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(American Journal of Botany. 1999;86:1191-1199.)
© 1999 Botanical Society of America, Inc.

Phylogenetic relationships of Rutaceae: a cladistic analysis of the subfamilies using evidence from RBC and ATP sequence variation1

Mark W Chase 2 , Cynthia M Morton 3, 5 and Jacquelyn A Kallunki 4

2Royal Botanic Gardens, Kew, Richmond, Surrey, TW9 3DS, UK; 3Department of Botany, University of Reading, Reading, RG6 2AS, UK; and 4The New York Botanical Garden, Bronx, New York 10458-5126

Received for publication June 24, 1997. Accepted for publication January 11, 1999.


    ABSTRACT
 TOP
 ABSTRACT
 INTRODUCTION
 MATERIALS AND METHODS
 RESULTS
 DISCUSSION
 LITERATURE CITED
 
Sequence data for plastid rbcL and atpB from members of Anacardiaceae, Burseraceae, Cneoraceae, Meliaceae, Ptaeroxylaceae, Rutaceae, and Simaroubaceae were analyzed cladistically to evaluate the familial and subfamilial circumscriptions of Rutaceae. Taxa representing all subfamilies and tribes were sampled. The analysis shows that Rutaceae are paraphyletic, with Spathelia and Dictyoloma (Rutaceae), Harrisonia (Simaroubaceae), Cneorum (Cneoraceae), and Ptaeroxylon (Ptaeroxylaceae) forming a clade sister to all other Rutaceae. Circumscription of Rutaceae to include all of these taxa is recommended. This analysis indicates that Simaroubaceae and Meliaceae are the outgroups closest to Rutaceae. Correlation of the molecular phylogenies with biochemical data indicates that chemotaxonomic information is more reliable than fruit type as an indicator of familial and subfamilial circumscriptions. The subfamilial classification needs revision; none of the subfamilies of more than one genus is monophyletic.

Key Words: atpB • Cneoraceae; Harrisonia; Ptaeroxylaceae; Rutaceae; Simaroubaceae • rbcL


    INTRODUCTION
 TOP
 ABSTRACT
 INTRODUCTION
 MATERIALS AND METHODS
 RESULTS
 DISCUSSION
 LITERATURE CITED
 
Rutaceae contain many members of economic importance. Most notable are the species of Citrus that produce both the citrus fruits of commerce (lemons, oranges, mandarins, tangerines, limes, kumquats, etc.) and the essential oils used in perfumery, the species of Pilocarpus that are the source of pilocarpine, a drug used to treat glaucoma, and the species of Boronia, Choisya, Poncirus, and Skimmia that are used as ornamentals. They are a large family comprising ~155 genera with 1600 species, mostly tropical and subtropical in distribution. The family is usually placed in Rutales (Takhtajan, 1987 , 1997 ; Dahlgren, 1989 ; Thorne, 1992 ) or in Sapindales (Cronquist, 1993 ) because they, like other families in the order, are usually woody plants with typically compound, estipulate leaves, seldom more than two ovules per carpel, a nectary disk (sometimes modified into a gynophore), usually no more than twice as many stamens as sepals or petals, and a superior ovary.

Within the order, Rutaceae are grouped with Simaroubaceae, Meliaceae, Cneoraceae, and Ptaeroxylaceae (the latter included in Sapindaceae by Cronquist), primarily because of the absence of resin ducts in the bark, wood rays, and leaf veins and the presence of triterpenoid compounds (Cronquist, 1988 ). Rutaceae are distinguished from these families, however, by glandular-punctate leaves, the production of limonoids, and the usual presence in parenchyma and pericarp of secretory cavities containing aromatic ethereal oils. A study of rbcL data from members of the Sapindales complex (Gadek et al., 1996 ) supported the inclusion of Rutaceae within Sapindales and the family's distinction from, but close association with, Simaroubaceae, Meliaceae, Cneoraceae, and Ptaeroxylaceae.

In the only systematic treatment of Rutaceae, Engler (1896 , 1931) recognized seven subfamilies: Rhabdodendroideae, Aurantioideae (=Citroideae), Flindersioideae, Spathelioideae, Dictyolomatoideae, Rutoideae, and Toddalioideae. He defined these subfamilies primarily by characters of the gynoecium, especially fruit type. Although in modern classifications (Takhtajan, 1987 ; Dahlgren, 1989 ; Thorne, 1992 ; Cronquist, 1993 ), Rhabdodendroideae have been excluded from Rutaceae, the other six subfamilies (not always with the same circumscriptions) have been retained. Takhtajan (1987) recognized the six subfamilies. Thorne (1992) combined Toddalioideae with Rutoideae, making five subfamilies. Dahlgren (1989) and Cronquist (1993) did not mention subfamilies, but Cronquist did include Flindersiaceae as a synonym of Rutaceae. Hutchinson (1973) listed four subfamilies: Rutoideae (including Flindersia), Toddalioideae, Rhabdodendroideae, and Aurantioideae (=Citroideae) but did not mention Spathelia (Spathelioideae) or Dictyoloma (Dictyolomatoideae). He mentioned Chloroxylon (as Chloroxlum), the other genus of Flindersioideae, only in a paragraph of useful products of Meliaceae. A conspectus of the subfamilies and tribes is given in Appendix 1.

In recent classifications, Engler's monogeneric Rhabdodendroideae have been recognized as a family, Rhabdodendraceae, and placed within Rosales (Cronquist, 1988 , 1993 ; Dahlgren, 1989 ) or Rutales (Takhtajan, 1987 ; Thorne, 1992 ). Prance (1968 , 1972) surveyed morphological and anatomical characters and concluded that Rhabdodendron would be best recognized as a separate family within Centrospermae (=Caryophyllales). Analysis of rbcL sequence data by Gadek et al. (1996) described Rhabdodendron as sister to the caryophyllid clade (including Droseraceae and Nepenthaceae), as was also found by Fay et al. (1997) . A chemical study of Rhabdodendron macrophyllum (Wolter-Filho et al., 1985 ) revealed no metabolites typical of Rutaceae, such as alkaloids and limonoids, compounds characteristic of many members of Sapindales; however, the presence of ellagitannins indicated its placement in Rosales. Rhabdodendron is excluded from this analysis.

Engler defined Citroideae (~33 genera and 210 species native to the Old World tropics) by the syncarpous ovary with one or two, sometimes several, ovules per carpel and by the indehiscent, fleshy fruit, often (in Citrinae) with pulp vescicles, but sometimes (in Aegle) with a hard shell. Citroideae have always been included in Rutaceae but divided into several of tribes; Engler (1931) recognized a single tribe, Tanaka (1932) eight, and Swingle and Reece (1967) two.

Engler assigned to Flindersioideae two genera, Flindersia and Chloroxylon, both native to the Old World tropics. They are characterized by a syncarpous ovary with two to several ovules per carpel and by a loculicidal (in Chloroxylon) or septifragal (in Flindersia) capsule with winged seeds. Affinities of these two genera have been uncertain, but because of the similarity of their fruits and seeds to those of Cedrela, early botanists (de Candolle, 1824 , 1878 ; Bentham and Hooker, 1862 ) included them in Meliaceae. Because of their glandular-punctate leaves, Engler (1877 , 1931) placed both in Rutaceae, in which Flindersia was recognized by its recent monographer (Hartley, 1969 ). Characters of these two genera do not clearly indicate in which family, Meliaceae or Rutaceae, they should be placed, and they also have been recognized as a separate family, Flindersiaceae (Airy-Shaw, 1965 ; Takhtajan, 1983 ).

Dictyolomatoideae, consisting only of the South American genus, Dictyoloma, are characterized by an apocarpous ovary, several ovules per carpel, a fruit in which each carpel dehisces along its ventral suture with a separating endocarp, and winged seeds. Spathelioideae also consist of a single genus, Spathelia (native to the West Indies and South America), defined by a syncarpous ovary, one or two ovules per carpel, and an indehiscent winged fruit. Although originally described in Rutaceae, Dictyoloma was placed by Planchon (1846) with Spathelia in Simaroubaceae as tribe Spathelieae, characterized by appendaged staminal filaments. Bentham and Hooker (1862) agreed with their exclusion from Rutaceae and also placed them in Simaroubaceae. Engler (1874 , 1877 ) maintained Dictyoloma in Simaroubaceae, but later (1896, 1931) treated it and Spathelia as members of their own monogeneric subfamilies of Rutaceae.

Rutoideae, largest of the subfamilies (~100 genera and 1204 species of temperate and tropical regions worldwide), are defined by generally having two ovules per carpel in a dehiscent fruit (except in Pitavia and some Acronychia). In the characteristic fruit, each carpel dehisces along the ventral suture, leaving no persistent axis, with a separating, cartilaginous endocarp. A fruit with similar dehiscence and endocarp is otherwise found only in Dictyoloma.

Engler defined Toddalioideae (~21 genera and 152 species also native to tropical and temperate regions worldwide) by an indehiscent drupe or samara developing from a syncarpous ovary with one or two ovules per carpel. Although always included in the family, Toddalioideae were submerged in Rutoideae by Thorne (1992) .

Although the ordinal position of Rutaceae seems certain, recent studies have cast some doubt on Engler's subfamilial classification and indicated the inclusion in it of additional genera. On the basis of phytochemical data, Da Silva et al. (1988) suggested the elimination of Toddalioideae and assignment of the genera to several groups in the Rutoideae. More recently, rbcL data have indicated a relationship between Rutaceae and Harrisonia (Simaroubaceae), Cneoraceae, and Pteroxylaceae (Fernando, Gadek, and Quinn, 1995 ; Gadek et al., 1996 ).

This study of rbcL and atpB sequence variation in a broader sample of Rutaceae assesses molecular support for the subfamilial circumscriptions and monophyly of Rutaceae and should help to focus future studies of the family, leading to a better understanding of its phylogeny.


    MATERIALS AND METHODS
 TOP
 ABSTRACT
 INTRODUCTION
 MATERIALS AND METHODS
 RESULTS
 DISCUSSION
 LITERATURE CITED
 
DNA extraction
Total genomic DNA was extracted from fresh and silica-dried leaf samples. Voucher specimens were made for most of the plants used is this study (Appendix).

Fresh (1–2.0 g) or dried (0.1–0.2 g) leaf material was ground into a fine paste and incubated according to the shortened 2X CTAB procedure of Doyle and Doyle (1987) . Proteins were removed with SEVAG (24:1, chloroform:isoamyl alcohol), followed by an equilibrium density-dependent centrifugation in CsCl2-ethidium bromide (1.55 g/mL). After dialysis the purified DNAs were stored at -80°C at the RBG(KEW) DNA bank. Better yields of DNA were obtained from fresh leaves than from leaves dried in silica.

Amplification and sequencing
Gene amplification was performed using the polymerase chain reaction (PCR) of Saiki et al. (1987) with the oligonucleotide primers described by Olmstead et al. (1992) for the rbcL gene and Hoot, Culham, and Crane (1995) for the atpB gene. Slight modifications to the reaction conditions (e.g., the annealing temperatures, MgCl2 concentration) were sometimes necessary depending upon the exact nature of the primers and template used. Amplified products were cleaned using Promega Magic mini columns following protocols provided by the manufacturer. Cleaned products were then directly sequenced using the AmpliTaq DNA Polymerase Cycle Sequencing Ready Reaction Kit (Applied Biosystem, Warrington, Cheshire). Unincorporated dye terminators were removed by using Centrisep spin columns (Princeton Separations, Adelphia, New Jersey) or by precipitation with 1:25 3mol/L NaoAc:100% ETOH then 100% ETOH. Samples were run on an Applied Biosystems (Inc.) 373A DNA Sequencer, and data were collected on a Macintosh platform. Raw sequencing data were edited and assembled using Sequencher (Gene Codes Corporation, Ann Arbor, Michigan).

Selection of taxa
Species representing all subfamilies and tribes of Rutaceae and families that have been suggested as possible relatives [Anacardiaceae, Burseraceae, Cneoraceae, Meliaceae, Ptaeroxylaceae, and Simaroubaceae s. str. (Fernando and Quinn, 1995 )] were included in both the rbcL and the atpB data sets. The same genera were included in both analyses except that Flindersia and Harrisonia were not used in the atpB analysis because of a lack of material.

Phylogenetic analysis
Each data set was first analyzed with PAUP version 3.1.1 (Swofford, 1993 ) using heuristic search methods. For all data sets, 100 replicates of random taxon entries were performed using TREE BISECTION RECONNECTION (TBR), MULPARS, and STEEPEST DESCENT, with all characters and character states weighted equally and unordered (Fitch parsimony; Fitch, 1971 ). All trees from the replicates were then swapped to completion, all shortest trees were saved, and a strict consensus tree was computed. Relative support for clades identified by rbcL and atpB analyses was assessed with bootstrap (BS) methods.


    RESULTS
 TOP
 ABSTRACT
 INTRODUCTION
 MATERIALS AND METHODS
 RESULTS
 DISCUSSION
 LITERATURE CITED
 
rbcL matrix
This heuristic analysis produced nine minimum-length Fitch (equally weighted) trees of 657 steps, with a consistency index (CI) = 0.60 and a retention index (RI) = 0.70 (Fig. 1). Meliaceae are a sister clade to Rutaceae s.l. Rutaceae s.l. comprise three clades, of which one, Clade A, consists not only of Dictyoloma (Dictyolomatoideae) and Spathelia (Spathelioideae), both of Rutaceae, but also of Cneorum (Cneoraceae), Ptaeroxylon (Ptaeroxylaceae), and Harrisonia (Simaroubaceae). The second clade, minimally supported (BS 69), contains the remaining four rutaceous subfamilies. The associations of the genera within this large monophyletic second clade show that each of the four subfamilies is not monophyletic. For discussion, this large clade can be divided into two clades designated as B and C (Fig. 1). Within clade B, nine of the ten citroid genera included in this analysis form a strongly supported clade (BS 100), which is sister to a clade including Chloroxylon (Flindersioideae) and Ruta (Rutoideae). Within clade C, Luvunga, the tenth citroid genus, and Zanthoxylum (Rutoideae) form a weakly supported clade; Flindersia (Flindersioideae) and Lunasia (Rutoideae) are sisters, and Casimiroa, Phellodendron, and Skimmia (Toddalioideae) are interdigitated among genera of Rutoideae. Many branches within these clades are weak or have less than 50% bootstrap percentage.



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Fig. 1. One of the (randomly selected) nine most parsimonious trees based on rbcL sequence data from 46 taxa. Numbers above branches are base substitutions. Numbers below branches are bootstrap percentages; nodes lacking bootstrap values received <50% bootstrap support. Trees are of 675 steps, with a consistency index (CI) of 0.60, and retention index (RI) of 0.70. Groups not present in the strict consensus tree are marked with arrowheads

 
atpB matrix
This analysis produced 252 minimum-length trees of 547 steps, CI = 0.68 and RI = 0.77 (Fig. 2). The trees broadly support some of the same major groupings as the rbcL tree. In all trees, the pair Simaroubaceae and Meliaceae form a clade sister to Rutaceae s.l. The clade comprising these three families is strongly supported (BS 95). As observed in the rbcL analysis, the inclusion of Ptaeroxylon and Cneorum in clade A with Dictyoloma (Dictyolomatoideae) and Spathelia (Spathelioideae) indicates that Rutaceae as currently circumscribed are paraphyletic. A second clade is equivalent to clades B, and C, of the rbcL analysis. This clade (in which most branches are either weakly supported or lack support) contains as in the rbcL analysis nine of the ten citroid genera forming a strongly supported clade (BS 100); Casimiroa, Phellodendron, and Skimmia (Toddalioideae) are interdigitated among Rutoideae; Chloroxylon (Flindersioideae) and Ruta (Rutoideae) form a clade; and Luvunga (Citroideae) and Zanthoxylum (Rutoideae) are sister taxa.



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Fig. 2. One of the (randomly selected) 252 most parsimonious trees based on phylogenetic analysis of atpB from 44 taxa. Numbers above branches are base substitutions. Numbers below branches are bootstrap percentages; nodes lacking bootstrap values received <50% bootstrap support. The tree has 547 steps with a CI of 0.68 and RI of 0.77. Groups not present in the strict consensus tree are marked with arrowheads

 
Combined rbcL data and atpB matrices
Because the independent analyses were topologically not in disagreement, we merged the rbcL and atpB matrices. This analysis yielded 416 trees of 1218 steps, CI = 0.63, and RI = 0.72. As in the two separate analyses, the trees show Rutaceae to be paraphyletic, but these trees have more robustly supported branches. Clade A is supported (BS 78), forming two strong internal clades—one of Dictyoloma (Dictyolomatoideae) and Spathelia (Spathelioideae; BS 100) and the other of Harrisonia (Simaroubaceae), Cneorum (Cneoraceae), and Ptaeroxylon (Ptaeroxylaceae; BS 92). The well-supported second clade (BS 84) can be divided into the same two clades as found in the rbcL analysis. Clade C is poorly resolved, containing several moderately supported internal clades. Within these clades, genera from Toddalioideae are found interdigitated among genera of Rutoideae, and Luvunga (Citroideae) and Zanthoxylum (Rutoideae) form a weakly supported clade (BS 66). As in both independent analyses, nine of the ten citroid genera included in the analysis form a robustly supported clade (clade B; BS 100), of which many of the internal branches also are supported by the bootstrap. Chloroxylon (Flindersioideae) and Ruta (Rutoideae) form a moderately supported clade sister to the above citroid clade.

Overall levels of support
To assess support, we compared the internal support of the separate analyses to that of the combined analysis using total bootstrap indices (Table 1). The combined analysis has higher bootstrap values than found for either of the individual trees.


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Table 1. Internal support for the Rutaceae s.l. clade indicated by total bootstrap values

 

    DISCUSSION
 TOP
 ABSTRACT
 INTRODUCTION
 MATERIALS AND METHODS
 RESULTS
 DISCUSSION
 LITERATURE CITED
 
Phylogenetic analyses of both rbcL and atpB sequences from genera representing all subfamilies and tribes showed Rutaceae sensu Engler, or by any other published circumscription, to be paraphyletic and none of the subfamilies containing more than two genera to be monophyletic. The trees produced by the independent rbcL and atpB analyses are characterized by weakly supported, but highly similar, clades. Those produced by the combined analysis have higher support for more of the major clades. These higher support values occur for two reasons: first, the homoplasy found in each data set is dispersed when combined, and secondly, weak signal is enhanced, thus producing a more accurate phylogenetic hypothesis. Thus the combined analysis is superior to the independent analyses, and we have based our discussion on the combined data set. The circumscriptions of Rutaceae and each of its six currently recognized subfamilies are discussed below in light of data from molecular and other types of studies.

Outgroup relationships
As stated in the introduction, most systematists have assumed a close association between Rutaceae and other families of Sapindales, and most have found Rutaceae to be most similar to Meliaceae and Simaroubaceae. Rutaceae, Meliaceae, Simaroubaceae, and Burseraceae all have bitegmic and crassinucellate ovules, but only Rutaceae and Meliaceae have a clearly differentiated seed coat (Corner, 1976 ). Corner (1976) noted a fibrous exotegmen in the seeds of Meliaceae but not in the structureless and hence uniform seeds of Simaroubaceae, Burseraceae, and (with limited sampling) Rutaceae and therefore did not consider Rutaceae and Meliaceae to be closely related. Boesewinkel (1980) , however, found a fibrous exotegmen in some species of Rutaceae, a finding that supports a relationship with Meliaceae. In a recent study of the morphology and anatomy of the gynoecium in Rutaceae and Simaroubaceae, Ramp (1988) questioned the separation of these two families and suggested that Simaroubaceae represent an unnatural group of which some groups are derived from different subgroups of Rutaceae. Several studies of the distribution within Rutales of alkaloids, coumarins, chromones, and limonoids strongly support a close association among Rutaceae, Cneoraceae, Ptaeroxylaceae, Meliaceae, and Simaroubaceae (see papers in Waterman and Grundon, 1983 ). In a recent study of rbcL sequence data from several families of the Sapindales, Gadek et al. (1996) proposed that members of Simaroubaceae were a sister group of Rutaceae. Our combined analysis of sequence data showed that Simaroubaceae/Meliaceae were strongly supported as the sister group of Rutaceae.

Circumscription of Rutaceae
Our independent and combined analyses indicate that Rutaceae are paraphyletic because Harrisonia (based on rbcL data), Cneorum, and Ptaeroxylon are excluded. Thorne (1992) suggested removing Harrisonia from Simaroubaceae, in which it had been placed previously (Jussieu, 1825 ; Planchon, 1846 ; Bentham and Hooker, 1862 ; Engler, 1931 ), and placing it, with Spathelia, in Spathelioideae. Taylor's (1983) information on the distribution of secondary metabolites indicated a relationship of these two genera and Cneorum and Ptaeroxylon. Both limonoids and chromones occur in Harrisonia, a rare combination of compounds otherwise known only in Cneorum and Spathelia. Ptaeroxylon lacks limonoids but possesses chromones of the ptaeroxylon group that are otherwise restricted to Harrisonia, Spathelia, and Cneorum. Taylor (1983) considered this evidence to indicate that Harrisonia and Spathelia occupy a "rather unclear junction area" between Rutaceae, Cneoraceae, and Ptaeroxylaceae. Rather than occupying such a "junction," Harrisonia (as well as Cneorum and Ptaeroxylon) occupies a position within Rutaceae. Comparative morphological and anatomical studies of these genera are needed to assess this broader concept of the family.

Circumscription of the subfamilies within Rutaceae
Citroideae (=Aurantioideae)
In both independent and combined analyses, all genera of Citroideae (except Luvunga) form a strongly supported clade. A survey of the cytological literature (Stace, Armstrong, and James, 1993 ) showed that the chromosome numbers for the Citroideae were taxonomically informative, largely constant, and in agreement with the classification of Swingle and Reece (1967) . Studies of alkaloids (Waterman, 1975 ) and flavonoids (Grieve and Scora, 1980 ) also strongly support the conclusions of Swingle and Reece. Because Luvunga was not included in any of these studies, its position cannot be assessed. The anomalous pairing in our analyses of Luvunga with Zanthoxylum of Rutoideae is unexplained. With this single exception, the Citroideae appear to be a well-defined, natural group.

Flindersioideae
Our analysis based on rbcL data indicated that this subfamily is not monophyletic; Flindersia appears to be more closely related to Lunasia (Rutoideae), whereas Chloroxylon is sister to Ruta (Rutoideae). As stated in the introduction, Flindersia and Chloroxylon have been placed in Meliaceae (in the tribe Cedreleae) because of similarities in fruits, in Rutaceae because of the presence of schizogenous cavities in the leaves, cotyledons, and perianth or in a separate family because of their overall intermediate nature. Pollen morphology led Erdtman (1986) to recognize Chloroxylon and Flindersia as rutaceous rather than meliaceous. Wood anatomical studies (Harrar, 1937 ) indicated placement of Flindersia intermediate between Rutaceae and Meliaceae. The secondary xylem of Chloroxylon also possesses features of both Meliaceae and Rutaceae (Pennington and Styles, 1975 ). Flindersia was retained in Rutaceae by Hartley (1969) largely on the basis of chemical evidence of alkaloids, coumarins, and flavonoids compiled by Price (1963) and Ritchie (1964) . A more recent phytochemical study (Da Silva et al., 1988 ) also showed that Flindersia and Chloroxylon typically contain rutaceous coumarins and anthranilic-derived alkaloids, which are absent from Meliaceae. Our molecular data, too, confirm that these two genera are not members of Meliaceae and belong in Rutaceae but indicate that they are not members of a single distinct subfamily. Additional information is needed to confirm the subfamilial relationships. The seemingly unlikely pairing of the arborescent Chloroxylon with the more or less herbaceous Ruta requires closer examination.

Spathelioideae and Dictyolomatoideae
The recognition of these two subfamilies, by any circumscription, is untenable, according to our analysis. There is a consistent strongly supported pairing of Dictyoloma and Spathelia within a moderately supported clade comprising also Cneorum, Ptaeroxylon, and Harrisonia. As discussed above, the phytochemical evidence of a relationship among Spathelia, Harrisonia, Cneorum, and Ptaeroxylon is quite strong, but the phytochemically depauperate nature of Dictyoloma (Da Silva et al., 1988 ) makes it impossible to assess its relationships on the basis of chemical data. In the rbcL analysis of Fernando, Gadek, and Quinn (1995) , Harrisonia was excluded from Simaroubaceae, paired with Cneorum, and placed in a clade with Rutaceae. Although little comparative morphological or anatomical study of this group of taxa has been completed, both molecular and phytochemical data strongly support their association.

Rutoideae and Toddalioideae
Engler's delimitation of Toddalioideae from Rutoideae by the presence in the former of an indehiscent fruit is not supported by most morphological, chemical, and molecular data. Revisionary studies by Hartley (1974 , 1981 , 1982) indicated that genera of Toddalioideae with syncarpous, drupaceous fruits (e.g., Acronychia, Toddalia, and Phellodendron) are more closely related to genera of Rutoideae with apocarpous or subapocarpous follicular fruits (e.g., Melicope, Zanthoxylum, and Tetradium). Boesewinkel's (1980) study of ovule and seed-coat development in Rutales found little distinction between the two subfamilies. A survey of chromosome numbers in Rutaceae (Stace, Armstrong, and James, 1993 ) showed similarities in base number and cytoevolutionary patterns in tribes Zanthoxyleae and Toddalieae. Biochemical studies (Fish and Waterman, 1973 ; Da Silva et al., 1988 ) provided strong evidence of phylogenetic links between Rutoideae and Toddalioideae. Our analysis of molecular data provides further evidence that these two subfamilies are untenable and supports Thorne's (1992) placement of Toddalioideae in Rutoideae.

Conclusions
Our analyses show the following: (1) Simaroubaceae and Meliaceae are the closest relatives of Rutaceae. (2) Citroideae, with the exception of Luvunga, are monophyletic. (3) Flindersioideae belong in Rutaceae, but are not monophyletic; the two genera appear to be related to different genera in the Rutoideae. (4) Dictyolomatoideae and Spathelioideae, each monogeneric, are by default monophyletic, but both are part of a clade that includes Harrisonia, Cneorum, and Ptaeroxylon. We recommend the inclusion of all five genera in a recircumscribed Spathelioideae (oldest named subfamily of Rutaceae). (5) Toddalioideae should be merged with Rutoideae. (6) Rutaceae, as presently circumscribed, are paraphyletic; monophyly is achieved by the inclusion of Harrisonia, Cneorum, and Ptaeroxylon in a recircumscribed Spathelioideae.

The subfamilies of Rutaceae also need to be redefined. Before most of the taxonomic alignments can be proposed, studies using more genera, data from faster evolving DNA sequences, and anatomical, morphological, and biochemical characters are needed to resolve the subfamilial affinities of the problematic genera and the circumscriptions and generic relationships within the tribes. The information contributed here for familial and subfamilial relationships provides a framework for future studies.

Note added in proof: Just prior to receiving page proofs, we discovered upon a critical evaluation of the voucher specimen that the material identified in this paper as Luvunga eleutherandra is instead a species of Zanthoxylum, thus rendering Citroideae monophyletic instead of polyphyletic, as was reported in the Results.


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Appendix Species used in rbcL and atpB sequence analysis, arranged by family, by subfamily if applicable, and, in the Rutaceae, also by tribe and subtribe. The infrafamilial groups of all subfamilies of the Rutaceae but Citroideae are those recognized by Engler (1931); those of the Citroideae are those recognized by Swingle and Reece (1967). Estimates of the numbers of genera and species in each group are given in parentheses.

 

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Appendix Continued

 

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Appendix Continued

 


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Fig. 3. One of the (randomly selected) 416 most parsimonious trees based on the combined data sets from rbcL and atpB sequences from 46 taxa. Numbers above branches are base substitutions. Numbers below branches are bootstrap percentages; nodes lacking bootstrap values received <50% bootstrap support. Most parsimonious trees have 1218 steps with a CI of 0.63 and RI of 0.72. Groups not present in the strict consensus tree are marked with arrowheads

 

    FOOTNOTES
 
1 The authors thank Anette de Bruijn and Nicos A. Katerelos for technical guidance; Vincent Savolainen, Teresa Terrazas, and Chris Quinn for use of unpublished sequences of Poncirus trifoliatus (atpB), Pistacia sp. (rbcL) and Ptaeroxylon obliquum (rbcL), respectively; and T. G. Hartley, J. Pirani, C. J. Quinn, W. A. Anderson, the Bogor Botanical Gardens, and the Australian National Botanic Gardens for material used in this study. Back

5 Author for correspondence, current address: Auburn University, 101 Life Science Building, Auburn, AL 36849. Back


    LITERATURE CITED
 TOP
 ABSTRACT
 INTRODUCTION
 MATERIALS AND METHODS
 RESULTS
 DISCUSSION
 LITERATURE CITED
 
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