| HOME | HELP | FEEDBACK | SUBSCRIPTIONS | ARCHIVE | SEARCH | TABLE OF CONTENTS |
Department of Biological Sciences, Stanford University, Stanford, California 94305-5020 and Department of Plant and Microbial Biology, University of California, Berkeley, California 94720-3102
Jeremy R. Dettman 2
Rachel I. Adams 3
Department of Plant and Microbial Biology, University of California, Berkeley, California 94720-3102
Cornelia Boesl
Shahana Sultana 4
Till Roenneberg
Martha Merrow 5
Institute for Medical Psychology, Centre for Chronobiology, Goethestraße 31, Ludwig Maximilians University München, 80336 München, Germany
Margarida Duarte
Isabel Marques
Alexandra Ushakova
Patrícia Carneiro
Arnaldo Videira
Instituto de Biologia Molecular e Celular (IBMC), and Instituto de Ciências Biomédicas Abel Salazar, (ICBAS) Universidade do Porto, Portugal
Laura Navarro-Sampedro
María Olmedo
Luis M. Corrochano
Departamento de Genética, Facultad de Biología, Universidad de Sevilla, Avenida Reina Mercedes 6, Apartado 1095, E-41080 Sevilla, Spain
John W. Taylor
Department of Plant and Microbial Biology, University of California, Berkeley, California 94720-3102
| ABSTRACT |
|---|
|
|
|---|
The life cycles of the conidiating species of Neurospora are adapted to respond to fire, which is reflected in their natural history. Neurospora is found commonly on burned vegetation from the tropic and subtropical regions around the world and through the temperate regions of western North America. In temperate Europe it was unknown whether Neurospora would be as common as it is in North America because it has been reported only occasionally. In 2003 and 2004 a multinational effort surveyed wildfire sites in southern Europe. Neurospora was found commonly from southern Portugal and Spain (37° N) to Switzerland (46° N). Species collected included N. crassa, N. discreta, N. sitophila and N. tetrasperma. The species distribution and spatial dynamics of Neurospora populations showed both similarities and differences when compared between temperate Europe and western North America, both regions of similar latitude, climate and vegetation. For example the predominant species in western North America, N. discreta phylogenetic species 4B, is common but not predominant in Europe, whereas species rare in western North America, N. crassa NcB and N. sitophila, are much more common in Europe. The meiotic drive element Spore killer was also common in European populations of N. sitophila and at a higher proportion than anywhere else in the world. The methods by which organisms spread and adapt to new environments are fundamental ecosystem properties, yet they are little understood. The differences in regional diversity, reported here, can form the basis of testable hypotheses. Questions of phylogeography and adaptations can be addressed specifically by studying Neurospora in nature.
Key words: ecology, fire, meiotic drive, natural history, phylogentic species, Spore killer
| INTRODUCTION |
|---|
|
|
|---|
The purpose of this study was to determine whether Neurospora is common in temperate regions of Europe. We hypothesized that the niche under the bark of burned vegetation had been overlooked in Europe as it was in North America. In autumn 2003 a multinational effort searched for Neurospora in fire sites across southern Europe after a summer of unusually devastating wildfires. Additional collections were made in 2004.
Most published accounts of Neurospora in temperate regions were anecdotal (see Jacobson et al 2004
). In Europe Neurospora most often has been associated with bakeries, (Legan 1993
, Perkins 1991
, Perkins and Turner 1988
, Yassin and Wheals 1992
). High temperatures and the presence of easily colonized substrates that usually are associated with bakeries may allow Neurospora to grow in locations that traditionally were considered outside the geographic distribution of this fungus. However observations of Neurospora in nature have been sporadic in Europe with no systematic surveys or descriptions of populations on the scale of studies in temperate North America.
Individuals collected in Europe were identified with both biological and phylogenetic species recognition methods that have been developed for the outbreeding species of Neurospora. Phylogenetic species recognition also provided a preliminary indication of genetic diversity within species. The comparison of the isolates collected in this study with those from North America and throughout the world highlights differences in the ecology of Neurospora and the diversity of Neurospora populations in temperate climates on different continents.
| MATERIALS AND METHODS |
|---|
|
|
|---|
Methods of handling isolates, including collecting, initial culturing, subculturing of single conidia and storage, were exactly as described in Jacobson et al (2004)
. A field sample of conidia was collected from a sporulating colony onto sterile filter paper, which then was placed in a sterile envelope. One colony per plant was sampled for up to 45 isolates per site. In addition, where possible, two to seven isolates from the same plant were collected from one or two plants per site. Representative isolates of each species found at each site (both mating types when possible), and strains (TABLE I
see below) have been deposited in the Fungal Genetic Stock Center (FGSC), Kansas city, Missouri 64110 (http://www.fgsc.net) under accession numbers 1001010059.
|
Characterization of the genetic diversity among N. crassa and N. discreta strains.
Phylogenetic analyses of N. crassa and N. discreta have revealed genetically distinct clades within these species (Dettman et al 2003a
, 2006
). To assign European isolates to these clades, or to discover other clades within these biological species, sequence was obtained for three diagnostic polymorphic DNA regions (Dettman et al 2003a
). Sequences of the three polymorphic regions (unlinked, noncoding loci that flank microsatellites [TMI, TML, and DMG]) were obtained with methods described by Dettman et al (2003a)
. Sequences were aligned manually, because of the presence of microsatellites and insertion/deletion gaps (indels) within these loci. Microsatellite sequences were omitted from the analyses. Fourteen of 17 European N. discreta isolates were analyzed (excluding multiple isolates of the same mating type from the same plant), as were 22 N. crassa isolates from all sites where N. crassa was present, including multiple isolates of different mating type where available (TABLE I
). The only two N. crassa isolates obtained from western North America (Montana; FGSC 8571 and W-864) (Jacobson et al 2004
) also were included. The sequences have been deposited in GenBank under accession numbers DQ442288
[GenBank]
DQ442377
[GenBank]
.
The sequences of the three loci were combined into a single dataset because previous use of the partition homogeneity test showed a lack of incongruence (Dettman et al 2003a
, 2006
). Separate maximum parsimony trees were calculated for N. discreta and N. crassa with PAUP* (version 4.0b10, Swofford 2003
). Analysis of European N. discreta isolates in relation to worldwide collections of N. discreta sensu lato has been reported by Dettman et al (2006)
. For comparative purposes the N. crassa dataset included sequences of the three loci from a subset of 37 of the N. crassa strains included in Dettman et al (2003a)
. No outgroups were included, because Dettman et al (2003a)
clearly showed that N. crassa is a well supported phylogenetic species. Maximum parsimony bootstrapping for N. crassa was performed with heuristic searches (1000 replicates, simple stepwise addition, tree bisection-reconnection branch swapping, MAXTREES = 100).
| RESULTS |
|---|
|
|
|---|
|
|
|
|
Fifty-four percent of the N. sitophila isolates collected (45 of 83) expressed the killer phenotype. The killer haplotype was present in six of the seven sites containing N. sitophila, and three of these contained both killer and sensitive haplotypes. However killer and sensitive haplotypes were not found together on any of the five plants from which multiple isolates of N. sitophila were recovered.
N. crassa.
A single maximum parsimony tree was produced from combined sequences of the TMI, TML, and DMG loci (FIG. 4
). Included in the tree were representatives of the three major clades in N. crassa, NcA, NcB and NcC (Dettman et al 2003a
). Sequence was obtained for all three loci from 22 European isolates of N. crassa. All these isolates fell into the single, previously described clade NcB (TABLE I
, FIG. 4
).
|
Although it was beyond the scope of this study to assess clonality of strains from the same plant, we did investigate the genotypes of multiple N. crassa isolates collected from seven individual plants. When two polymorphic markers (mat and TMI) were combined, five plants from Seville, Spain, revealed more than one genetically distinct individual of N. crassa per plant. In contrast the multiple isolates of N. crassa from the two other plants (from Seros, Spain, and Genoa, Italy) were monomorphic at both markers. This preliminary study indicated that more than one genetic individual could be present in very close spatial scales, as was reported by Powell et al (2004).
Phylogenetic species 4B within the N. discreta complex.
The European isolates of N. discreta sensu lato, as defined by biological species recognition, all were identified as belonging to phylogenetic species (PS) 4B (tree not shown, refer to Dettman et al 2006
FIG. 2
for relationships among phylogenetic species within the N. discreta complex). Of the six isolates sequenced here that were not analyzed by Dettman et al (2006)
, each had sequence identical to at least one isolate examined by Dettman et al (2006)
. Therefore no additional genetic diversity was found within PS 4B or the European population, and PS 4B is the only species of the N. discreta complex found in Europe to date.
| DISCUSSION |
|---|
|
|
|---|
All five classically described, conidiating, biological species of Neurospora now have now been identified in Europe: N. crassa, N. discreta, N. intermedia, N. sitophila and N. tetrasperma. This is the first study to report N. discreta, whereas we did not find N. intermedia, which was reported by Ramsbottom and Stephens (1935)
. Recent work has further divided Neurospora into phylogenetic species and clades (Dettman et al 2003a
, 2006
). Of the eight phylogenetic species within the N. discreta complex only one (PS 4B) was identified among the European isolates collected here. Two newly described phylogenetic species outside the N. discreta complex also were found to be distinct biological species (Dettman et al 2003b
); neither of these species were found among the European isolates. Of the three distinct clades within N. crassa (NcA, NcB and NcC), all new European N. crassa isolates fell into NcB. Based on these finer scale measures of genetic divergence among members of Neurospora, similarities and differences were assessed between the newly sampled populations from Europe and populations from other continents, including both temperate and tropical/subtropical climates.
The similarity of Neurospora between Europe and southeastern, subtropical areas of the United States is also reflected in the overall species diversity and distributions. The complement of species and their frequency of collection are similar in Europe and southeastern United States (FIG. 5
). This distribution is in stark contrast to populations of Neurospora in western North America, which are composed pre-dominantly of a single species in the N. discreta complex (PS 4B), with only rare occurrences of N. sitophila and N. crassa. Neurospora has been found at 64° N latitude in Alaska and as far as 45° N in Europe. Future collecting expeditions are planned to target even higher latitudes in Europe in the hope of learning more about the distribution of Neurospora species.
|
The physical appearance in nature of N. crassa and N. discreta from Europe and the southeastern US is remarkably similar and unlike that of N. discreta from western North America. However phylogenetic analysis of DNA sequences indicated that the European isolates of the two species were highly similar to those from temperate western North America and dissimilar to those found in the southeastern United States.
N. crassa clades NcA, NcB and NcC are genetically distinct from one another but do not meet the strict criteria that would make them separate phylogenetic species (Dettman et al 2003a
). These clades have distinct geographical distributions. NcA was widespread across the Caribbean basin and Africa. NcC was limited to the state of Tamil Nadu in India, and the rare isolates of NcB were limited to equatorial Africa and southern India. The addition of all the European and western North American isolates of N. crassa to clade NcB significantly changes the biogeography of the species. Now NcB also appears geographically widespread, similar to NcA, although its prevalence outside of Europe remains in question.
Distributions of NcA and NcB in the western hemisphere and Europe are nonoverlapping, but the clades do coexist in equatorial Africa. NcA and NcC, whose ranges overlap in southern India, have developed reproductive isolation phenotypes, which correlate with the genetic distance (Dettman et al 2003b
; E. Turner, University of California at Berkeley, unpublished). No attempt was made in this or previous studies to characterize the reproductive relationships between members of the NcA and NcB clades; biological species recognition was limited to crossing European isolates to the species tester strains. We therefore do not know whether NcA and NcB show reproductive isolation anywhere in their range.
The N. discreta complex from Europe and North America also shows a combination of widespread and more narrowly distributed species. European N. discreta isolates, which represent only 7% of all collected European isolates, are placed phylogenetically within the predominant species in western North America, the widespread PS 4B. PS 4B however is phylogenetically distant from the two other N. discreta species in North America (i.e., N. discreta sensu stricto [Texas] and PS 7 [Florida, Mexico and Guatemala]).
Striking differences were seen in the growth habit and the morphology of colonies of Neurospora on natural substrates between the two temperate continents. As mentioned, Neurospora in Europe was commonly seen apparently growing on the surface of charred bark (FIG. 1A
). In contrast extensive colonies of Neurospora were seen in western North America but always under the bark of woody plants. Only rarely, and after prolonged incubation periods, did the fungus erupt through the bark (Jacobson et al 2004
, FIG. 1
). The extensive amount of sporulation on the surface of burned bark, as seen in Europe, was never observed in western North America. Moreover recognizable colonies of Neurospora were not observed under the bark in Europe.
Neurospora in Europe grew on both charred woody and herbaceous plants, such as the grass in Spain (FIG. 1B
). In contrast Neurospora was never observed in western North America on herbaceous plants. Although the latitude, climate, geography and vegetation are similar between Europe and temperate western North America, the growth habit and substrate of Neurospora in Europe are similar to those in tropical and subtropical areas, including Florida and Texas in the southern United States (Powell et al 2003
, Turner and Perkins 1988, Turner et al 2001
).
The proportion of N. sitophila Spore killer strains reported here for Europe is much higher (45 of 83, 54%) than worldwide (77 of 469, 16%) (FIG. 5
) and might provide an opportunity to study the dynamics of Spore killers in nature and the effect of meiotic drive on populations. Existing data have been insufficient to determine the potential of Spore killer to become fixed in any population (Turner 2001
), which makes the spatial and temporal dynamics of killer and sensitive haplotypes in European populations of great interest (Burt and Trivers 2006
). Whether a stable equilibrium is maintained can be tested only where killer and sensitive coexist in the same populations, but Sk-1 killer and sensitive haplotypes coexist from only 10 out of 92 (11%) sites where Spore killer has been found outside of Europe: one in Hawaii, one in Vanuatu and eight in Tahiti. In Europe, as mentioned, killer and sensitive coexist in three of six sites with Sk-1 frequency of 1383%. European Spore killer isolates also were reported by Yassin and Wheals (1992)
who found that all nine of their bakery N. sitophila isolates were Sk-1. Re-sampling of European N. sitophila populations over time might provide the data needed to understand Spore killer and meiotic drive in nature.
Together with the recent discovery of Neurospora in western North America (Jacobson et al 2004
), documentation presented here of its occurrence in Europe firmly establishes it as a common inhabitant of temperate climates, perhaps worldwide. The broad distribution of N. discreta, particularly its longitudinal component, place it, along with N. crassa, among the handful of species that have the attributes to serve as evolutionary and ecological model organisms. There will be no lack of ecological questions because of the large gaps in our knowledge of the basic ecology of Neurospora and fire adapted fungi in general. The differences in regional diversity, reported here, can form the basis of testable hypotheses. Questions of phylogeography and adaptations specifically can be addressed with Neurospora: Where did these species of Neurospora originate and how did they arrive at their modern distributions? What role have human activities played in the current distribution of Neurospora lineages? Have populations of Neurospora changed genetically to adapt to local conditions, such as ambient temperature or photoperiod (Tan et al 2004
)? How organisms spread and adapt to new environments are fundamental ecosystem properties, yet they are little understood. We hope that understanding of these fundamental features will come from studies of N. discreta that blend ecology and evolutionary biology with genetics and genomics.
| ACKNOWLEDGMENTS |
|---|
| FOOTNOTES |
|---|
2 Present address: Department of Botany, University of Toronto, Mississauga, Ontario, L5L 1C6 Canada. ![]()
3 Present address: Department of Biological Sciences, Stanford University, Stanford, California 94305-5020. ![]()
4 Present address: Internal Medicine I, Klinikum Grosshadern Marchioninistr 15, Ludwig Maximilians University München, 81377 München, Germany. ![]()
5 Present address: Biological Centre, Chronobiology, University of Groningen, Postbus 14, 9750AA Haren, The Netherlands. ![]()
1 Corresponding author. E-mail: djjacob{at}stanford.edu
| LITERATURE CITED |
|---|
|
|
|---|
Cai L, Heewon R, Hyde KD. 2006. Phylogenetic investigations of Sordariaceae based on multiple gene sequences and morphology. Mycol Res 110:137150.[CrossRef][Medline]
Davis RH. 2000. Neurospora: contributions of a model organism. New York: Oxford University Press. 333 p.
Dettman JR, Jacobson DJ, Taylor JW. 2003a. A multilocus genealogical approach to phylogenetic species recognition in the model eukaryote Neurospora. Evolution 57:27032720.[CrossRef][Medline]
, , . 2006. Multilocus sequence data reveal extensive phylogenetic species diversity within the Neurospora discreta complex. Mycologia 98:437447.
, , Turner E, Pringle A, Taylor JW. 2003b. Reproductive isolation and phylogenetic divergence in Neurospora: comparing methods of species recognition in a model eukaryote. Evolution 57:27212741.[CrossRef][Medline]
García D, Stchigel AM, Cano J, Guarro J, Hawkworth DL. 2004. A synopsis and recircumscription of Neurospora (syn. Gelasinospora) based on ultrastructural and 28S rDNA sequence data. Mycol Res 108:11191142.[CrossRef][Medline]
Jacobson DJ, Powell AJ, Dettman JR, Saenz GS, Barton MM, Hiltz MD, Dvorachek WH, Glass NL, Taylor JW, Natvig DO. 2004. Neurospora in temperate forests of western North America. Mycologia 96:6674.
Legan JD. 1993. Mould spoilage of bread: the problem and some solutions. Int Biodeterior Biodegrad 32:3353.
Perkins DD, Turner BC. 1988. Neurospora from natural populations: toward the population biology of a haploid eukaryote. Exp Mycol 12:91131.[CrossRef]
. 1991. The first published scientific study of Neurospora, including a description of photoinduction of carotenoids. Fung Genet Newsl 38:6465.
Powell AJ, Jacobson DJ, Natvig DO. 2003. Variation among natural isolates of Neurospora on small spatial scales. Mycologia 95:809819.
Raju NB. 2002. Spore killers: meiotic drive elements that distort genetic ratios. In: Osiewacz HD, ed. Molecular biology of fungal development. New York: Marcel Decker Inc. p 275296.
Ramsbottom J, Stephens FL. 1935. Neurospora in Britain. Trans Brit Mycol Soc 19:215220.
Shear CL, Dodge BO. 1927. Life histories of and hetero-thallism of the red bread-mold fungi of the Monilia sitophila group. J Ag Res 34:10191042.
Swofford DL. 2003. PAUP*: phylogenetic analysis using parsimony (*and other methods). Version 4.0.b10. Sunderland, Massachusetts: Sinauer Associates.
Tan Y, Merrow M, Roenneberg T. 2004. Photoperiodism in Neurospora crassa. J Biol Rhythm 19:13543.[Abstract]
Turner BC. 2001. Geographic distribution of Neurospora Spore killer strains and strains resistant to killing. Fung Genet Biol 32:93104.[CrossRef]
, Perkins DD, Fairfield A. 2001. Neurospora from natural populations: a global study. Fung Genet Biol 32:6792.
Yassin S, Wheals A. 1992. Neurospora species in bakeries. J Appl Bacteriol 72:377380.
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| HOME | HELP | FEEDBACK | SUBSCRIPTIONS | ARCHIVE | SEARCH | TABLE OF CONTENTS |