Ward's Hierarchical Clustering Method: Clustering Criterion and Agglomerative Algorithm

The Ward error sum of squares hierarchical clustering method has been very widely used since its first description by Ward in a 1963 publication. It has also been generalized in various ways. However there are different interpretations in the literature and there are different implementations of the Ward agglomerative algorithm in commonly used software systems, including differing expressions of the agglomerative criterion. Our survey work and case studies will be useful for all those involved in developing software for data analysis using Ward's hierarchical clustering method.Comment: 20 pages, 21 citations, 4 figure

Analysis of a recovery process: Dwingelose Heide revisited

The recovery process of a Dutch heathland after fire is investigated. The study area, 12 m x 20 m, has been surveyed yearly between 1963 and 1993. Previous work has shown that a stationary Markov chain models the observed recovery process well. However, the Markov model fails to capture an important observation, the existence of a phase structure. The process begins deterministically, but small random (non-Markov) effects accumulate through time and at some point the process suddenly becomes noisy. Here we make use of the spatial information contained in vegetation maps to examine dynamics at a fine spatial scale. We find that the phases observed at a large spatial scale separate themselves out distinctly at finer spatial scales. This spatial information allows us to investigate hypotheses about the mechanisms governing deterministic versus noisy vegetation dynamics

Vegetation dynamics and plant constraints: separating generalities and specifics

Vegetation dynamics is a stochastic process of species replacement after disturbance. It occurs because individual species are limited by general constraints and trade-offs. As these constraints and trade-offs are becoming better known, we understand more about the relationships between disturbance dynamics, species pools, and vegetation dynamics. This paper provides a summary of recent work on plant scaling and ecological trade-offs, and explores its implications for vegetation dynamics. Those aspects of succession that are predictable . given the local species complement . can be understood as consequences of these general patterns and constraints. Several are explored in this paper. The inherently stochastic nature of the process derives from the disturbance dynamics that forces it, from the sampling processes that are responsible for selecting potential invaders, and from the chance processes involved in species interactions. The dynamics of species that invade established communities is the least understood but potentially the most crucial aspect of vegetation dynamics. The relation of community invasion to gap creation and to scaling constraints is briefly discussed

Floristic and vegetation structure of a grassland plant community on shallow basalt in southern Brazil

Few studies have adequately described the floristic and structural features of natural grasslands associated with shallow basalt soils in southern Brazil. This study was carried out on natural grazing land used for livestock production in the municipality of Santana do Livramento, in the Campanha region of the state of Rio Grande do Sul, Brazil. The aim of the study was to describe the floristic and structural diversity of the area. The floristic list obtained comprises 229 plant taxa from 40 botanical families, with a predominance of the families Poaceae (62), Asteraceae (28), Fabaceae (16) and Cyperaceae (12). The estimated diversity and evenness in the community were 3.00 and 0.874, respectively. Bare soil and rock outcrops accounted for 19.3% of the area, resulting in limited forage availability. Multivariate analysis revealed two well-defined groups among the sampling units. One group showed a high degree of internal aggregation, associated with deep soils, and was characterized by the presence of tussocks, whereas the other was less aggregate and was characterized by prostrate species growing on shallow soil. Ordination analysis indicated a gradient of moisture and of soil depth in the study area, resulting in different vegetation patterns. These patterns were analogous to the vegetation physiognomies described for Uruguayan grasslands. Overall, the grassland community studied is similar to others found throughout southern Brazil, although it harbors more winter forage species. In addition, the rare grass Paspalum indecorum Mez is locally dominant in some patches, behaving similarly to P. notatum Fl., a widespread grass that dominates extensive grassland areas in southern Brazil

Multilocus Bayesian Estimates of Intra-Oceanic Genetic Differentiation, Connectivity, and Admixture in Atlantic Swordfish (Xiphias gladius L.)

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Palynological analysis of a late Holocene core from Santo Antônio da Patrulha, Rio Grande do Sul, Southern Brazil

A sedimentar core collected at Santo Antônio da Patrulha, Rio Grande do Sul State, southmost Brazil, was submitted to pollen analysis to provide the vegetational history of this region, and the paleoecological and paleoclimatic changes. A total of 98 taxa of palynomorphs was identified from 35 subsamples. Three radiocarbonic datings were obtained along a section of 115 cm depth, including the basal age of 4730 ± 50 yr BP. Pollen diagrams and cluster analysis were performed based on palynomorphs frequencies, demonstrating five distinct phases (SAP-I to SAP-V), which reflected different paleoecological conditions. The predominance of plants associated with grasslands in the phase SAP-I suggests warm and dry climate conditions. A gradual increasing of humidity conditions was observed mainly from the beginning of the phase SAP-III, when the vegetation set a mosaic of grasslands and Atlantic rainforest. Furthermore, the presence of some forest taxa ( Acacia-type, Daphnopsis racemosa, Erythrina-type and Parapiptadenia rigida-type), from the phase SAP-IV, is interpreted as an influence of the seasonal semideciduous forest in the study region. From the phase SAP-V (ca. 4000 yrs BP), the vegetation became similar to the modern one (extant Atlantic rainforest Biome), especially after 2000 yrs BP (calibrated age).Um testemunho de sondagem coletado em Santo Antônio da Patrulha, Rio Grande do Sul, Brasil, foi submetido para análise polínica a fim de revelar a história vegetacional e mudanças paleoecológicas e paleoclimáticas. Um total de 98 táxons foi identificado a partir de 35 subamostras. Três datações radiocarbônicas foram obtidas ao longo de uma seção de 115 cm de profundidade, incluindo a idade basal de 4730 ± 50 anos AP. Diagramas polínicos e análises de agrupamentos foramrealizadas com base nas freqüências dos palinomorfos, demonstrando cinco fases distintas (SAP-I a SAP-V), as quais refletiram diferentes condições paleoecológicas. A predominância de plantas relacionadas à vegetação campestre na fase SAP-I sugere condições climáticas quentes e secas. Um gradual aumento nas condições de umidade foi observado principalmente no início da fase SAP-III, quando a vegetação conformou um mosaico de Campos e Floresta Atlântica. Além disso, a presença de certos táxons florestais (tipo- Acacia, Daphnopsis racemosa, tipo Erythrina e tipo Parapiptadenia rigida), a partir da fase SAP-IV, é interpretada como influência da Floresta Estacional Semidecidual na região de estudo. A partir da fase SAP-V (ca. 4000 anos AP) a vegetação tornou-se similar à moderna (atual Bioma da Floresta Atlântica), especialmente após 2000 anos AP (idade calibrada)