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Masayuki Maki - One of the best experts on this subject based on the ideXlab platform.
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development and characterization of est ssr markers in an east asian temperate plant genus diabelia Caprifoliaceae
Plant Species Biology, 2017Co-Authors: Kunkun Zhao, Sven Landrein, Huafeng Wang, Shota Sakaguchi, Yuji Isagi, Masayuki MakiAbstract:A set of expressed sequence tag (EST) simple sequence repeat (SSR) markers were developed and characterized using next-generation sequencing technology for the genus Diabelia (Caprifoliaceae). De novo assembly of RNA-seq reads resulted in 58 669 contigs with the N50 length of 1211 bp. A total of 2746 contigs were identified to harbor SSR motifs, of which 48 primer pairs were designed and 11 were shown to be polymorphic across three morphospecies of Diabelia. When evaluated with 30 individuals, the number of alleles per locus ranged from 2 to 11 and the expected heterozygosity varied from 0.399 to 0.873, respectively. Distance-based clustering indicated that the EST-SSR markers can provide sufficient power to distinguish the three species (or populations). These markers will be useful for evaluating the range-wide genetic diversity of each species and examining genetic divergence and gene flow between the three species.
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Development and characterization of EST‐SSR markers in an East Asian temperate plant genus Diabelia (Caprifoliaceae)
Plant Species Biology, 2016Co-Authors: Kunkun Zhao, Sven Landrein, Huafeng Wang, Shota Sakaguchi, Yuji Isagi, Masayuki MakiAbstract:A set of expressed sequence tag (EST) simple sequence repeat (SSR) markers were developed and characterized using next-generation sequencing technology for the genus Diabelia (Caprifoliaceae). De novo assembly of RNA-seq reads resulted in 58 669 contigs with the N50 length of 1211 bp. A total of 2746 contigs were identified to harbor SSR motifs, of which 48 primer pairs were designed and 11 were shown to be polymorphic across three morphospecies of Diabelia. When evaluated with 30 individuals, the number of alleles per locus ranged from 2 to 11 and the expected heterozygosity varied from 0.399 to 0.873, respectively. Distance-based clustering indicated that the EST-SSR markers can provide sufficient power to distinguish the three species (or populations). These markers will be useful for evaluating the range-wide genetic diversity of each species and examining genetic divergence and gene flow between the three species.
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isolation and characterization of microsatellite loci from weigela coraeensis Caprifoliaceae
Molecular Ecology Resources, 2008Co-Authors: Takayuki Yamada, Masayuki MakiAbstract:Weigela coraeensis var. coraeensis is a deciduous shrub species distributed in Japan on the mainland, Honshu, whereas its variety W. coraeensis var. fragrans is endemic to the Izu Islands located south of Honshu. We isolated eight polymorphic microsatellite loci from the species and characterized these loci for 20 individuals from a population in Honshu. The number of alleles per locus ranged from 7 to 15 and the observed and expected heterozygosities ranged from 0.60 to 0.90 and from 0.65 to 0.90, respectively. These eight polymorphic microsatellites will be useful for examining intraspecific genetic differentiation in W. coraeensis.
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the intersectional hybrid between weigela hortensis and w maximowiczii Caprifoliaceae
Botanical Journal of the Linnean Society, 2002Co-Authors: Jun Yokoyama, Tatsuya Fukuda, Akiko Yokoyama, Masayuki MakiAbstract:Morphologically intermediate plants between Weigela hortensis (Siebold & Zucc.) K.Koch and W. maximowiczii (S.Moore) Rehder have been found in Miyagi and Yamagata Pref., northern Japan. Quantitative character analyses of flowers, pollen stainability and molecular analyses indicated that the intermediate plants were hybrids of those two species. This is the first record of an intersectional hybrid with W. maximowiczii (sect. Weigelastrum) as one of the parent species. The morphological differences among hybrid individuals imply the possibility of backcrosses or formation of second or later generations of hybrids, although those may be quite rare because of a low frequency of viable pollen grains. Causes of hybridization between two distantly-related species in Weigela are discussed. © 2002 The Linnean Society of London, Botanical Journal of the Linnean Society, 2002, 138, 369–380.
Sven Landrein - One of the best experts on this subject based on the ideXlab platform.
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plastid phylogenomic insights into the evolution of the Caprifoliaceae s l dipsacales
Molecular Phylogenetics and Evolution, 2020Co-Authors: Hongxin Wang, Michael J Moore, Sven Landrein, Huafeng WangAbstract:Abstract The family Caprifoliaceae s.l. is an asterid angiosperm clade of ca. 960 species, most of which are distributed in temperate regions of the northern hemisphere. Recent studies show that the family comprises seven major clades: Linnaeoideae, Zabelia, Morinoideae, Dipsacoideae, Valerianoideae, Caprifolioideae, and Diervilloideae. However, its phylogeny at the subfamily or genus level remains controversial, and the backbone relationships among subfamilies are incompletely resolved. In this study, we utilized complete plastome sequencing to resolve the relationships among the subfamilies of the Caprifoliaceae s.l. and clarify several long-standing controversies. We generated and analyzed plastomes of 48 accessions of Caprifoliaceae s.l., representing 44 species, six subfamilies and one genus. Combined with available Caprifoliaceae s.l. plastomes on GenBank and 12 outgroups, we analyzed a final dataset of 68 accessions. Genome structure was strongly conserved in general, although the boundaries between the Inverted Repeat were found to have contracted across Caprifoliaceae s.l. to exclude rpl2, rps19, and ycf1, all or parts of which are typically present in the IR of most angiosperms. The ndhF gene was found to have been inverted in all plastomes of Adoxaceae. Phylogenomic analyses of 68 complete plastomes yielded a highly supported topology that strongly supported the monophyly of Zabelia and its sister relationship to Morinoideae. Moreover, a clade of Valerianoideae + Dipsacoideae was recovered as sister to a clade of Linnaeoideae + Zabelia + Morinoideae clade, and Heptacodium was sister to remaining Caprifolioideae. The Diervilloideae and Caprifolioideae were successively sister to all other Caprifoliaceae s.l. Major lineages of Caprifoliaceae s.l. were estimated to have diverged from the Upper Cretaceous to the Eocene (50–100 Ma), whereas within-genus diversification was dated to the Oligocene and later, concomitant with global cooling and drying. Our results demonstrate the power of plastid phylogenomics in improving estimates of phylogeny among genera and subfamilies, and provide new insights into plastome evolution across Caprifoliaceae s.l.
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A monograph of Caprifoliaceae: Linnaeeae
Kew Bulletin, 2019Co-Authors: Sven Landrein, Aljos FarjonAbstract:Tribe Linnaeeae is a diverse group disjunctly distributed in the northern hemisphere between China and Japan and Mexico. The tribe consists of shrubs with showy flowers that are important in the horticultural industry. We present a detailed monograph of tribe Linnaeeae that includes descriptions, identification keys, botanical plates with line drawings and photographs, distribution maps, morphometric analysis of key characters, and discussion on evolution, cultivation and conservation. Twenty species, as well as five new varieties and four new forms, are recognised in six genera. Forty heterotypic names (not including the 218 names for Linnaea borealis) are listed as synonyms. 1,973 specimens were studied and databased from 13 herbaria (A, BM, CAS, E, GZAC, IBSC, KUN, KYO, MAK, PE, TNS, TOFO and TI). The Kolkwitzia–Dipelta–Diabelia clade radiated from the Qinling Mountain Range of China and is disjunctly distributed in Japan. The Linnaea–Vesalea clade may have migrated through the Bering Land Bridge and radiated along the Sierra Madre Oriental in Mexico. Abelia, which is most diverse in China, evolved in relation to the formation of the Qinghai Tibetan Plateau.
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development and characterization of est ssr markers in an east asian temperate plant genus diabelia Caprifoliaceae
Plant Species Biology, 2017Co-Authors: Kunkun Zhao, Sven Landrein, Huafeng Wang, Shota Sakaguchi, Yuji Isagi, Masayuki MakiAbstract:A set of expressed sequence tag (EST) simple sequence repeat (SSR) markers were developed and characterized using next-generation sequencing technology for the genus Diabelia (Caprifoliaceae). De novo assembly of RNA-seq reads resulted in 58 669 contigs with the N50 length of 1211 bp. A total of 2746 contigs were identified to harbor SSR motifs, of which 48 primer pairs were designed and 11 were shown to be polymorphic across three morphospecies of Diabelia. When evaluated with 30 individuals, the number of alleles per locus ranged from 2 to 11 and the expected heterozygosity varied from 0.399 to 0.873, respectively. Distance-based clustering indicated that the EST-SSR markers can provide sufficient power to distinguish the three species (or populations). These markers will be useful for evaluating the range-wide genetic diversity of each species and examining genetic divergence and gene flow between the three species.
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Development and characterization of EST‐SSR markers in an East Asian temperate plant genus Diabelia (Caprifoliaceae)
Plant Species Biology, 2016Co-Authors: Kunkun Zhao, Sven Landrein, Huafeng Wang, Shota Sakaguchi, Yuji Isagi, Masayuki MakiAbstract:A set of expressed sequence tag (EST) simple sequence repeat (SSR) markers were developed and characterized using next-generation sequencing technology for the genus Diabelia (Caprifoliaceae). De novo assembly of RNA-seq reads resulted in 58 669 contigs with the N50 length of 1211 bp. A total of 2746 contigs were identified to harbor SSR motifs, of which 48 primer pairs were designed and 11 were shown to be polymorphic across three morphospecies of Diabelia. When evaluated with 30 individuals, the number of alleles per locus ranged from 2 to 11 and the expected heterozygosity varied from 0.399 to 0.873, respectively. Distance-based clustering indicated that the EST-SSR markers can provide sufficient power to distinguish the three species (or populations). These markers will be useful for evaluating the range-wide genetic diversity of each species and examining genetic divergence and gene flow between the three species.
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diabelia a new genus of tribe linnaeeae subtribe linnaeinae Caprifoliaceae
Phytotaxa, 2013Co-Authors: Sven LandreinAbstract:Recent molecular studies (to be published in a separate paper), have shown that the tribe Linnaeeae subtribe Linnaeinae (Caprifoliaceae s.l .) is composed of six monophyletic clades. These correspond to the genera Dipelta , Kolkwitzia , Linnaea and Vesalea , but Abelia appears polyphyletic. To resolve Abelia as monophyletic, and in order to keep most names currently in use within the horticultural and botanical community, the new genus Diabelia is proposed here to include the three species previously placed in Abelia ser. Serratae . Diabelia mainly differs from Abelia by its inflorescence of paired flowers appearing at the end of short shoots. A key to the genera is also presented. Additionally a new combination in Vesalea is validated here.
Huafeng Wang - One of the best experts on this subject based on the ideXlab platform.
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plastid phylogenomic insights into the evolution of the Caprifoliaceae s l dipsacales
Molecular Phylogenetics and Evolution, 2020Co-Authors: Hongxin Wang, Michael J Moore, Sven Landrein, Huafeng WangAbstract:Abstract The family Caprifoliaceae s.l. is an asterid angiosperm clade of ca. 960 species, most of which are distributed in temperate regions of the northern hemisphere. Recent studies show that the family comprises seven major clades: Linnaeoideae, Zabelia, Morinoideae, Dipsacoideae, Valerianoideae, Caprifolioideae, and Diervilloideae. However, its phylogeny at the subfamily or genus level remains controversial, and the backbone relationships among subfamilies are incompletely resolved. In this study, we utilized complete plastome sequencing to resolve the relationships among the subfamilies of the Caprifoliaceae s.l. and clarify several long-standing controversies. We generated and analyzed plastomes of 48 accessions of Caprifoliaceae s.l., representing 44 species, six subfamilies and one genus. Combined with available Caprifoliaceae s.l. plastomes on GenBank and 12 outgroups, we analyzed a final dataset of 68 accessions. Genome structure was strongly conserved in general, although the boundaries between the Inverted Repeat were found to have contracted across Caprifoliaceae s.l. to exclude rpl2, rps19, and ycf1, all or parts of which are typically present in the IR of most angiosperms. The ndhF gene was found to have been inverted in all plastomes of Adoxaceae. Phylogenomic analyses of 68 complete plastomes yielded a highly supported topology that strongly supported the monophyly of Zabelia and its sister relationship to Morinoideae. Moreover, a clade of Valerianoideae + Dipsacoideae was recovered as sister to a clade of Linnaeoideae + Zabelia + Morinoideae clade, and Heptacodium was sister to remaining Caprifolioideae. The Diervilloideae and Caprifolioideae were successively sister to all other Caprifoliaceae s.l. Major lineages of Caprifoliaceae s.l. were estimated to have diverged from the Upper Cretaceous to the Eocene (50–100 Ma), whereas within-genus diversification was dated to the Oligocene and later, concomitant with global cooling and drying. Our results demonstrate the power of plastid phylogenomics in improving estimates of phylogeny among genera and subfamilies, and provide new insights into plastome evolution across Caprifoliaceae s.l.
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development and characterization of est ssr markers in an east asian temperate plant genus diabelia Caprifoliaceae
Plant Species Biology, 2017Co-Authors: Kunkun Zhao, Sven Landrein, Huafeng Wang, Shota Sakaguchi, Yuji Isagi, Masayuki MakiAbstract:A set of expressed sequence tag (EST) simple sequence repeat (SSR) markers were developed and characterized using next-generation sequencing technology for the genus Diabelia (Caprifoliaceae). De novo assembly of RNA-seq reads resulted in 58 669 contigs with the N50 length of 1211 bp. A total of 2746 contigs were identified to harbor SSR motifs, of which 48 primer pairs were designed and 11 were shown to be polymorphic across three morphospecies of Diabelia. When evaluated with 30 individuals, the number of alleles per locus ranged from 2 to 11 and the expected heterozygosity varied from 0.399 to 0.873, respectively. Distance-based clustering indicated that the EST-SSR markers can provide sufficient power to distinguish the three species (or populations). These markers will be useful for evaluating the range-wide genetic diversity of each species and examining genetic divergence and gene flow between the three species.
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Development and characterization of EST‐SSR markers in an East Asian temperate plant genus Diabelia (Caprifoliaceae)
Plant Species Biology, 2016Co-Authors: Kunkun Zhao, Sven Landrein, Huafeng Wang, Shota Sakaguchi, Yuji Isagi, Masayuki MakiAbstract:A set of expressed sequence tag (EST) simple sequence repeat (SSR) markers were developed and characterized using next-generation sequencing technology for the genus Diabelia (Caprifoliaceae). De novo assembly of RNA-seq reads resulted in 58 669 contigs with the N50 length of 1211 bp. A total of 2746 contigs were identified to harbor SSR motifs, of which 48 primer pairs were designed and 11 were shown to be polymorphic across three morphospecies of Diabelia. When evaluated with 30 individuals, the number of alleles per locus ranged from 2 to 11 and the expected heterozygosity varied from 0.399 to 0.873, respectively. Distance-based clustering indicated that the EST-SSR markers can provide sufficient power to distinguish the three species (or populations). These markers will be useful for evaluating the range-wide genetic diversity of each species and examining genetic divergence and gene flow between the three species.
James J Clarkson - One of the best experts on this subject based on the ideXlab platform.
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abelia and relatives phylogenetics of linnaeeae dipsacales Caprifoliaceae s l and a new interpretation of their inflorescence morphology
Botanical Journal of the Linnean Society, 2012Co-Authors: Sven Landrein, Gerhard Prenner, Mark W Chase, James J ClarksonAbstract:We present a phylogenetic analysis with sampling from all taxonomic groups in the tribe Linnaeeae (Caprifoliaceae) and interpret the results in relation to inflorescence morphology. Characters from inflorescences are shown to be highly informative for the classification of Linnaeeae; however, they have been neglected in recent studies, possibly as a result of confusion between descriptive and typological views. The phylogenetic relationships of 27 taxa are investigated using the nuclear ribosomal internal transcribed spacer (ITS) region and multiple plastid regions (rbcL, ndhF, matK, trnL intron and trnL-F spacer). Two additional plastid regions, atpB-rbcL and the trnK intron, are also investigated for a subset of taxa. Results indicate that several taxonomic groups, including sections and genera, are not monophyletic. Several groups are supported, e.g. Zabelia, Vesalea and Abelia section Abelia, but Abelia series Serratae is not supported. A new hypothesis for inflorescence evolution in Dipsacales is proposed, and the distinctiveness of Abelia series Serratae is reinforced. The position of tribe Zabeliinae remains unclear within Caprifoliaceae. © 2012 The Linnean Society of London, Botanical Journal of the Linnean Society, 2012, 169, 692–713.
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Abelia and relatives: phylogenetics of Linnaeeae (Dipsacales–Caprifoliaceae s.l.) and a new interpretation of their inflorescence morphology
Botanical Journal of the Linnean Society, 2012Co-Authors: Sven Landrein, Gerhard Prenner, Mark W Chase, James J ClarksonAbstract:We present a phylogenetic analysis with sampling from all taxonomic groups in the tribe Linnaeeae (Caprifoliaceae) and interpret the results in relation to inflorescence morphology. Characters from inflorescences are shown to be highly informative for the classification of Linnaeeae; however, they have been neglected in recent studies, possibly as a result of confusion between descriptive and typological views. The phylogenetic relationships of 27 taxa are investigated using the nuclear ribosomal internal transcribed spacer (ITS) region and multiple plastid regions (rbcL, ndhF, matK, trnL intron and trnL-F spacer). Two additional plastid regions, atpB-rbcL and the trnK intron, are also investigated for a subset of taxa. Results indicate that several taxonomic groups, including sections and genera, are not monophyletic. Several groups are supported, e.g. Zabelia, Vesalea and Abelia section Abelia, but Abelia series Serratae is not supported. A new hypothesis for inflorescence evolution in Dipsacales is proposed, and the distinctiveness of Abelia series Serratae is reinforced. The position of tribe Zabeliinae remains unclear within Caprifoliaceae. © 2012 The Linnean Society of London, Botanical Journal of the Linnean Society, 2012, 169, 692–713.
Michael J Donoghue - One of the best experts on this subject based on the ideXlab platform.
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diversification of cycloidea expression in the evolution of bilateral flower symmetry in Caprifoliaceae and lonicera dipsacales
Annals of Botany, 2011Co-Authors: Dianella G Howarth, Tiago Martins, Edward Chimney, Michael J DonoghueAbstract:BACKGROUND AND AIMS: The expression of floral symmetry genes is examined in the CYCLOIDEA lineage following duplication, and these are linked to changes in flower morphology. The study focuses on Dipsacales, comparing DipsCYC2 gene expression in Viburnum (radially symmetrical Adoxaceae) to members of early-diverging lineages of the bilaterally symmetrical Caprifoliaceae (Diervilla and Lonicera). METHODS: Floral tissue from six species, which included dorsal, lateral and ventral regions of the corolla, was dissected. RNA was extracted from these tissues and each copy of DipsCYC2 was amplified with reverse transcriptase PCR. KEY RESULTS: Members of DipsCYC2 were expressed across the corolla in the radially symmetrical Viburnum plicatum. A shift to bilaterally symmetrical flowers at the base of the Caprifoliaceae was accompanied by a duplication of the DipsCYC2 gene, resulting in DipsCYC2A and DipsCYC2B, and by loss of expression of both of these copies in the ventral petal. In Lonicera (Caprifolieae), there is a shift from flowers with two dorsally and three ventrally oriented corolla lobes to a clear differentiation of dorsal, lateral and ventral lobes. This shift entailed a decoupling of expression of DipsCYC2A and DipsCYC2B; DipsCYC2B continues to be expressed in the dorsal and lateral lobes, while DipsCYC2A expression is restricted to just the two dorsal lobes. A reversion to more radially symmetrical flowers within Lonicera was accompanied by a re-expansion of expression of both DipsCYC2A and DipsCYC2B. CONCLUSIONS: The transition to bilateral symmetry in Caprifoliaceae involved: (a) duplication of an ancestral DipsCYC2 gene; (b) the loss of expression of both of these copies in the ventral petal; and (c) changes in the zone of expression, with one copy continuing to be expressed across the dorsal and lateral petals, and the other copy becoming restricted in expression to the dorsal corolla lobes.
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part of a special issue on evolution and development diversification of cycloidea expression in the evolution of bilateral flower symmetry in Caprifoliaceae and lonicera dipsacales
2011Co-Authors: Dianella G Howarth, Michael J Donoghue, Tiago Martins, Edward Chimney, Utopia PkwyAbstract:† Background and Aims The expression of floral symmetry genes is examined in the CYCLOIDEA lineage following duplication, and these are linked to changes in flower morphology. The study focuses on Dipsacales, comparing DipsCYC2 gene expression in Viburnum (radially symmetrical Adoxaceae) to members of early-diverging lineages of the bilaterally symmetrical Caprifoliaceae (Diervilla and Lonicera). † Methods Floral tissue from six species, which included dorsal, lateral and ventral regions of the corolla, was dissected. RNA was extracted from these tissues and each copy of DipsCYC2 was amplified with reverse transcriptase PCR. † Key Results Members of DipsCYC2 were expressed across the corolla in the radially symmetrical Viburnum plicatum. A shift to bilaterally symmetrical flowers at the base of the Caprifoliaceae was accompanied by a duplication of the DipsCYC2 gene, resulting in DipsCYC2A and DipsCYC2B, and by loss of expression of both of these copies in the ventral petal. In Lonicera (Caprifolieae), there is a shift from flowers with two dorsally and three ventrally oriented corolla lobes to a clear differentiation of dorsal, lateral and ventral lobes. This shift entailed a decoupling of expression of DipsCYC2A and DipsCYC2B; DipsCYC2B continues to be expressed in the dorsal and lateral lobes, while DipsCYC2A expression is restricted to just the two dorsal lobes. A reversion to more radially symmetrical flowers within Lonicera was accompanied by a re-expansion of expression of both DipsCYC2A and DipsCYC2B. † Conclusions The transition to bilateral symmetry in Caprifoliaceae involved: (a) duplication of an ancestral DipsCYC2 gene; (b) the loss of expression of both of these copies in the ventral petal; and (c) changes in the zone of expression, with one copy continuing to be expressed across the dorsal and lateral petals, and the other copy becoming restricted in expression to the dorsal corolla lobes.
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winged fruits of linnaeeae Caprifoliaceae in the tertiary of western north america diplodipelta gen nov
International Journal of Plant Sciences, 1995Co-Authors: Steven R Manchester, Michael J DonoghueAbstract:Recent phylogenetic analyses of the Caprifoliaceae and related families have paved the way for critical study and interpretation of the fossil record. A new extinct genus, Diplodipelta, is established on the basis of winged fruits from the Eocene, Oligocene, and Miocene of western North America, with two species: Diplodipelta reniptera (Becker) comb. nov. and D. miocenica (Berry) comb. nov. Although formerly attributed to Ptelea and Dodonaea, detailed comparative studies demonstrate that the fossils actually represent the Caprifoliaceae, tribe Linnaeeae, on the basis of elongate, indehiscent, longitudinally ribbed fruits with a sterile apical neck and persistent, epigynous calyces, and "supernumerary bracts." The samaroid dispersal units resemble those of extant Dipelta because the bracts are enlarged into wings that function in wind dispersal. However, Diplodipelta differs from Dipelta by the presence of a pair of fruits, rather than just one fruit, per dispersal unit, by the adnation of lateral wings to...
