Interaction type influences ecological network structure more than local abiotic conditions: evidence from endophytic and endolichenic fungi at a continental scale

Oecologia

Volumn 180, Issue 1, 2016, Pages 181-191

  Chagnon, Pierre Luc ^a   U’Ren, Jana M ^b   Miadlikowska, Jolanta ^c   Lutzoni, François ^c   Elizabeth Arnold, A ^b,d  

^a UNIVERSITÉ DE SHERBROOKE   (Canada)

^b UNIVERSITY OF ARIZONA   (United States)

^c DUKE UNIVERSITY   (United States)

^d The University of Arizona   (United States)

Author keywords

Biogeography; Ecological networks; Endolichenic fungi; Endophytic fungi; Symbiosis

Indexed keywords

ABIOTIC FACTOR; COEXISTENCE; CONTINENTAL MARGIN; ENDOPHYTE; ENVIRONMENTAL CONDITIONS; FUNGUS; INTERSPECIFIC INTERACTION; LICHEN; PHYLOGENETICS; PHYTOGEOGRAPHY; SYMBIOSIS; TROPICAL FOREST; TUNDRA;

NORTH AMERICA;

FUNGI;

ECOLOGY; ECOSYSTEM; ENDOPHYTE; FOREST; FUNGUS; GENETICS; LICHEN (ORGANISM); MICROBIOLOGY; NORTH AMERICA; PHYLOGENY; PLANT; SYMBIOSIS; TUNDRA;

ECOLOGY; ECOSYSTEM; ENDOPHYTES; FORESTS; FUNGI; LICHENS; NORTH AMERICA; PHYLOGENY; PLANTS; SYMBIOSIS; TUNDRA;

EID: 84952865381     PISSN: 00298549     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00442-015-3457-5     Document Type: Article

References (64)

1. Albrecht M, Riesen M, Schmid B (2010) Plant-pollinator network assembly along the chronosequence of a glacier foreland. Oikos 119:1610–1624. doi:10.1111/j.1600-0706.2010.18376.x
2. Allen TR, Millar T, Berch SA, Berbee ML (2003) Culturing and direct DNA extraction find different fungi from the same ericoid mycorrhizal roots. New Phytol 160:255–272. doi:10.1046/j.1469-8137.2003.00885.x
3. Almeida-Neto M, Guimarães P, Guimarães PR Jr, Loyola RD, Ulrich W (2008) A consistent metric for nestedness analysis in ecological systems: reconciling concept and measurement. Oikos 117:1227–1239. doi:10.1111/j.0030-1299.2008.16644.x
4. Arnold AE, Herre EA (2003) Canopy cover and leaf age affect colonization by tropical fungal endophytes: ecological pattern and process in Theobroma cacao (Malvaceae). Mycologia 95:388–398
5. Arnold AE, Lutzoni F (2007) Diversity and host range of foliar fungal endophytes: are tropical leaves biodiversity hotspots? Ecology 88:541–549. doi:10.1890/05-1459
6. Arnold AE, Henk DA, Eells RL, Lutzoni F, Vilgalys R (2007) Diversity and phylogenetic affinities of foliar fungal endophytes in loblolly pine inferred by culturing and environmental PCR. Mycologia 99:185–206. doi:10.3852/mycologia.99.2.185
7. Arnold AE, Miadlikowska J, Higgins KL, Sarvate SD, Gugger P, Way A, Hofstetter V, Kauff F, Lutzoni F (2009) A phylogenetic estimation of trophic transition networks for ascomycetous fungi: are lichens cradles of symbiotrophic fungal diversification? Syst Biol 58:283–297. doi:10.1093/sysbio/syp001
8. Atmar W, Patterson B (1993) The measure of order and disorder in the distribution of species in fragmented habitat. Oecologia 96:373–382. doi:10.1007/BF00317508
9. Barber M (2007) Modularity and community detection in bipartite networks. Phys Rev E 76:066102. doi:10.1103/PhysRevE.76.066102
10. Bascompte J, Jordano P, Melián CJ, Olesen JM (2003) The nested assembly of plant-animal mutualistic networks. Proc Natl Acad Sci USA 100:9383–9387. doi:10.1073/pnas.1633576100
11. Bascompte J, Jordano P, Olesen JM (2006) Asymmetric coevolutionary networks facilitate biodiversity maintenance. Science 312:431–433. doi:10.1126/science.1123412
12. Beiler KJ, Durall DM, Simard SW, Maxwell SA, Kretzer AM (2010) Architecture of the wood-wide web: Rhizopogon spp. genets link multiple Douglas-fir cohorts. New Phytol 185:543–553. doi:10.1111/j.1469-8137.2009.03069.x
13. Blüthgen N, Fründ J, Vázquez DP, Menzel F (2008) What do interaction network metrics tell us about specialization and biological traits. Ecology 89:3387–3399. doi:10.1890/07-2121.1
14. Bougoure DS, Cairney JW (2005) Fungi associated with hair roots of Rhododendron lochiae (Ericaceae) in an Australian tropical cloud forest revealed by culturing and culture-independent molecular methods. Environ Microbiol 7:1743–1754. doi:10.1111/j.1462-2920.2005.00919.x
15. Chagnon P, Bradley R, Klironomos J (2012) Using ecological network theory to evaluate the causes and consequences of arbuscular mycorrhizal community structure. New Phytol 194:307–312. doi:10.1111/j.1469-8137.2011.04044.x
16. Chagnon PL, Bradley RL, Maherali H, Klironomos JN (2013) A trait-based framework to understand life history of mycorrhizal fungi. Trends Plant Sci 18:484–491. doi:10.1016/j.tplants.2013.05.001
17. Cohen JE (1978) Food webs and niche space. Princeton University Press, Princeton
18. Connor E, Collins M, Simberloff D (2013) The checkered history of checkerboard distributions. Ecology 94:2403–2414. doi:10.1890/12-1471.1
19. Diamond JM (1975) Assembly of species communities. In: Cody ML, Diamon JM (eds) Ecology and evolution of communities. Belknap Press, Cambridge, pp 342–444
20. Dormann C, Fründ J, Blüthgen N, Gruber B (2009) Indices, graphs and null models: analyzing bipartite ecological networks. Open Ecol J 2:7–24. doi:10.2174/1874213000902010007
21. Elias M, Fontaine C, van Veen FJF (2013) Evolutionary history and ecological processes shape a local multilevel antagonistic network. Curr Biol 23:1355–1359. doi:10.1016/j.cub.2013.05.066
22. Epps MJ, Arnold AE (2010) Diversity, abundance and community network structure in sporocarp-associated beetle communities of the central Appalachian Mountains. Mycologia 102:785–802. doi:10.3852/09-161
23. Fontaine C, Guimarães P, Kéfi S, Loeuille N, Memmott J, van der Putten WH, van Veen FJF, Thébault E (2011) The ecological and evolutionary implications of merging different types of networks. Ecol Lett 14:1170–1181. doi:10.1111/j.1461-0248.2011.01688.x
24. Freeman LC (1977) A set of measures of centrality based on betweenness. Sociometry 40:35–41. doi:10.2307/3033543
25. Friesen ML, Porter SS, Stark SC, von Wettberg EJ, Sachs JL, Martinez-Romero E (2011) Microbially mediated plant functional traits. Annu Rev Evol Evol Syst 42:23–46. doi:10.1146/annurev-ecolsys-102710-145039
26. Gilbert G, Webb C (2007) Phylogenetic signal in plant pathogen–host range. Proc Natl Acad Sci USA 104:4979–4983. doi:10.1073/pnas.0607968104
27. Gotelli N, Rohde K (2002) Co-occurrence of ectoparasites of marine fishes: a null model analysis. Ecol Lett 5:86–94. doi:10.1046/j.1461-0248.2002.00288.x
28. Guimarães P, Rico-Gray V, dos Reis S, Thompson JN (2006) Asymmetries in specialization in ant–plant mutualistic networks. Proc R Soc B 273:2041–2047. doi:10.1098/rspb.2006.3548
29. Guimarães P Jr, Rico-Gray V, Oliveira P, Izzo TJ, dos Reis SF, Thompson JN (2007) Interaction intimacy affects structure and coevolutionary dynamics in mutualistic networks. Curr Biol 17:1797–1803. doi:10.1016/j.cub.2007.09.059
30. Higgins KL, Coley PD, Kursar TA, Arnold AE (2011) Culturing and direct PCR suggest prevalent host generalism among diverse fungal endophytes of tropical forest grasses. Mycologia 103:247–260. doi:10.3852/09-158
31. Johnson NC, Wilson GW, Bowker MA, Wilson JA, Miller RM (2010) Resource limitation is a driver of local adaptation in mycorrhizal symbioses. Proc Natl Acad Sci USA 107:2093–2098. doi:10.1073/pnas.0906710107
32. Jordano P (1987) Patterns of mutualistic interactions in pollination and seed dispersal: connectance, dependence asymmetries, and coevolution. Am Nat 129:657–677. doi:10.1086/284665
33. Jordano P, Bascompte J, Olesen J (2003) Invariant properties in coevolutionary networks of plant–animal interactions. Ecol Lett 6:69–81. doi:10.1046/j.1461-0248.2003.00403.x
34. Lewinsohn T, Prado PI, Jordano P, Bascompte J, Olesen JM (2006) Structure in plant–animal interaction assemblages. Oikos 113:174–184. doi:10.1111/j.0030-1299.2006.14583.x
35. Marquitti FMD, Guimarães PR, Pires MM, Bittencourt LF (2014) MODULAR: software for the autonomous computation of modularity in large network sets. Ecography 37:221–224. doi:10.1111/j.1600-0587.2013.00506.x
36. Martos F, Munoz F, Pailler T, Kottke I, Gonneau C, Selosse MA (2012) The role of epiphytism in architecture and evolutionary constraint within mycorrhizal networks of tropical orchids. Mol Ecol 21:5098–5109. doi:10.1111/j.1365-294X.2012.05692.x
37. McGill B, Etienne RS, Gray JS, Alonso D, Anderson MJ, Benetcha HK, Dornelas M, Enquist BJ, Green JL, He F, Hurlbert AH, Magurran AE, Marquet PA, Maurer BA, Ostling A, Soykan CU, Ugland KI, White EP (2007) Species abundance distributions: moving beyond single prediction theories to integration within an ecological framework. Ecol Lett 10:995–1015. doi:10.1111/j.1461-0248.2007.01094.x
38. Miadlikowska J, Kauff F, Hofstetter V, Fraker E, Grube M, Hafellner J (2006) New insights from nuclear ribosomal and protein coding genes into classification and evolution of the Lecanoromycetes (Pezizomycotina, Ascomycota). Mycologia 98:1088–1103. doi:10.3852/mycologia.98.6.1088
39. Oksanen J, Blanchet G, Kindt R et al (2013) Vegan: Community Ecology Package. R package version 2.0–8. Available at: http://CRAN.R-project.org/package=vegan. Accessed Aug 2013
40. Olesen J, Jordano P (2002) Geographic patterns in plant-pollinator mutualistic networks. Ecology 83:2416–2424. doi:10.2307/3071803
41. Patterson BD, Atmar W (1986) Nested subsets and the structure of insular mammalian faunas and archipelagos. In: Heaney LR, Patterson BD (eds) Island biogeography of mammals. Academic Press, Waltham, pp 65–82
42. Pimm SL, Lawton JH, Cohen JE (1991) Food web patterns and their consequences. Nature 350:669–674. doi:10.1038/350669a0
43. Platt J (1964) Strong inference. Science 146:347–353. doi:10.1126/science.146.3642.347
44. Podani J, Schmera D (2012) A comparative evaluation of pairwise nestedness measures. Ecography 35:889–900. doi:10.1111/j.1600-0587.2011.07319.x
45. Ramos-Jiliberto R, Domínguez D, Espinoza C, Lopez G, Valdovinos FS, Bustamante RO, Medel R (2010) Topological change of Andean plant–pollinator networks along an altitudinal gradient. Ecol Complex 7:86–90. doi:10.1016/j.ecocom.2009.06.001
46. Rodriguez RJ, White JF Jr, Arnold AE, Redman RS (2009) Fungal endophytes: diversity and functional roles. New Phytol 182:314–330. doi:10.1111/j.1469-8137.2009.02773.x
47. Stone L, Roberts A (1990) The checkerboard score and species distributions. Oecologia 85:74–79. doi:10.1007/BF00317345
48. Tedersoo L, Bahram M, Põlme S et al (2014) Global diversity and geography of soil fungi. Science 346:1256688. doi:10.1126/science.1256688
49. Thébault E, Fontaine C (2010) Stability of ecological communities and the architecture of mutualistic and trophic networks. Science 329:853–856. doi:10.1126/science.1188321
50. Thompson JN (2005) The geographic mosaic of coevolution. The University of Chicago Press, Chicago
51. U’Ren JM (2011) Host-, geographic-, and ecological specificity of endophytic and endolichenic fungal communities. PhD thesis. The University of Arizona, Tucson
52. U’Ren JM, Dalling JW, Gallery R et al (2009) Diversity and evolutionary origins of fungi associated with seeds of a neotropical pioneer tree: a case study for analyzing fungal environmental samples. Mycol Res 113:432–449. doi:10.1016/j.mycres.2008.11.015
53. U’Ren JM, Lutzoni F, Miadlikowska J, Arnold AE (2010) Community analysis reveals close affinities between endophytic and endolichenic fungi in mosses and lichens. Microb Ecol 60:340–353. doi:10.1007/s00248-010-9698-2
54. U’Ren JM, Lutzoni F, Miadlikowska J, Laetsh A, Arnold AE (2012) Host and geographic structure of endophytic and endolichenic fungi at a continental scale. Am J Bot 99:898–914. doi:10.3732/ajb.1100459
55. U’Ren JM, Riddle JM, Monacell JT, Carbone I, Miadlikowska J, Arnold AE (2014) Tissue storage and primer selection influence pyrosequencing-based inferences of diversity and community composition of endolichenic and endophytic fungi. Mol Ecol Res 14:1032–1048. doi:10.1111/1755-0998.12252
56. Ulrich W, Almeida-Neto M (2012) On the meanings of nestedness: back to the basics. Ecography 35:865–871. doi:10.1111/j.1600-0587.2012.07671.x
57. Ulrich W, Gotelli NJ (2013) Pattern detection in null model analysis. Oikos 122:2–18. doi:10.1111/j.1600-0706.2012.20325.x
58. Ulrich W, Almeida-Neto M, Gotelli N (2009) A consumer’s guide to nestedness analysis. Oikos 118:3–17. doi:10.1111/j.1600-0706.2008.17053.x
59. Vázquez D, Melián C, Williams N, Blüthgen N, Krasnov BR, Poulin R (2007) Species abundance and asymmetric interaction strength in ecological networks. Oikos 116:1120–1127. doi:10.1111/j.0030-1299.2007.15828.x
60. Vázquez D, Chacoff N, Cagnolo L (2009) Evaluating multiple determinants of the structure of plant–animal mutualistic networks. Ecology 90:2039–2046. doi:10.1890/08-1837.1
61. Verbruggen E, Van Der Heijden MGA, Weedon JT, Kowalchuk GA, Röling WFM (2012) Community assembly, species richness and nestedness of arbuscular mycorrhizal fungi in agricultural soils. Mol Ecol 21:2341–2353. doi:10.1111/j.1365-294X.2012.05534.x
62. Wardhaugh CW, Edwards W, Stork NE (2015) The specialization and structure of antagonistic and mutualist networks of beetles on rainforest canopy trees. Biol J Linn Soc 114:287–295. doi:10.1111/bij.12430
63. Wehner J, Powell JR, Muller LAH, Caruso T, Veresoglou SD, Hempel S, Rillig MC (2014) Determinants of root-associated fungal communities within Asteraceae in a semi-arid grassland. J Ecol 102:425–436. doi:10.1111/1365-2745.12197
64. Wilson AWG, Morris WF, Bronstein JL (2003) Coexistence of mutualists and exploiters on spatial landscapes. Ecol Monogr 73:397–413. doi:10.1890/02-0297