Using conditional tree forests and life history traits to assess specific risks of stream degradation under multiple pressure scenario

Science of the Total Environment

Volumn 461-462, Issue , 2013, Pages 750-760

  Mondy, Cédric P ^a   Usseglio Polatera, Philippe ^b  

^a SWISS FEDERAL INSTITUTE OF AQUATIC SCIENCE AND TECHNOLOGY   (Switzerland)

^b UNIVERSITÉ DE LORRAINE   (France)

Author keywords

Benthic macroinvertebrates; Bio ecological traits; Ecological risk assessment; European Water Framework Directive; Functional diagnostic tool; Random forest

Indexed keywords

BENTHIC MACROINVERTEBRATES; BIO/ECOLOGICAL TRAITS; ECOLOGICAL RISK ASSESSMENT; EUROPEAN WATER FRAMEWORK DIRECTIVE; FUNCTIONAL DIAGNOSTICS; RANDOM FORESTS;

DECISION TREES; DIAGNOSTIC PRODUCTS; ECOLOGY; FORESTRY; RISK PERCEPTION;

RISK ASSESSMENT;

ANTHROPOGENIC EFFECT; BENTHOS; BIOTIC FACTOR; ENVIRONMENTAL DEGRADATION; EUROPEAN UNION; LIFE HISTORY TRAIT; MACROINVERTEBRATE; RISK ASSESSMENT; STREAM; TREE;

ARTICLE; BENTHOS; CONDITIONAL TREE FOREST MODEL; CONTROLLED STUDY; ECOSYSTEM RESTORATION; ENVIRONMENTAL MANAGEMENT; FRANCE; HABITAT; INTERMETHOD COMPARISON; LIFE HISTORY TRAIT; MACROINVERTEBRATE; MATHEMATICAL MODEL; PRIORITY JOURNAL; RETROSPECTIVE STUDY; RISK ASSESSMENT; RIVER; STREAM (RIVER); WATER QUALITY;

BENTHIC MACROINVERTEBRATES; BIO/ECOLOGICAL TRAITS; ECOLOGICAL RISK ASSESSMENT; EUROPEAN WATER FRAMEWORK DIRECTIVE; FUNCTIONAL DIAGNOSTIC TOOL; RANDOM FOREST;

ANIMALS; CONSERVATION OF NATURAL RESOURCES; ECOSYSTEM; FRANCE; INVERTEBRATES; MODELS, BIOLOGICAL; POPULATION DYNAMICS; RISK ASSESSMENT; RIVERS; TREES; WATER QUALITY;

DECISION MAKING; ECOSYSTEMS; FORESTRY; RISK ASSESSMENT;

FRANCE;

EID: 84879138737     PISSN: 00489697     EISSN: 18791026     Source Type: Journal    
DOI: 10.1016/j.scitotenv.2013.05.072     Document Type: Article

References (66)

1. AFNOR Qualité de l'eau-Prélèvement des macro-invertébrés aquatiques en rivières peu profondes 2009, XP T90-333, AFNOR, Paris.
2. AFNOR Qualité de l'eau-Traitement au laboratoire d'échantillons contenant des macro-invertébrés de cours d'eau 2010, XP T90-388, AFNOR, Paris, France.
3. Archaimbault V., Usseglio-Polatera P., Vanden Bossche J.P. Functional differences among benthic macroinvertebrate communities in reference streams of same order in a given biogeographic area. Hydrobiologia 2005, 551:171-182.
4. Archaimbault V., Usseglio-Polatera P., Garric J., Wasson J.G., Babut M. Assessing pollution of toxic sediment in streams using bio-ecological traits of benthic macroinvertebrates. Freshw Biol 2010, 55:1430-1446.
5. Bêche L.H., Resh V.H. Short-term climatic trends affect the temporal variability of macroinvertebrates in California 'Mediterranean' streams. Freshw Biol 2007, 52:2317-2339.
6. Bêche L.A., McElravy E.P., Resh V.H. Long-term seasonal variation in the biological traits of benthic-macroinvertebrates in two Mediterranean-climate streams in California, U.S.A. Freshw Biol 2006, 51:56-75.
7. Beketov M.A., Liess M. An indicator for effects of organic toxicants on lotic invertebrate communities: independence of confounding environmental factors over an extensive river continuum. Environ Pollut 2008, 156:980-987.
8. Bennett C., Owen R., Birk S., Buffagni A., Erba S., Mengin N., et al. Bringing European river quality into line: an exercise to intercalibrate macro-invertebrate classification methods. Hydrobiologia 2011, 667:31-48.
9. Böhmer J., Rawer-Jost C., Zenker A. Multimetric assessment of data provided by water managers from Germany: assessment of several different types of stressors with macrozoobenthos communities. Hydrobiologia 2004, 516:215-228.
10. Bonada N., Prat N., Resh V.H., Statzner B. Developments in aquatic insect biomonitoring: a comparative analysis of recent approaches. Annu Rev Entomol 2006, 51:495-523.
11. Bonada N., Rieradevall M., Prat N. Macroinvertebrate community structure and biological traits related to flow permanence in a Mediterranean river network. Hydrobiologia 2007, 589:91-106.
12. Brabec K., Zahradkova S., Nemejcova D., Paril P., Kokes J., Jarkovsky J. Assessment of organic pollution effect considering differences between lotic and lentic stream habitats. Hydrobiologia 2004, 516:331-346.
13. Breiman L. Random forests. Mach Learn 2001, 45:5-32.
14. Bureau A., Dupuis J., Falls K., Lunetta K.L., Hayward B.H., Keith T.P., et al. Identifying SNPs predictive of phenotype using random forests. Genet Epidemiol 2005, 28:171-182.
15. Chandesris A., Wasson J.G., Pella H., Sauquet E., Mengin N. Appui scientifique à la mise en œuvre de la Directive Européenne Cadre sur l'Eau. Typologie des cours d'eau de France métropolitaine. Technical report 2006, Cemagref, Lyon.
16. Charvet S., Statzner B., Usseglio-Polatera P., Dumont B. Traits of benthic macroinvertebrates in semi-natural French streams: an initial application to biomonitoring in Europe. Freshw Biol 2000, 43:277-296.
17. Chen X.W., Liu M. Prediction of protein-protein interactions using random decision forest framework. Bioinformatics 2005, 21:4394-4400.
18. Chevenet F., Dolédec S., Chessel D. A fuzzy coding approach for the analysis of long-term ecological data. Freshw Biol 1994, 31:295-309.
19. Clews E., Ormerod S.J. Improving bio-diagnostic monitoring using simple combinations of standard biotic indices. River Res Appl 2009, 25:348-361.
20. Cohen J. A coefficient of agreement for nominal scales. Educ Psychol Meas 1960, 20:37-46.
21. Comte L., Lek S., de Deckere E., de Zwart D., Gevrey M. Assessment of stream biological responses under multiple-stress conditions. Environ Sci Pollut Res 2010, 17:1469-1478.
22. Crain C.M., Kroeker K., Halpern B.S. Interactive and cumulative effects of multiple human stressors in marine systems. Ecol Lett 2008, 11:1304-1315.
23. Culp J.M., Armanini D.G., Dunbar M.J., Orlofske J.M., Poff N.L., Pollard A.I., et al. Incorporating traits in aquatic biomonitoring to enhance causal diagnosis and prediction. Integr Environ Assess Manag 2011, 7:187-197.
24. Cutler D.R., Edwards T.C., Beard K.H., Cutler A., Hess K.T., Gibson J., et al. Random forests for classification in ecology. Ecology 2007, 88:2783-2792.
25. Dolédec S., Statzner B. Invertebrate traits for the biomonitoring of large European rivers: an assessment of specific types of human impact. Freshw Biol 2008, 53:617-634.
26. Dolédec S., Phillips N., Scarsbrook M., Riley R.H., Townsend C.R. Comparison of structural and functional approaches to determining landuse effects on grassland stream invertebrate communities. J N Am Benthol Soc 2006, 25:44-60.
27. European Council Directive 2000/60/EC of the European Parliament and of the Council of 23 October 2000 establishing a framework for community action in the field of water policy 2000, Office for official publications of the European Communities, Brussels.
28. Fawcett T. An introduction to ROC analysis. Pattern Recognit Lett 2006, 27:861-874.
29. Feio M.J., Dolédec S. Integration of invertebrate traits into predictive models for indirect assessment of stream functional integrity: a case study in Portugal. Ecol Indic 2012, 15:236-247.
30. Feio M.J., Almeida S.F.P., Craveiro S.C., Calado A.J. Diatoms and macroinvertebrates provide consistent and complementary information on environmental quality. Fundam Appl Limnol 2007, 169:247-258.
31. Fleeger J.W., Carman K.R., Nisbet R.M. Indirect effects of contaminants in aquatic ecosystems. Sci Total Environ 2003, 317:207-233.
32. Hering D., Johnson R.K., Buffagni A. Linking organism groups - major results and conclusions from the STAR project. Hydrobiologia 2006, 566:109-113.
33. Hothorn T., Hornik K., Zeileis A. Unbiased recursive partitioning: a conditional inference framework. J Comput Graph Stat 2006, 15:651-674.
34. Ippolito A., Sala S., Faber J.H., Vighi M. Ecological vulnerability analysis: a river basin case study. Sci Total Environ 2010, 408:3880-3890.
35. Keller R.P., Kocev D., Džeroski S. Trait-based risk assessment for invasive species: high performance across diverse taxonomic groups, geographic ranges and machine learning/statistical tools. Divers Distrib 2011, 17:451-461.
36. Liess M., von der Ohe P.C. Analyzing effects of pesticides on invertebrate communities in streams. Environ Toxicol Chem 2005, 24:954-965.
37. Lorenz A., Hering D., Feld C., Rolauffs P. A new method for assessing the impact of hydromorphological degradation on the macroinvertebrate fauna of five German stream types. Hydrobiologia 2004, 516:107-127.
38. Marzin A., Archaimbault V., Belliard J., Chauvin C., Delmas F., Pont D. Ecological assessment of running waters: do macrophytes, macroinvertebrates, diatoms and fish show similar responses to human pressures?. Ecol Indic 2012, 23:56-65.
39. Menezes S., Baird D.J., Soares A.M.V.M. Beyond taxonomy: a review of macroinvertebrate trait-based community descriptors as tools for freshwater biomonitoring. J Appl Ecol 2010, 47:711-719.
40. Mondy C.P. De la communauté à l'individu: apport des traits des invertébrés benthiques dans la bio-évaluation des cours d'eau 2012, (PhD thesis), University of Lorraine, Metz.
41. Mondy C.P., Villeneuve B., Archaimbault V., Usseglio-Polatera P. A new macroinvertebrate-based multimetric index (I2M2) to evaluate ecological quality of French wadeable streams fulfilling the WFD demands: a taxonomical and trait approach. Ecol Indic 2012, 18:452-467.
42. Ofenböck T., Moog O., Gerritsen J., Barbour M. A stressor specific multimetric approach for monitoring running waters in Austria using benthic macro-invertebrates. Hydrobiologia 2004, 516:251-268.
43. Oudin L.C., Maupas D. Système d'évaluation de la qualité de l'eau des cours d'eau (Seq-Eau). Technical report 2003, Ministère de l'Écologie et du Développement Durable - Agences de l'Eau, Paris.
44. Pearce J., Ferrier S. Evaluating the predictive performance of habitat models developed using logistic regression. Ecol Mod 2000, 133:225-245.
45. Péru N., Dolédec S. From compositional to functional biodiversity metrics in bioassessment: a case study using stream macroinvertebrate communities. Ecol Indic 2010, 10:1025-1036.
46. Philibert A., Desprez-Loustau M., Fabre B., Frey P., Halkett F., Husson C., et al. Predicting invasion success of forest pathogenic fungi from species traits. J Appl Ecol 2011, 48:1381-1390.
47. Pianka E.R. Niche overlap and diffuse competition. Proc Natl Acad Sci U S A 1974, 71:2141-2145.
48. Prasad A., Iverson L., Liaw A. Newer classification and regression tree techniques: bagging and random forests for ecological prediction. Ecosystems 2006, 9:181-199.
49. Preston B.L., Shackelford J. Multiple stressor effects on benthic biodiversity of Chesapeake Bay: implications for ecological risk assessment. Ecotoxicology 2002, 11:85-99.
50. R Development Core Team R: a language and environment for statistical computing 2011, R Foundation for Statistical Computing, Vienna, [http://www.R-project.org/].
51. Rao C.R. Diversity and dissimilarity coefficients: a unified approach. Theor Popul Biol 1982, 21:24-43.
52. Robin X., Turck N., Hainard A., Tibert N., Lisacek F., Sanchez J.C., et al. pROC: an open-source package for R and S+ to analyze and compare ROC curves. BMC Bioinformatics 2011, 12:77.
53. Sarriquet P.E., Bordenave P., Marmonier P. Effects of bottom sediment restoration on interstitial habitat characteristics and benthic macroinvertebrate assemblages in a headwater stream. River Res Appl 2007, 23:815-828.
54. Schäfer R.B., Kefford B.J., Metzeling L., Liess M., Burgert S., Marchant R., et al. A trait database of stream invertebrates for the ecological risk assessment of single and combined effects of salinity and pesticides in South-East Australia. Sci Total Environ 2011, 409:2055-2063.
55. Southwood T.R.E. Habitat, the templet for ecological strategies?. J Anim Ecol 1977, 46:336-365.
56. Statzner B., Bêche L.A. Can biological invertebrate traits resolve effects of multiple stressors on running water ecosystems?. Freshw Biol 2010, 55:80-119.
57. Statzner B., Bis B., Dolédec S., Usseglio-Polatera P. Perspectives for biomonitoring at large spatial scales: a unified measure for the functional composition of invertebrate communities in European running waters. Basic Appl Ecol 2001, 2:73-85.
58. Statzner B., Bady P., Dolédec S., Schöll F. Invertebrate traits for the biomonitoring of large European rivers: an initial assessment of trait patterns in least impacted river reaches. Freshw Biol 2005, 50:2136-2161.
59. Strahler A.N. Quantitative analysis of watershed geomorphology. Trans Am Geophys Union 1957, 38:913-920.
60. Strobl C., Boulesteix A.L., Zeileis A., Hothorn T. Bias in random forest variable importance measures: illustrations, sources and a solution. BMC Bioinformatics 2007, 8:25.
61. Townsend C.R., Hildrew A.G. Species traits in relation to a habitat templet for river systems. Freshw Biol 1994, 31:265-275.
62. Townsend C.R., Uhlmann S.S., Matthaei C.D. Individual and combined responses of stream ecosystems to multiple stressors. J Appl Ecol 2008, 45:1810-1819.
63. Usseglio-Polatera P., Bournaud M., Richoux P., Tachet H. Biological and ecological traits of benthic freshwater macroinvertebrates: relationships and definition of groups with similar traits. Freshw Biol 2000, 43:175-205.
64. Usseglio-Polatera P., Richoux P., Bournaud M., Tachet H. A functional classification of benthic macroinvertebrates based on biological and ecological traits: application to river condition assessment and stream management. Arch Hydrobiol Suppl 2001, 139:53-83.
65. Verdonschot P.F.M. Integrated ecological assessment methods as a basis for sustainable catchment management. Hydrobiologia 2000, 422/423:389-412.
66. Wooster D.E., Miller S.W., DeBano S.J. An examination of the impact of multiple disturbances on a river system: taxonomic metrics versus biological traits. River Res Appl 2012, 28:1630-1643.