Journal of Heredity 2003:94(3)
© 2003 The American Genetic Association 94:212-217
A First Assessment of Genetic Variation in Welwitschia mirabilis Hook
From the Department of Biology, Grinnell College, Grinnell, IA 50112.
Address correspondence to Kathryn M. Jacobson at the address above, or e-mail: jacobsok{at}grinnell.edu.
| Abstract |
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Welwitschia mirabilis is a monotypic member of the family Welwitchiaceae which, along with Ephedra and Gnetum species, comprises the gymnospermous order Gnetales. While the monophyly of this order is now widely accepted, the relationship of the Gnetales to other seed plants is still contentious. Despite the unique phylogenetic position of W. mirabilis and its extraordinary physiological and anatomical adaptations, little is known about the plant's phylogeny or its current distribution in isolated locations throughout the Namib Desert. As a preliminary step in the design of an more extensive phylogeographic study, we analyzed 37 random amplified polymorphic DNA (RAPD) loci from 59 plants distributed among five sites separated by distances of 6440 km. Cluster analysis and analysis of molecular variance (AMOVA) revealed significant levels of variation within and between populations and little evidence of inbreeding. Genetic differences between populations reflect the geographic distances separating them. Three of the populations formed discernable genetic clusters, suggesting that little gene flow occurs between populations separated by
18 km. In contrast, gene flow is occurring between two populations separated by only 6 km, supporting previous observations that pollen dispersal is primarily local and that seeds are not readily windborne over the large distances separating most W. mirabilis populations. As a working hypothesis, we propose that W. mirabilis had a continuous distribution across its current range as much as 105 million years ago, and that as a consequence of subsequent drying trends and physical disturbance, populations became progressively isolated, accounting for their current distribution. The important phylogenetic position, odd morphology, and unique ecological adaptations of Welwitschia mirabilis Hook. make it one of the most intriguing plant species on earth, and the subject of more than 250 articles published since Hooker's description in 1863 (Henschel and Seely 2000). Despite this attention, no studies have addressed microevolutionary or phylogeographical hypotheses regarding W. mirabilis. The species is endemic to arid and semiarid regions of western Namibia and Angola; individuals are among the oldest living plants, with ages estimated up to 3,000 years (Bornman et al. 1972; von Willert and Wagner-Douglas 1994). Extensive morphological and molecular phylogenetic studies confirm that the three genera comprising the Gnetales (Welwitschia, Ephedra, and Gnetum) are a monophyletic group [see the review by Price (1996)]. However, the relationship of Gnetales with other seed plants has been widely debated and is still not resolved. Phylogenetic studies in the mid-1980s and early-1990s using chloroplast genes and/or morphological characters suggested that Gnetales were a sister group to the angiosperms, and along with two fossil orders (Bennetitales and Pentoxylales) comprised the Anthophyte clade. Bootstrap values for this clade were, however, very low [see the review by Doyle (1996)], and recent work has now rejected the Anthophyte hypothesis (Gugerli et al. 2001; Winter et al. 1999). From data derived from nuclear homeotic genes, mitochondrial genes, and larger molecular datasets, Gnetales are now thought to be a sister group to Pinaceae.
A classic phreatophyte, W. mirabilis plants in the Namib Desert meet their water needs by inhabiting ephemeral watercourses, accessing groundwater via an extensive deep root system (Bornman 1972; Eller et al. 1983; Giess 1969), and possessing xylem vessels that are highly efficient for transporting water (Muhammad and Sattler 1982). Transpirational water loss from this C3 plant (Eller et al. 1983; von Willert et al. 1982) is in excess of 1 l/m2 leaf surface/day (von Willert et al. 1982), approximately twice the quantity available in leaves at dawn (Eller et al. 1983), and high compared to other Namib Desert evergreen plants (von Willert et al. 1992). The only mechanism W. mirabilis uses to regulate water loss is stomatal closing during exceptionally hot, dry periods (von Willert and Wagner-Douglas 1994). While growth rates vary seasonally and in response to rain, growth of the large straplike leaves from the woody basal meristem is continuous throughout the life of the plant.
Despite high fertility (Bornman 1978; Bustard 1990), juvenile plants are rare. Seeds are frequently contaminated with a fungus that severely reduces viability (Cooper-Driver et al. 2000), and climatic events that favor seedling germination (rains in excess of 55 mm, or ephemeral stream flows) are infrequent throughout much of the plant's range. Populations are thus typically composed of obvious size cohorts representing several germination events occurring over the past millennium (Bornman 1972; Jürgens et al. 1997). When climatic conditions are appropriate, germination can occur in highly disturbed habitats such as streambeds in ephemeral watercourses and rocky scrapings from road works (Jacobson K, unpublished data). Recent studies have conclusively eliminated wind as a possible pollination vector, establishing flies as the predominant agent (Wetschnig and Depisch 1999). Seeds are winged, but being fairly large, probably serve only as agents of dispersal within populations (Henschel and Seely 2000).
The range of W. mirabilis extends over a 150,000 km2 area along the southwestern Namib coast from the Nicolau River in southern Angola to the Kuiseb River and Central Namib Sand Sea in central Namibia (Figure 1). Rainfall throughout much of the species' range is less than 50 mm and populations comprising 2 to more than 2,000 plants (Henschel and Seely 2000) are thus typically found in and along ephemeral watercourses. In the northern part of the species' Namibian range, however, plants can also be found in semiarid mopane savanna where rainfall averages 150200 mm/year (Jacobson et al. 1993a). In the south, within the Namib Naukluft Park, the locations and extent of geographically discrete populations are fairly well known. In contrast, this information is only partially known for populations north of the Omaruru River. Kers's (1967) map (Figure 1) suggests that plants occur in discrete populations throughout the range, but our preliminary mapping efforts in the extensive roadless regions between the Ugab and Hoanib Rivers revealed that a number of these supposedly geographically discrete northern populations are in fact continuous.
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As a first step in the design of an extensive phylogeographic study of W. mirabilis, this article reports on genetic variation between and within five locations in Namibia, using random amplified polymorphic DNA (RAPD) markers. These polymerase chain reaction (PCR)-derived markers are obtained using 10-base primers that amplify random genomic fragments throughout the genome (Williams et al. 1990), thus providing an efficient first assessment of genomic variation (Weising et al. 1995). It was essential to use PCR-derived molecular markers for this first analysis because the plant's protected status required use of minimal amounts of leaf tissue. Herein we (1) describe genetic variation and calculate genetic diversity within each population; (2) use cluster analysis (NTSYS) to create a phenogram illustrating the distribution of variation among the populations; and (3) use analysis of molecular variance (AMOVA) to determine whether patterns exist regarding the distribution of variation within populations, between populations, and between regions. We interpret these results in light of Gnetalean palynology and the geological record of western Namibia.
| Materials and Methods |
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Site Descriptions
The Welwitschia Wash (23°36'54.5''S, 15°10'45''E) and Hope Mine (23°34'273''S, 15°15'533''E) sites are located at the southern limit of the species' range, just to the north of the Kuiseb River in the Central Namib Desert (Figure 1). These sites, referred to collectively as the Kuiseb sites, are approximately 6 km apart (Henschel and Seely 2000). Welwitschia Wash is a fairly small, discrete population of roughly 250 plants located in a single ravine. Hope Mine is a larger and more dispersed population that extends over at least 10 km2 in numerous ravines in rugged canyon habitat. Hope Mine samples were taken from a ravine similar to Welwitschia Wash, containing roughly 100 plants in relatively close proximity. Average rainfall at both Kuiseb sites is between 2555 mm/year and other vegetation is sparse, comprised primarily of perennial species (e.g., Adenolobus pechuellii (Kuntze) Torre & Hille., Orthanthera albida Schinz., and Sutera maxi Boiss).
Plants at the Welwitschia Flats South (22°45.781'S, 14°56.501'E) and North (22°40.434'S, 14°58.888'E) sites are located in shallow dry watercourses on wide gravel plains. Average rainfall is approximately 2550 mm/year. Other perennial vegetation, comprising Zygophyllum stapffii Schinz, Asclepias buchenaviana Schinz, and Arthraerua leubnitziae (Kuntze) Schinz, is extremely sparse. Welwitschia Flats South is approximately 180 km north of the Kuiseb sites, with no intervening populations of the plant. The two Welwitschia Flats sites are approximately 18 km apart and separated by the ephemeral Swakop River. Although W. mirabilis plants are found in this intervening distance, they are sparse (more than 200500 m apart).
The fifth site (20°26.799'S, 14°35.524'E), located on the Great Escarpment approximately 35 km west of Khorixas, is 440 km north of the Welwitschia Flats sites. The Khorixas site (mean annual rainfall of 150200 mm) is in mopane savanna comprised of extensive perennial and annual grass cover (Jacobson et al. 1993a) and two species of trees, Colophospermum mopane (Kirk ex Benth) Kirk ex J. Leonard and Terminalia prunioides C. Lawson, in addition to W. mirabilis plants which are abundant. This site is on the eastern edge of what may or may not be a large contiguous northern population (Figure 1; see Introduction) that occurs above and below the Great Escarpment. There are numerous well-known W. mirabilis locations (for example, Brandberg, Messum, Burnt Mountain) between the Khorixas site and the Welwitschia Flats sites to the south (Figure 1), but these northern sites are separated from the four southern sites by a minimum distance of 250 km.
Molecular Methods
Single tissue samples (1 cm3) were collected in July 1999 from young portions of leaves located near the meristem of 815 male and female plants chosen at random from each of five locations. The sizes of the sampled plants, measured as the diameter of the long axis across the meristematic core, ranged from 8 to 200 cm. Tissue was stored in CTAB buffer held at -20°C to 4°C whenever possible until DNA was extracted. A portion of each sample was chopped into small pieces, frozen, and homogenized in fresh CTAB extraction buffer. DNA extraction and quantification was performed as described previously (Jacobson et al. 1993b).
RAPD reaction mixtures (25 µl) consisted of 9 ng genomic DNA, 25 mM MgCl2, 250 µM each dATP, dTTP, dGTP, and dCTP, 0.5 U Taq DNA polymerase (Promega), and 47 ng of each 10-mer (Operon Technologies, Alameda, CA). Amplifications were performed in an MJ Research PTC-150 minicycler with an initial 5 min denaturation cycle at 95°C, followed by 45 cycles of 37°C for 1 min (annealing), 36°C for 1 min (polymerization), and 93°C for 1 min (denaturation). Amplified fragments were separated by gel electrophoresis in 0.7% agarose with 1% Synergel (Diversified Biotech) and 1 x TAE. Gels were run for 4 h at 100 mV and stained with ethidium bromide. In addition to running water controls with each reaction setup, all reactions were performed twice to confirm that RAPD markers scored were reproducible (Hadrys et al. 1992). The dataset analyzed for this initial study used two primers (OPA-3 and OPA-9).
Bands generated from each sample were assigned a character state of 1 for presence or 0 for absence and organized in an Excel file. Data were imported into NTSYS (Rohlf 1988) and a similarity matrix was constructed using the Jaccard algorithm. A phenogram of the resulting matrix was generated using the unweighted pair group method (UPGMA), and the cophenetic correlation value was computed using the COPH function.
One drawback of RAPD markers is that their dominance precludes the use of F statistic-based analyses of population structure. Instead we used AMOVA (Excoffier et al. 1992), which has been used effectively to obtain a first assessment of genetic variation in other plant species using dominant RAPD markers (e.g., Buso et al. 1998; Gabrielsen and Brochmann 1998; Liao and Hsiao 1998). A distance matrix was also created using the Euclidean metric (Liao and Hsiao 1998), for use in AMOVA (Excoffier et al. 1992). AMOVA partitions the total genetic variation into specified hierarchical groupings. We conducted our AMOVA using three hierarchical levels: variation within populations, between populations, and between three regions [such as northern (Khorixas), south-central (Welwitschia Flats), and southern (Kuiseb)].
| Results |
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Variation Within Populations
The two primers yielded 37 unambiguous RAPD loci from the 59 individuals, of which 3051% were variable within each site (Table 1). The phenogram (Figure 2) based on Jaccard similarities (r = 0.80, good fit) shows that there was considerable variation among the 59 plants. Likewise, AMOVA revealed that 64% of the total variation is accounted for within populations (Table 2), illustrating the high levels of genetic variation among individuals sampled. Populations were comprised primarily of plants with unique genotypes (Table 1), and only two pairs of plants had identical genotypes (FS 5 and 8, and FN 4 and 10) (Figure 2).
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All estimates of genetic diversity within populations approach values of one (Table 1), further illustrating the genetically diverse structure of all five populations. Finally, PhiST, an analogue of the inbreeding coefficient FST (Excoffier et al. 1992), was low: 0.358 (Table 2).
Variation Between Populations
Plants from the Welwitschia Flats North and South sites and Khorixas form three site-specific genetic clusters in the phenogram (Figure 2). In contrast, plants from the two Kuiseb sites, Hope Mine and Welwitschia Wash, do not form discrete genetic clusters. Seven plants from Hope Mine form a cluster sharing 75% similarity, but five other plants cluster with Welwitschia Wash plants, sharing approximately the same level of similarity (74%) with these plants. The phenogram thus suggests that the Welwitschia Wash and Hope Mine sites might not be isolated from each other. Results from the AMOVA do not support this conclusion, however. The between-population differentiation among the five sampling sites is highly significant (p <.001) (Table 2). According to this analysis, despite considerable variation within each population, the five sampling sites are isolated from one another.
While partitioning the total variance among the three hierarchical levels using AMOVA confirmed that most of the variance is due to differences within populations (64%), the proportional variances attributed to within-region (24%) and between-region differences (12%) are also highly significant (p <.001) (Table 2). Reflecting the within-region analysis, the phenogram shows that the two Kuiseb populations form a cluster (72% similar), as do the Welwitschia Flats populations (73% similar). In addition, populations from these two southern regions form a distinct genetic cluster, separate from the northern Khorixas population (supporting the between-region AMOVA analysis).
| Discussion |
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This study of five locations revealed high levels of genetic diversity within populations and across the sampled portion of the species' range. The hierarchical analysis performed by AMOVA, as well as the cluster analysis, clearly showed that genetic differences between the populations studied reflect current geographic distances separating them. Despite the high levels of genetic variation, populations at three of the sites are discrete and readily discernable genetic entities. These data suggest minimal gene flow has occurred between populations separated by distances as small as 18 km, consistent with previous observations that pollen dispersal is primarily local (Wetschnig and Depisch 1999) and that the large, albeit winged, seeds are not readily windborne over the large distances currently separating the southern, central, and northern populations. In contrast, gene flow could be occurring between the two Kuiseb populations that are separated by only 6 km. Here, five plants from Hope Mine are more genetically similar to plants from Welwitschia Wash than to other plants at Hope Mine.
The Geological and Paleoclimatic Context for Subsequent Studies
Palynological studies suggest a peak in Gnetalean diversity in western Africa and eastern South America in the late Cretaceous, at what is now approximately the equator (20 degrees south of the equator then) (Crane and Lidgard 1989). It is thus plausible to hypothesize (in the absence of any data to the contrary) that proto-Welwitschia was present in this mesic region of Gondwanaland as early as the Cretaceous. Given that this phreatophyte possesses a number of enigmatic characteristics not typically associated with desert habitats (e.g., high rainfall requirements for germination, C3 metabolism, and excessive transpirational water loss and associated high daily water demands), and grows continuously and lusciously when provided with warm and moist conditions in greenhouses (van Jaarsveld 1990), it is plausible that earlier habitats of W. mirabilis were more mesic than the current Namib habitat.
During the Cretaceous, plate tectonics radically transformed the landscape and climate of southwestern Africa [see the review by Jacobson et al. (1995)]. Volcanic activity in the northern part of the current range of W. mirabilis during the early Cretaceous resulted in massive lava flows. These flows covered large regions of what is now Brazil and northwestern Namibia (Martin 1961) prior to the separation of Africa and South America approximately 135 million years ago. The remainder of the Cretaceous was a period of erosion in western Namibia in association with the upheaval of the Great Escarpment (Ward 1987) and presumed high rainfall in the region. However, as the continents continued to separate, cold offshore currents pushing up from the south Atlantic began to dominate the regional weather patterns, as they do today, and the climate became more arid (Ward and Corbett 1990). Other than three brief periods of semiarid to temperate climate 812, 2024, and 2632 thousand years ago, all evidence suggests continuous arid conditions throughout the Tertiary and Quatenary (Lancaster 2002).
Our preliminary results support a working hypothesis that attributes the current fragmented distribution of W. mirabilis to aridification during the Tertiary and Quatenary, limiting the species' range from a widespread and contiguous paleodistribution throughout the region to locations with adequate moisture resources. Given that W. mirabilis is currently found both on top of and below the escarpment, and its pollination biology precludes long-distance dispersal, we propose further that the current range of the species may already have been established prior to the upheaval and down-cutting in this region more than 105 million years ago. While this study provides a first assessment of genetic variation in extant W. mirabilis populations, the high levels of RAPD marker polymorphism found preclude their use for effectively testing the proposed phylogeography that spans more than 100 million years. Studies are thus under way to test our hypothesis using loci that are evolving at appropriate rates, a more intensive sampling effort within populations, and more widespread sampling of plants in the northern part of the range.
| Acknowledgments |
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We gratefully acknowledge the Namibian Ministry of Environment and Tourism for granting permission to sample from W. mirabilis and to work within the Namib-Naukluft and Skeleton Coast Parks. Thanks also to the staff at the National Botanical Research Institute of Namibia for providing useful comments on our research proposal; the Desert Research Foundation of Namibia for critical logistical support for the fieldwork; Grinnell College and the Woodrow Wilson Foundation for financial support; and P. Jacobson, B. Schaal, M. Seely, and two anonymous reviewers for helpful comments on various drafts of the manuscript.
| Footnotes |
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Corresponding Editor: Jonathan F. Wendel
Received July 23, 2002
Accepted January 30, 2003
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