Predictability of marine nematode biodiversity

In this paper, we investigated: (1) the predictability of different aspects of biodiversity, (2) the effect of spatial autocorrelation on the predictability and (3) the environmental variables affecting the biodiversity of free-living marine nematodes on the Belgian Continental Shelf. An extensive historical database of free-living marine nematodes was employed to model different aspects of biodiversity: species richness, evenness, and taxonomic diversity. Artificial neural networks (ANNs), often considered as “black boxes”, were applied as a modeling tool. Three methods were used to reveal these “black boxes” and to identify the contributions of each environmental variable to the diversity indices. Since spatial autocorrelation is known to introduce bias in spatial analyses, Moran's I was used to test the spatial dependency of the diversity indices and the residuals of the model. The best predictions were made for evenness. Although species richness was quite accurately predicted as well, the residuals indicated a lack of performance of the model. Pure taxonomic diversity shows high spatial variability and is difficult to model. The biodiversity indices show a strong spatial dependency, opposed to the residuals of the models, indicating that the environmental variables explain the spatial variability of the diversity indices adequately. The most important environmental variables structuring evenness are clay and sand fraction, and the minimum annual total suspended matter. Species richness is also affected by the intensity of sand extraction and the amount of gravel of the sea bed.

[1]  Michele Scardi,et al.  Developing an empirical model of phytoplankton primary production: a neural network case study , 1999 .

[2]  V. Grimm,et al.  Animal species diversity driven by habitat heterogeneity/diversity: the importance of keystone structures , 2004 .

[3]  A. D. Kennedy,et al.  Biological Indicators of Marine Environmental Health: Meiofauna – A Neglected Benthic Component? , 1999 .

[4]  C. Heip,et al.  The ecology of marine nematodes , 1985 .

[5]  M. Gevrey,et al.  Review and comparison of methods to study the contribution of variables in artificial neural network models , 2003 .

[6]  Peter Goethals,et al.  Optimization of Artificial Neural Network (ANN) model design for prediction of macroinvertebrates in the Zwalm river basin (Flanders, Belgium) , 2004 .

[7]  A. Chao Nonparametric estimation of the number of classes in a population , 1984 .

[8]  Jingtao Yao,et al.  Forecasting and Analysis of Marketing Data Using Neural Networks , 1998, J. Inf. Sci. Eng..

[9]  Holger R. Maier,et al.  DATA DIVISION FOR DEVELOPING NEURAL NETWORKS APPLIED TO GEOTECHNICAL ENGINEERING , 2004 .

[10]  C. E. SHANNON,et al.  A mathematical theory of communication , 1948, MOCO.

[11]  Peter J. Rousseeuw,et al.  Finding Groups in Data: An Introduction to Cluster Analysis , 1990 .

[12]  S. Lek,et al.  Applications of artificial neural networks for patterning and predicting aquatic insect species richness in running waters , 2003 .

[13]  J. Gee,et al.  The structure and taxonomic composition of sublittoral meiofauna assemblages as an indicator of the status of marine environments , 2000, Journal of the Marine Biological Association of the United Kingdom.

[14]  M. Gevrey,et al.  Predicting fish assemblages in France and evaluating the influence of their environmental variables , 2005 .

[15]  J. Gage Why are there so many species in deep-sea sediments? , 1996 .

[16]  P. Moran Notes on continuous stochastic phenomena. , 1950, Biometrika.

[17]  J. Hortal,et al.  Evaluating the performance of species richness estimators: sensitivity to sample grain size. , 2006, The Journal of animal ecology.

[18]  Steven Degraer,et al.  Macrobenthic community structure of soft-bottom sediments at the Belgian Continental Shelf , 2004 .

[19]  H. Rees,et al.  Nematodes as Sensitive Indicators of Change at Dredged Material Disposal Sites , 2000 .

[20]  N. Gotelli,et al.  NULL MODELS IN ECOLOGY , 1996 .

[21]  I. Dimopoulos,et al.  Role of some environmental variables in trout abundance models using neural networks , 1996 .

[22]  P. Legendre Spatial Autocorrelation: Trouble or New Paradigm? , 1993 .

[23]  M. Araújo,et al.  Consequences of spatial autocorrelation for niche‐based models , 2006 .

[24]  Kurt Hornik,et al.  Multilayer feedforward networks are universal approximators , 1989, Neural Networks.

[25]  A. Chao,et al.  Nonparametric estimation of Shannon’s index of diversity when there are unseen species in sample , 2004, Environmental and Ecological Statistics.

[26]  C. Dormann Effects of incorporating spatial autocorrelation into the analysis of species distribution data , 2007 .

[27]  S. Jennings,et al.  Impacts of trawling on the diversity, biomass and structure of meiofauna assemblages , 2002 .

[28]  C. Nickerson A note on a concordance correlation coefficient to evaluate reproducibility , 1997 .

[29]  J. Diniz‐Filho,et al.  Spatial autocorrelation and red herrings in geographical ecology , 2003 .

[30]  S. Hurlbert The Nonconcept of Species Diversity: A Critique and Alternative Parameters. , 1971, Ecology.

[31]  B. Menge,et al.  Species Diversity Gradients: Synthesis of the Roles of Predation, Competition, and Temporal Heterogeneity , 1976, The American Naturalist.

[32]  Magda Vincx,et al.  Nematode assemblages from subtidal sandbanks in the Southern Bight of the North Sea: effect of small sedimentological differences , 2002 .

[33]  M. Vincx,et al.  Nematode communities from the North Sea: environmental controls on species diversity and vertical distribution within the sediment , 1999, Journal of the Marine Biological Association of the United Kingdom.

[34]  L. Lin,et al.  A concordance correlation coefficient to evaluate reproducibility. , 1989, Biometrics.

[35]  Steven Walczak,et al.  Heuristic principles for the design of artificial neural networks , 1999, Inf. Softw. Technol..

[36]  Ian H. Witten,et al.  Data mining: practical machine learning tools and techniques with Java implementations , 2002, SGMD.

[37]  J. Shi REDUCING PREDICTION ERROR BY TRANSFORMING INPUT DATA FOR NEURAL NETWORKS , 2000 .

[38]  Sovan Lek,et al.  Improved estimation, using neural networks, of the food consumption of fish populations , 1995 .

[39]  A. Vanreusel Ecology of the free-living marine nematodes from the Voordelta (Southern Bight of the North Sea). I. Species composition and structure of the nematode communities. , 1990 .

[40]  Julian D. Olden,et al.  Illuminating the “black box”: a randomization approach for understanding variable contributions in artificial neural networks , 2002 .

[41]  Ian Witten,et al.  Data Mining , 2000 .

[42]  K. R. Clarke,et al.  A taxonomic distinctness index and its statistical properties , 1998 .

[43]  Ingolf Kühn,et al.  Incorporating spatial autocorrelation may invert observed patterns , 2006 .

[44]  K. Soetaert,et al.  Changes in structural and functional diversity of nematode communities during a spring phytoplankton bloom in the southern North Sea , 2004 .

[45]  L. Levin,et al.  ENVIRONMENTAL INFLUENCES ON REGIONAL DEEP-SEA SPECIES DIVERSITY , 2001 .

[46]  A. Chao Estimating the population size for capture-recapture data with unequal catchability. , 1987, Biometrics.

[47]  Young-Seuk Park,et al.  Review of modelling techniques , 2005 .

[48]  E. Berghe,et al.  The MANUELA database: an integrated database on meiobenthos from European marine waters , 2009 .

[49]  I. Dimopoulos,et al.  Application of neural networks to modelling nonlinear relationships in ecology , 1996 .

[50]  H. L. Sanders,et al.  Marine Benthic Diversity: A Comparative Study , 1968, The American Naturalist.

[51]  G. Perry,et al.  Performance of nonparametric species richness estimators in a high diversity plant community , 2003 .

[52]  Daniel Simberloff,et al.  Properties of the Rarefaction Diversity Measurement , 1972, The American Naturalist.

[53]  F. A. Bazzaz,et al.  Plant Species Diversity in Old‐Field Successional Ecosystems in Southern Illinois , 1975 .

[54]  K. R. Clarke,et al.  Change in marine communities : an approach to statistical analysis and interpretation , 2001 .