal limitation on fungal community in overall and most individual mangroves, with supporting from the strong distance-decay patterns of community similarity. [12] The ecological index analysis consisted of species diversity, evenness, richness, abundance, and community similarity. [13] Results show that community similarity of samples decreases over distance between traps. [14] We tested whether community similarity is correlated with spatial proximity or environmental conditions. [15] Community similarity is often assessed through similarities in species occurrences and abundances (i. [16] In this extensive survey, we show that temperature, along with stratification, nutrients, and dissolved oxygen, but not geographic distance, define major microbial habitats and community similarity. [17] The highest bacterial diversity was found in the middle part of the NCP, with most of the variation in diversity attributable to differences in the community similarity of Actinobacteria and Alphaproteobacteria. [18] In this paper, we proposed a novel embedding-based approach that considers and utilizes both individual similarity and community similarity by jointly optimizing them in a single loss function. [19] Our results indicated that temporal turnover, defined as the slope of linear regression between community similarity and time, was significantly higher in the biochar amendment (slope = −0. [20] , the increase in community similarity through time or space, is a commonly observed response following conversion of native ecosystems to agriculture, but our understanding of the ecological mechanisms underlying this process is limited for bacterial communities. [21] In this study, we used data collected from headwater streams within the Xin'an basin, China, to evaluate the effects of low‐head dams on the alpha diversity and community similarity of fish assemblages. [22] Focusing on orchard and vineyard landscapes, which host many conservation-priority species, we conducted a series of meta-analyses to compare (1) three measures of biodiversity (taxon richness, abundance, and community similarity) among five management regimes (conventional, integrated, organic, and abandoned orchards/vineyards and (semi-)natural habitats) and (2) fruit/nut yield among the three farming systems. [23] The study was done to identify the impact of oil palm plantations on herpetofauna diversity, community similarity and percentage loss or gain of community. [24] Additionally, with strong lagged correlations between viral richness and community similarity of putative hosts, the results imply that viruses influence the composition of the host communities. [25] Rosenblad and Sax (2017) provided a concise framework of six types of introduction and extinction events with formula derivations to qualify the relative importance of these events on changes in community similarity. [26] The community similarity based Bray-Curtis similarity index was highest between 10. [27] Community similarity was related to both environmental and spatial distance between the pools even when the other variable group was controlled for. [28] The beta diversity (community similarity) displayed a distinct separation of the OP and gut microbiota between AC and CC children. [29] Additionally, community similarity was high (~78%) between the two years. [30] The application of glyphosate-based herbicides was found to result in a decrease in macrophyte species richness, an increase in macrophyte species evenness, a decrease in macrophyte cover and a reduction in community similarity. [31] Differences in composition were also shown in the low value of community similarity (<50%). [32] Over all sites, temperature and oxygen values were highly correlated with community similarity, and salinity and oxygen values were the most strongly positively- and negatively correlated with alpha diversity, respectively. [33] This approach allowed us to evaluate time series of multiple metrics of biodiversity (richness, evenness and community similarity) at different spatial scales (patch and landscape), which were then compared using model‐based recursive partitioning. [34] Furthermore, an iterative propagation approach for identifying the matched entities in the whole graph is developed, where community similarity is introduced into the measure function to control the total measurement of candidate pairs. [35] Data were analyzed using importance value index (IVI), Simpson’s diversity index and Sorensen’s community similarity. [36] These empirical observations were robust to different measures of community similarity and random resampling tests. [37] We observed a decreasing trend on the archaeal diversity over the time with increasing CTS application rate, together with an increase in the community similarity. [38]Beta 最近分类群指数分析表明，在群落相似性的强距离衰减模式的支持下，扩散限制对整个红树林和大多数个体红树林中的真菌群落具有决定性作用。 [1] 物种丰富度梯度限制了群落相似性 Jaccard 指数的可能值）。 [2] 病毒多样性与推定宿主的群落相似性之间存在很强的滞后相关性，这意味着病毒影响了宿主群落的组成。 [3] 金属混合物对群落的影响是使用群落效应浓度 (EC) 概念测量的，该概念假设随着污染的增加，测试和对照处理之间的群落相似性降低，从而产生允许计算群落效应浓度的剂量反应曲线。 [4] 非度量多维尺度和社区相似性分析用于分析蝴蝶社区结构。 [5] Mantel 检验显示地理距离和社区相似性之间没有显着关系（r = 0. [6] (3) 对于节肢动物，环境距离是群落相似性的最强驱动因素。 [7] 计算了相对重要性值（RIV）、物种丰富度、多样性、优势度以及群落相似性和生产力。 [8] 群落相似度的距离衰减是在许多生命形式中观察到的空间尺度模式之一，包括植物、动物和微生物群落。 [9] 基于 IC 衍生的 F:B 值合并环境真菌和细菌概况揭示了样本之间在群落相似性方面的新关系。 [10] 此外，我们为不同水体的群落相似性和溶解养分提供了证据，以突出冷水团的潜在起源。 [11] Beta最近分类群指数分析表明，在整个红树林和大多数个体红树林中，真菌群落的扩散限制具有决定性作用，并得到群落相似性强距离衰减模式的支持。 [12] 生态指数分析包括物种多样性、均匀度、丰富度、丰度和群落相似度。 [13] 结果表明，样本的社区相似性随着陷阱之间的距离而降低。 [14] 我们测试了社区相似性是否与空间接近度或环境条件相关。 [15] 群落相似性通常通过物种出现和丰度的相似性来评估（i. [16] 在这项广泛的调查中，我们表明温度以及分层、营养物质和溶解氧，但不是地理距离，定义了主要的微生物栖息地和群落相似性。 [17] 在 NCP 的中部发现了最高的细菌多样性，多样性的大部分变化归因于放线菌和 Alphaproteobacteria 的群落相似性的差异。 [18] 在本文中，我们提出了一种新颖的基于嵌入的方法，该方法通过在单个损失函数中联合优化它们来考虑和利用个体相似性和社区相似性。 [19] 我们的结果表明，时间周转率，定义为群落相似性与时间之间的线性回归斜率，在生物炭修正中显着更高（斜率 = -0. [20] ，随着时间或空间的增加，群落相似性的增加是原生生态系统向农业转变后常见的反应，但我们对这一过程背后的生态机制的理解仅限于细菌群落。 [21] 在这项研究中，我们使用从中国新安流域内源头河流收集的数据来评估低水头大坝对鱼类组合的 alpha 多样性和群落相似性的影响。 [22] 以拥有许多优先保护物种的果园和葡萄园景观为重点，我们进行了一系列荟萃分析，以比较 (1) 五种管理制度（常规、综合、有机和废弃的果园/葡萄园和（半）自然栖息地）和（2）三种耕作系统中的水果/坚果产量。 [23] 该研究旨在确定油棕种植园对爬虫动物多样性、群落相似性和群落损失或增加百分比的影响。 [24] 此外，由于病毒丰富度与假定宿主的群落相似性之间存在很强的滞后相关性，结果表明病毒会影响宿主群落的组成。 [25] Rosenblad 和 Sax (2017) 提供了一个简明框架，其中包含六种类型的引入和灭绝事件，并通过公式推导来确定这些事件对群落相似性变化的相对重要性。 [26] 基于社区相似度的 Bray-Curtis 相似度指数在 10 之间最高。 [27] 即使控制了另一个变量组，社区相似性也与池之间的环境和空间距离有关。 [28] β 多样性（群落相似性）显示了 AC 和 CC 儿童之间 OP 和肠道微生物群的明显分离。 [29] 此外，两年间的社区相似度很高（~78%）。 [30] 发现基于草甘膦的除草剂的应用导致大型植物物种丰富度降低，大型植物物种均匀度增加，大型植物覆盖率降低和群落相似性降低。 [31] 社区相似性的低值（<50％）也显示了组成的差异。 [32] 在所有地点，温度和氧值与群落相似性高度相关，盐度和氧值分别与α多样性呈最强烈的正相关和负相关。 [33] 这种方法使我们能够评估不同空间尺度（斑块和景观）下的多个生物多样性指标（丰富度、均匀度和群落相似性）的时间序列，然后使用基于模型的递归分区进行比较。 [34] 此外，开发了一种用于识别整个图中匹配实体的迭代传播方法，其中将社区相似性引入到度量函数中以控制候选对的总度量。 [35] 使用重要性值指数（IVI）、辛普森的多样性指数和索伦森的社区相似性对数据进行分析。 [36] 这些经验观察对于社区相似性的不同测量和随机重采样测试是稳健的。 [37] 我们观察到随着 CTS 应用率的增加，古菌多样性随时间呈下降趋势，同时群落相似性增加。 [38]
log transformed microbial
Microbial succession rates represented by temporary turnover were assessed using the slope (w value) of linear regressions, based on log-transformed microbial community similarity over time. [1] Microbial succession rates represented by temporary turnover were assessed using the slope of linear regressions, based on log-transformed microbial community similarity over time. [2] Temporal turnover of microbial succession was investigated using the slope (w value) of linear regression of log-transformed microbial community similarity over time. [3]基于随时间的对数转换的微生物群落相似性，使用线性回归的斜率（w 值）评估由临时更替代表的微生物演替率。 [1] 基于随时间的对数转换的微生物群落相似性，使用线性回归的斜率评估由临时更替代表的微生物演替率。 [2] nan [3]
dependent seedling mortality
We hypothesized that: (1) microbial involvement in distance-dependent seedling mortality would result in an increase in community similarity or the presence of predictor OTUs in conspecific adult tree rhizospheres, relative to physically nearby heterospecifics; (2) on average, plant species identified as having a history of distance dependent seedling mortality would exhibit more similar microbial communities among their conspecific individuals, than those that did not; and (3) dense patches of conspecific seedlings would promote the assembly of distinct soil microbial communities, which may be involved in density-dependent seedling mortality. [1]我们假设：（1）微生物参与与距离相关的幼苗死亡率将导致群落相似性增加或在同种成年树根际中存在预测 OTU，相对于物理上邻近的异种； （2）平均而言，被确定为具有距离依赖性幼苗死亡率历史的植物物种在其同种个体中表现出比没有的更相似的微生物群落； (3) 密集的同种幼苗会促进不同土壤微生物群落的组装，这可能与密度相关的幼苗死亡率有关。 [1]
Microbial Community Similarity
Microbial succession rates represented by temporary turnover were assessed using the slope (w value) of linear regressions, based on log-transformed microbial community similarity over time. [1] Microbial succession rates represented by temporary turnover were assessed using the slope of linear regressions, based on log-transformed microbial community similarity over time. [2] Temporal turnover of microbial succession was investigated using the slope (w value) of linear regression of log-transformed microbial community similarity over time. [3] All patients studied recovered clinically but showed differing patterns in long-term microbial community similarity to the donor that were associated with members of the bacterial group Bacteroidetes, previously shown to be prominent contributors to rCDI resistance. [4] We examined 1,236 16S rRNA amplicon libraries of the gut, oral, and skin microbiota from 497 Afrotropical bats (representing 9 families, 20 genera, and 31 species) to assess the extent to which host ecology and phylogeny predict microbial community similarity in bats. [5]基于随时间的对数转换的微生物群落相似性，使用线性回归的斜率（w 值）评估由临时更替代表的微生物演替率。 [1] 基于随时间的对数转换的微生物群落相似性，使用线性回归的斜率评估由临时更替代表的微生物演替率。 [2] nan [3] nan [4] nan [5]
Higher Community Similarity
Here, we show significantly higher community similarity (compositional homogeneity) in the pathobiome of diseased corals, compared to the microbiome associated with apparently healthy tissue. [1] Results showed that the processes governing spatial turnover in bacterial community composition shifted regularly with spatial scale, with homogenizing dispersal dominating at small spatial scales and variable selection dominating at larger scales, which in turn explained the distance‐decay pattern that closer located sites tended to have higher community similarity. [2] Finally, higher community similarity with resident community would make biofertilizer face more intensely resistance and make the potassium solubilizing species in biofertilizer more difficult to spread and grow in new habitat although more species could successful colonization. [3] Principal component analyses showed higher community similarity between biofouling and suspended biomass under variable salinity conditions than for constant salinity. [4]在这里，与明显健康组织相关的微生物组相比，我们在患病珊瑚的病理组中显示出显着更高的群落相似性（组成同质性）。 [1] 结果表明，控制细菌群落组成空间周转的过程随空间尺度有规律地变化，均质分散在小空间尺度上占主导地位，而变量选择在较大尺度上占主导地位，这反过来解释了位置越近的位点往往具有的距离衰减模式更高的社区相似度。 [2] nan [3] nan [4]
Fungal Community Similarity 真菌群落相似性
We used MiSeq sequencing of fungal rDNA to compare fungal community similarity for co-occurring P. [1] Fungal community similarity based on the identified genera was highest between Gazi Bay and Mida Creek (0. [2] We detected large intra-annual temporal differences in soil fungal community similarity, where fungal communities differed most among seasons, equivalent to the community turnover observed over thousands of kilometers in space. [3]我们使用真菌 rDNA 的 MiSeq 测序来比较真菌群落相似性与同时发生的 P. [1] Gazi Bay 和 Mida Creek 之间的真菌群落相似性最高（0. [2] nan [3]
Average Community Similarity
However, an average community similarity of 52% so early in the successional process suggests that current reclamation efforts are progressing towards increased similarity compared to mature forest plots. [1] Average community similarity was below 5%, showed minor change within 14 and 339 m distance and increased with the spatial grain used to compare the data. [2]然而，在演替过程的早期，平均群落相似性为 52%，这表明与成熟林地相比，当前的开垦工作正在朝着增加相似性的方向发展。 [1] 平均群落相似度低于 5%，在 14 和 339m 距离内变化不大，并随着用于比较数据的空间粒度而增加。 [2]
Parasite Community Similarity
Previous research has examined parasite community similarity by regressing pairwise parasite community dissimilarity between two host species against host phylogenetic distance. [1] As in other groups, geographical range overlap and phylogenetic similarity predicted greater parasite community similarity in ungulates. [2]以前的研究通过回归两个宿主物种之间的成对寄生虫群落差异与宿主系统发育距离来检查寄生虫群落的相似性。 [1] 与其他群体一样，地理范围重叠和系统发育相似性预示着有蹄类动物中寄生虫群落的相似性更大。 [2]
Bacterial Community Similarity
We analysed patterns of surface soil bacterial community similarity to reference (‘rehabilitation trajectory’) data from three long-term (> 25 year) post-mining rehabilitation chronosequence case studies from south-west Western Australia. [1] In this study, the bacterial community compositions of 21 surface seawater samples, that were distributed over a distance of 7800 km, were surveyed to investigate how bacterial community similarity changes with increasing geographical distance. [2]我们分析了来自澳大利亚西南部三个长期（> 25 年）采矿后恢复时间序列案例研究的地表土壤细菌群落与参考（“恢复轨迹”）数据相似性的模式。 [1] nan [2]
community similarity index 社区相似度指数
The number of identified Basidiomycetes were analyzed to obtain relative abundance, species richness, evenness, Shannon Wiener diversity index, Simpson dominance index, and community similarity index. [1] The type of vegetation for enrichment and planting activities at the shrub location refers to the KPSL location as a reference because it tends to have similarities with the community similarity index of 52. [2] The species diversity and community similarity index of soil ciliates in Talish forests of Lankaran natural area were also calculated. [3] Wet and dry seasons showed differences in prokaryotic community richness and evenness: community similarity indices by Jaccard, Lennon, and Yue & Clayton were 2. [4] Richness, diversity and community similarity indices as well as abundance analyses revealed a strong relationship between taxonomic diversity and acoustic diversity. [5] Species richness index S, Shannon-Wienner index H, Simpson index D, Pielou index Jsw, community similarity index IS and community stability index were employed to quantitatively evaluate the plant species diversity and stability. [6] The diversity of butterflies in revegetated land increased with the increasing age of vegetation, and the community similarity index between revegetated land and forest also increased with the increasing age of vegetation. [7] We tested the validity of the “informed diversity” concept using bird capture data from multiple locations in northern California and southern Oregon to examine patterns of species richness among breeding, molting, and naïve (based solely on occurrence) bird communities at the landscape and local scales using linear regression, community similarity indices, and a Detrended Correspondence Analysis (DCA). [8] Analysis of the data used included amphibian diversity, community similarity index, and species evenness. [9]分析鉴定出的担子菌数量，获得相对丰度、物种丰富度、均匀度、香农维纳多样性指数、辛普森优势指数和群落相似度指数。 [1] 灌木位置富集和种植活动的植被类型以 KPSL 位置作为参考，因为它与 52 的群落相似指数趋于相似。 [2] 还计算了连科兰自然区塔利什森林土壤纤毛虫的物种多样性和群落相似度指数。 [3] 湿季和旱季在原核生物群落丰富度和均匀度方面存在差异：Jaccard、Lennon 和 Yue & Clayton 的群落相似性指数为 2。 [4] nan [5] nan [6] nan [7] nan [8] nan [9]
community similarity metric
To do so, we computed community similarity metrics (Bray–Curtis, Jaccard, and weighted and unweighted UniFrac) among samples and community diversity indexes (Shannon and Faith phylogenetic diversity indexes) within each sample. [1] In addition, our results demonstrated that null model algorithms and community similarity metrics had strong effects on quantifying ecological stochasticity. [2]为此，我们计算了样本间的群落相似度指标（Bray-Curtis、Jaccard 以及加权和未加权的 UniFrac）以及每个样本内的群落多样性指数（Shannon 和 Faith 系统发育多样性指数）。 [1] nan [2]
community similarity declined
Over a 3,000 km range, community similarity declined with increasing geographic distance (Mantel r=0. [1] Important findings The community similarity declined with increasing geographical distance and environmental divergence. [2]在 3,000 公里范围内，社区相似性随着地理距离的增加而下降（Mantel r=0. [1] nan [2]