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Rosabelle Samuel - One of the best experts on this subject based on the ideXlab platform.
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Systematics and evolution of the Old World Ebenaceae, a review with emphasis on the large genus Diospyros and its radiation in New Caledonia
Botanical Journal of the Linnean Society, 2019Co-Authors: Rosabelle Samuel, Jérôme Munzinger, Sutee Duangjai, Michael H J Barfuss, Barbara Turner, Ovidiu Paun, Mark ChaseAbstract:In this review article, we provide an overview of the status of research on Old World Ebenaceae with an emphasis on the large genus Diospyros. The well-supported phylogenetic tree obtained from nucleotide sequences of multiple regions of plastid genome gave clear insights into the subfamilial classification of Ebenaceae. It supported inclusion of previously recognized genera such as Cargillia, Gunisanthus, Maba, Macreightia and Tetraclis in Diospyros. Endemic Diospyros spp. of New Caledonia have multiple origins. One of these clades has c. 21 species that are morphologically distinct and occupy different ecological niches, but they exhibit low genetic variation, leading to a lack of phylogenetic resolution. Analyses of whole plastid genome sequences did not greatly increase resolution or support for results of our previous plastid analyses. Geographical clustering of the individuals against a background of lower sequence divergence of the whole plastid genome could be due to transfer of plastid genomes during hybridization and introgression following secondary contact. However, > 8400 filtered single nucleotide polymorphisms (SNPs) from restriction site associated DNA sequencing (RADseq) confirmed species circumscriptions for this clade and produced well-supported phylogenetic relationships, pointing to an early regional clustering among populations and species. This supported allopatric speciation with respect to macrohabitat (i.e. climatic conditions) having had a role in the initial differentiation in the group. A later, more rapid radiation involved divergence with respect to microhabitat (e.g. soil preference). Although chromosome counts indicate that Diospyros spp. are consistently diploids with 2n = 30, extensive variation in genome size has been observed, which is due to an increase of repeat elements, including LTR/gypsy. In Ebenaceae, pollen is heterogeneous, and palynological synapomorphies are traced at different taxonomic levels. Several new Diospyros spp. have recently been identified and documented from India, Thailand, China, Africa and New Caledonia. Taxonomic revisions have been completed for the Australian species, and synonyms are reported for some New Caledonian Diospyros spp.
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molecular phylogenetics of new caledonian diospyros Ebenaceae using plastid and nuclear markers
Molecular Phylogenetics and Evolution, 2013Co-Authors: Barbara Turner, Jérôme Munzinger, Sutee Duangjai, Michael H J Barfuss, Mark W Chase, Eva M Temsch, Reinhold Stockenhuber, Rosabelle SamuelAbstract:To clarify phylogenetic relationships among New Caledonian species of Diospyros, sequences of four plastid markers (atpB, rbcL, trnK–matK and trnS–trnG) and two low-copy nuclear markers (ncpGS and PHYA) were analysed. New Caledonian Diospyros species fall into three clades, two of which have only a few members (1 or 5 species); the third has 21 closely related species for which relationships among species have been mostly unresolved in a previous study. Although species of the third group (NC clade III) are morphologically distinct and largely occupy different habitats, they exhibit little molecular variability. Diospyros vieillardii is sister to the rest of the NC clade III, followed by D. umbrosa and D. flavocarpa, which are sister to the rest of this clade. Species from coastal habitats of western Grande Terre (D. cherrieri and D. veillonii) and some found on coralline substrates (D. calciphila and D. inexplorata) form two well-supported subgroups. The species of NC clade III have significantly larger genomes than found in diploid species of Diospyros from other parts of the world, but they all appear to be diploids. By applying a molecular clock, we infer that the ancestor of the NC clade III arrived in New Caledonia around 9 million years ago. The oldest species are around 7 million years old and the youngest ones probably much less than 1 million years.
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A multi-locus plastid phylogenetic analysis of the pantropical genus Diospyros (Ebenaceae), with an emphasis on the radiation and biogeographic origins of the New Caledonian endemic species.
Molecular Phylogenetics and Evolution, 2009Co-Authors: Sutee Duangjai, Jérôme Munzinger, Rosabelle Samuel, Félix Forest, Bruno Wallnöfer, Michael H J Barfuss, Gunter Fischer, Mark W ChaseAbstract:We aimed to clarify phylogenetic relationships within the pantropical genus Diospyros (Ebenaceae sensulato), and ascertain biogeographical patterns in the New Caledonian endemic species. We used DNA sequences from eight plastid regions (rbcL, atpB, matK, ndhF, trnK intron, trnL intron, trnL-trnF spacer, and trnS-trnG spacer) and included 149 accessions representing 119 Diospyros species in our analysis. Results from this study confirmed the monophyly of Diospyros with good support and provided a clearer picture of the relationships within the genus than in previous studies. Evidence from phylogenetic analyses suggests that Diospyros colonized New Caledonia multiple times. The four lineages of Diospyros in New Caledonia also differ in their degree of diversification. The molecular data indicate that one lineage is paleoendemic and derived from an ancient Australian species. The other three lineages are more closely related to several Southeast Asian species; two of them are neoendemics, and one has radiated rapidly and recently.
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generic delimitation and relationships in Ebenaceae sensu lato evidence from six plastid dna regions
American Journal of Botany, 2006Co-Authors: Sutee Duangjai, Jérôme Munzinger, Rosabelle Samuel, Bruno Wallnöfer, Mark W ChaseAbstract:Phylogenetic relationships of the pantropical family Ebenaceae s.l. were investigated using plastid DNA sequence data from six regions: atpB, matK, ndhF, trnK intron, trnL intron, and trnL-trnF spacer. Sampling included representatives of all currently recognized genera of Ebenaceae, Diospyros, Euclea, and Lissocarpa, and nearly all taxa that were previously recognized at the generic level, e.g., Cargillia, Gunisanthus, Maba, Macreightia, Royena, and Tetraclis. Our results strongly support monophyly of Ebenaceae s.l. and demonstrate that the previous infrafamilar classifications of the family do not circumscribe monophyletic groups. A new infrafamilial classification based on a phylogenetic approach is proposed here and consists of two subfamilies, Lissocarpoideae and Ebenoideae, and four genera, Lissocarpa, Euclea, Royena, and Diospyros. Relationships and potential synapomorphic characters are discussed and summarized. This study supports a western Gondwanan origin of family and indicates that both vicariant and long-distance dispersal events played an important role in attaining current distributions.
Zhengrong Luo - One of the best experts on this subject based on the ideXlab platform.
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Number of Species and Geographical Distribution of Diospyros L. (Ebenaceae) in China
Elsevier, 2019Co-Authors: Donglan Tang, Qinglin Zhang, Dayong Guo, Zhengrong LuoAbstract:Diospyros L. is the largest, most widely distributed, and economically important genus of the family Ebenaceae. However, various researchers disagree on the number of species and geographical distribution of Diospyros in China. For the purpose of providing a scientific basis for the effective protection and rational use of Diospyros, the present study involved a comprehensive review of the literature, electronic databases, and herbaria as well as field investigations. The results showed as the following. (1) While 174 scientific names have been published for various taxa of Diospyros in China, by screening and excluding synonyms, 65 species names were considered acceptable; these account for about 12% of the total species of Diospyros globally. (2) A review of herbarium specimens documented that Diospyros occurs in 28 administrative regions of China, more than the literature records. Species richness decreases from south to north in China while Guangxi, Yunnan, Guangdong, and Hainan have the greatest number of species. (3) Among the 65 relatively reliable Diospyros species, 45 species are endemic to China and 18 species are stenochoric. Some species may have become extinct as a result of environmental degradation and the status of some germplasm remain unresolved. In brief, Chinese Diospyros includes abundant, China-specific, and widely distributed features. Nevertheless, comprehensive species delimitation and the analysis of phylogenetic relationships will still require further study. Keywords: Diospyros L., Ebenaceae, species number, geographic distributio
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Number of Species and Geographical Distribution of Diospyros L. (Ebenaceae) in China
Horticultural Plant Journal, 2019Co-Authors: Donglan Tang, Qinglin Zhang, Guo Dayong, Zhengrong LuoAbstract:Abstract Diospyros L. is the largest, most widely distributed, and economically important genus of the family Ebenaceae. However, various researchers disagree on the number of species and geographical distribution of Diospyros in China. For the purpose of providing a scientific basis for the effective protection and rational use of Diospyros, the present study involved a comprehensive review of the literature, electronic databases, and herbaria as well as field investigations. The results showed as the following. (1) While 174 scientific names have been published for various taxa of Diospyros in China, by screening and excluding synonyms, 65 species names were considered acceptable; these account for about 12% of the total species of Diospyros globally. (2) A review of herbarium specimens documented that Diospyros occurs in 28 administrative regions of China, more than the literature records. Species richness decreases from south to north in China while Guangxi, Yunnan, Guangdong, and Hainan have the greatest number of species. (3) Among the 65 relatively reliable Diospyros species, 45 species are endemic to China and 18 species are stenochoric. Some species may have become extinct as a result of environmental degradation and the status of some germplasm remain unresolved. In brief, Chinese Diospyros includes abundant, China-specific, and widely distributed features. Nevertheless, comprehensive species delimitation and the analysis of phylogenetic relationships will still require further study.
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discriminant analysis of jinzaoshi from persimmon diospyros kaki thunb Ebenaceae a comparative study conducted based on morphological as well as its and matk sequence analyses
Scientia Horticulturae, 2014Co-Authors: Donglan Tang, Qinglin Zhang, Yong Yang, Zhengrong LuoAbstract:Abstract “Jinzaoshi”, a persimmon-like tree mainly distributed in the southern part of Zhejiang Province (China), has long been accepted as a cultivar of Diospyros kaki Thunb., even though it remarkably differs from other cultivars or varieties. In this study, the key aspects of plant morphology and sequence variation in the internal transcribed spacer (ITS) region and maturase K (matK) gene of “Jinzaoshi” were compared with those of D. kaki and other related species to discriminate them. “Jinzaoshi” was morphologically distinguishable from the other Diospyros species on the basis of the features such as the presence of glandular hair on immature branchlets and leaves, joined styles, glabrous corolla ribs, pellicle-covered branches, and black glabrous winter buds. The DNA sequence analysis suggested that the variations between “Jinzaoshi” and the other Diospyros species were larger than the maximum intra-specific and minimum inter-specific genetic distances of the investigated species. A phylogenetic analysis showed that “Jinzaoshi” did not cluster uniformly with the other species. Therefore, we propose that “Jinzaoshi” does not belong to D. kaki and other related Diospyros species and might be a new species of Diospyros L. (Ebenaceae).
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comparison of four molecular markers for genetic analysis in diospyros l Ebenaceae
Plant Systematics and Evolution, 2009Co-Authors: Q L Zhang, Zhengrong LuoAbstract:Four molecular markers, including inter-retrotransposon amplified polymorphism (IRAP), retrotransposon-microsatellite amplified polymorphism (REMAP), sequence-specific amplified polymorphism (SSAP), and amplified fragment length polymorphism (AFLP), were compared in terms of their informativeness and efficiency for analysis of genetic relationships among 28 genotypes in the genus Diospyros. The results were as follows: (1) the highest level of detected polymorphism were observed for IRAP; (2) AFLP was the most efficient marker system due to the simultaneous detection of abundant polymorphism markers per single reaction; (3) the marker index (MI) value was lower for SSAP than for AFLP, but SSAP had a higher level of detected polymorphism than AFLP; (4) the correlation coefficients of similarity were statistically significant for all four marker systems; (5) the four molecular markers yielded similar phylogenetic trees. To our knowledge, this was the first detailed report of a comparison of performance among three retrotransposon-based molecular markers (IRAP, REMAP, SSAP) and the AFLP technique (DNA-based molecular marker) on a set of samples of Diospyros. The results provide guidance for future efficient use of these molecular methods in the genetic analysis of Diospyros.
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development of retrotransposon primers and their utilization for germplasm identification in diospyros spp Ebenaceae
Tree Genetics & Genomes, 2009Co-Authors: Qinglin Zhang, Zhengrong LuoAbstract:Retrotransposons play an important role in plant genetic instability and genome evolution. Retrotransposon-based molecular markers are valuable tools to reveal the behavior of retrotransposons in their host genome. In this study, suppression polymerase chain reaction was used, for the first time, to develop retrotransposon long terminal repeat (LTR) and polypurine tract (PPT) primers in Japanese persimmon (Diospyros kaki Thunb.), which were then employed for germplasm identification by means of interretrotransposon-amplified polymorphism (IRAP), sequence-specific amplified polymorphism (SSAP) and retrotransposon-microsatellite-amplified polymorphism (REMAP) molecular markers. The results showed that 16 out of 26 primers produced expected amplifications and abundant polymorphisms by IRAP in 28 genotypes of Diospyros. Moreover, some of these primers were further successfully used in REMAP and SSAP analysis. Each type of molecular markers produced unique fingerprint in 28 genotypes analyzed. Among the primers/primer combinations, two IRAP primers and four SSAP primer combinations could discriminate all of the germplasm solely. Further comparative analysis indicated that IRAP was the most sensitive marker system for detecting variability. High level of retrotransposon insertion polymorphisms between bud sports were detected by IRAP and SSAP, and the primers/primer combinations with powerful discrimination capacity for two pairs of bud sports lines were further obtained. Additionally, possible genetic relationships between several Japanese persimmon were discussed. To our knowledge, this is the first report on the development of retrotransposon LTR and PPT primers in Diospyros, and the retrotransposon primers developed herein might open new avenue for research in the future.
Sutee Duangjai - One of the best experts on this subject based on the ideXlab platform.
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Diospyros phuwuaensis (Ebenaceae), a new species from North-Eastern Thailand
Thai Forest Bulletin (Botany), 2020Co-Authors: Sutee Duangjai, Sukid Rueangruea, Thamarat Phutthai, David J. Middleton, Somran Suddee, Chatuchak Plant ConservationAbstract:Diospyros phuwuaensis, a new species from Phu Wua Wildlife Sanctuary, North-Eastern Thailand is described and illustrated. Photographs, ecological information and an IUCN conservation status are provided. The distinctive morphological characters of the new species and its related species are discussed. Based on cpDNA data, the new species is confirmed as an independent lineage and placed in the Diospyros clade V sensu Duangjai et al. (2009). It has phylogenetic affinities with Diospyros mollis, and then D. fulvopilosa and D. kurzii. Our result supports the assignment of the new species to Diospyros section Kurzella. A revised description and a key to the species of Diospyros section Kurzella is presented.
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Systematics and evolution of the Old World Ebenaceae, a review with emphasis on the large genus Diospyros and its radiation in New Caledonia
Botanical Journal of the Linnean Society, 2019Co-Authors: Rosabelle Samuel, Jérôme Munzinger, Sutee Duangjai, Michael H J Barfuss, Barbara Turner, Ovidiu Paun, Mark ChaseAbstract:In this review article, we provide an overview of the status of research on Old World Ebenaceae with an emphasis on the large genus Diospyros. The well-supported phylogenetic tree obtained from nucleotide sequences of multiple regions of plastid genome gave clear insights into the subfamilial classification of Ebenaceae. It supported inclusion of previously recognized genera such as Cargillia, Gunisanthus, Maba, Macreightia and Tetraclis in Diospyros. Endemic Diospyros spp. of New Caledonia have multiple origins. One of these clades has c. 21 species that are morphologically distinct and occupy different ecological niches, but they exhibit low genetic variation, leading to a lack of phylogenetic resolution. Analyses of whole plastid genome sequences did not greatly increase resolution or support for results of our previous plastid analyses. Geographical clustering of the individuals against a background of lower sequence divergence of the whole plastid genome could be due to transfer of plastid genomes during hybridization and introgression following secondary contact. However, > 8400 filtered single nucleotide polymorphisms (SNPs) from restriction site associated DNA sequencing (RADseq) confirmed species circumscriptions for this clade and produced well-supported phylogenetic relationships, pointing to an early regional clustering among populations and species. This supported allopatric speciation with respect to macrohabitat (i.e. climatic conditions) having had a role in the initial differentiation in the group. A later, more rapid radiation involved divergence with respect to microhabitat (e.g. soil preference). Although chromosome counts indicate that Diospyros spp. are consistently diploids with 2n = 30, extensive variation in genome size has been observed, which is due to an increase of repeat elements, including LTR/gypsy. In Ebenaceae, pollen is heterogeneous, and palynological synapomorphies are traced at different taxonomic levels. Several new Diospyros spp. have recently been identified and documented from India, Thailand, China, Africa and New Caledonia. Taxonomic revisions have been completed for the Australian species, and synonyms are reported for some New Caledonian Diospyros spp.
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molecular phylogenetics of new caledonian diospyros Ebenaceae using plastid and nuclear markers
Molecular Phylogenetics and Evolution, 2013Co-Authors: Barbara Turner, Jérôme Munzinger, Sutee Duangjai, Michael H J Barfuss, Mark W Chase, Eva M Temsch, Reinhold Stockenhuber, Rosabelle SamuelAbstract:To clarify phylogenetic relationships among New Caledonian species of Diospyros, sequences of four plastid markers (atpB, rbcL, trnK–matK and trnS–trnG) and two low-copy nuclear markers (ncpGS and PHYA) were analysed. New Caledonian Diospyros species fall into three clades, two of which have only a few members (1 or 5 species); the third has 21 closely related species for which relationships among species have been mostly unresolved in a previous study. Although species of the third group (NC clade III) are morphologically distinct and largely occupy different habitats, they exhibit little molecular variability. Diospyros vieillardii is sister to the rest of the NC clade III, followed by D. umbrosa and D. flavocarpa, which are sister to the rest of this clade. Species from coastal habitats of western Grande Terre (D. cherrieri and D. veillonii) and some found on coralline substrates (D. calciphila and D. inexplorata) form two well-supported subgroups. The species of NC clade III have significantly larger genomes than found in diploid species of Diospyros from other parts of the world, but they all appear to be diploids. By applying a molecular clock, we infer that the ancestor of the NC clade III arrived in New Caledonia around 9 million years ago. The oldest species are around 7 million years old and the youngest ones probably much less than 1 million years.
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A multi-locus plastid phylogenetic analysis of the pantropical genus Diospyros (Ebenaceae), with an emphasis on the radiation and biogeographic origins of the New Caledonian endemic species.
Molecular Phylogenetics and Evolution, 2009Co-Authors: Sutee Duangjai, Jérôme Munzinger, Rosabelle Samuel, Félix Forest, Bruno Wallnöfer, Michael H J Barfuss, Gunter Fischer, Mark W ChaseAbstract:We aimed to clarify phylogenetic relationships within the pantropical genus Diospyros (Ebenaceae sensulato), and ascertain biogeographical patterns in the New Caledonian endemic species. We used DNA sequences from eight plastid regions (rbcL, atpB, matK, ndhF, trnK intron, trnL intron, trnL-trnF spacer, and trnS-trnG spacer) and included 149 accessions representing 119 Diospyros species in our analysis. Results from this study confirmed the monophyly of Diospyros with good support and provided a clearer picture of the relationships within the genus than in previous studies. Evidence from phylogenetic analyses suggests that Diospyros colonized New Caledonia multiple times. The four lineages of Diospyros in New Caledonia also differ in their degree of diversification. The molecular data indicate that one lineage is paleoendemic and derived from an ancient Australian species. The other three lineages are more closely related to several Southeast Asian species; two of them are neoendemics, and one has radiated rapidly and recently.
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generic delimitation and relationships in Ebenaceae sensu lato evidence from six plastid dna regions
American Journal of Botany, 2006Co-Authors: Sutee Duangjai, Jérôme Munzinger, Rosabelle Samuel, Bruno Wallnöfer, Mark W ChaseAbstract:Phylogenetic relationships of the pantropical family Ebenaceae s.l. were investigated using plastid DNA sequence data from six regions: atpB, matK, ndhF, trnK intron, trnL intron, and trnL-trnF spacer. Sampling included representatives of all currently recognized genera of Ebenaceae, Diospyros, Euclea, and Lissocarpa, and nearly all taxa that were previously recognized at the generic level, e.g., Cargillia, Gunisanthus, Maba, Macreightia, Royena, and Tetraclis. Our results strongly support monophyly of Ebenaceae s.l. and demonstrate that the previous infrafamilar classifications of the family do not circumscribe monophyletic groups. A new infrafamilial classification based on a phylogenetic approach is proposed here and consists of two subfamilies, Lissocarpoideae and Ebenoideae, and four genera, Lissocarpa, Euclea, Royena, and Diospyros. Relationships and potential synapomorphic characters are discussed and summarized. This study supports a western Gondwanan origin of family and indicates that both vicariant and long-distance dispersal events played an important role in attaining current distributions.
Mark W Chase - One of the best experts on this subject based on the ideXlab platform.
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molecular phylogenetics of new caledonian diospyros Ebenaceae using plastid and nuclear markers
Molecular Phylogenetics and Evolution, 2013Co-Authors: Barbara Turner, Jérôme Munzinger, Sutee Duangjai, Michael H J Barfuss, Mark W Chase, Eva M Temsch, Reinhold Stockenhuber, Rosabelle SamuelAbstract:To clarify phylogenetic relationships among New Caledonian species of Diospyros, sequences of four plastid markers (atpB, rbcL, trnK–matK and trnS–trnG) and two low-copy nuclear markers (ncpGS and PHYA) were analysed. New Caledonian Diospyros species fall into three clades, two of which have only a few members (1 or 5 species); the third has 21 closely related species for which relationships among species have been mostly unresolved in a previous study. Although species of the third group (NC clade III) are morphologically distinct and largely occupy different habitats, they exhibit little molecular variability. Diospyros vieillardii is sister to the rest of the NC clade III, followed by D. umbrosa and D. flavocarpa, which are sister to the rest of this clade. Species from coastal habitats of western Grande Terre (D. cherrieri and D. veillonii) and some found on coralline substrates (D. calciphila and D. inexplorata) form two well-supported subgroups. The species of NC clade III have significantly larger genomes than found in diploid species of Diospyros from other parts of the world, but they all appear to be diploids. By applying a molecular clock, we infer that the ancestor of the NC clade III arrived in New Caledonia around 9 million years ago. The oldest species are around 7 million years old and the youngest ones probably much less than 1 million years.
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A multi-locus plastid phylogenetic analysis of the pantropical genus Diospyros (Ebenaceae), with an emphasis on the radiation and biogeographic origins of the New Caledonian endemic species.
Molecular Phylogenetics and Evolution, 2009Co-Authors: Sutee Duangjai, Jérôme Munzinger, Rosabelle Samuel, Félix Forest, Bruno Wallnöfer, Michael H J Barfuss, Gunter Fischer, Mark W ChaseAbstract:We aimed to clarify phylogenetic relationships within the pantropical genus Diospyros (Ebenaceae sensulato), and ascertain biogeographical patterns in the New Caledonian endemic species. We used DNA sequences from eight plastid regions (rbcL, atpB, matK, ndhF, trnK intron, trnL intron, trnL-trnF spacer, and trnS-trnG spacer) and included 149 accessions representing 119 Diospyros species in our analysis. Results from this study confirmed the monophyly of Diospyros with good support and provided a clearer picture of the relationships within the genus than in previous studies. Evidence from phylogenetic analyses suggests that Diospyros colonized New Caledonia multiple times. The four lineages of Diospyros in New Caledonia also differ in their degree of diversification. The molecular data indicate that one lineage is paleoendemic and derived from an ancient Australian species. The other three lineages are more closely related to several Southeast Asian species; two of them are neoendemics, and one has radiated rapidly and recently.
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generic delimitation and relationships in Ebenaceae sensu lato evidence from six plastid dna regions
American Journal of Botany, 2006Co-Authors: Sutee Duangjai, Jérôme Munzinger, Rosabelle Samuel, Bruno Wallnöfer, Mark W ChaseAbstract:Phylogenetic relationships of the pantropical family Ebenaceae s.l. were investigated using plastid DNA sequence data from six regions: atpB, matK, ndhF, trnK intron, trnL intron, and trnL-trnF spacer. Sampling included representatives of all currently recognized genera of Ebenaceae, Diospyros, Euclea, and Lissocarpa, and nearly all taxa that were previously recognized at the generic level, e.g., Cargillia, Gunisanthus, Maba, Macreightia, Royena, and Tetraclis. Our results strongly support monophyly of Ebenaceae s.l. and demonstrate that the previous infrafamilar classifications of the family do not circumscribe monophyletic groups. A new infrafamilial classification based on a phylogenetic approach is proposed here and consists of two subfamilies, Lissocarpoideae and Ebenoideae, and four genera, Lissocarpa, Euclea, Royena, and Diospyros. Relationships and potential synapomorphic characters are discussed and summarized. This study supports a western Gondwanan origin of family and indicates that both vicariant and long-distance dispersal events played an important role in attaining current distributions.
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lissocarpa is sister to diospyros Ebenaceae
Kew Bulletin, 2001Co-Authors: Paul E Berry, Vincent Savolainen, Kenneth J Sytsma, Jocelyn C Hall, Mark W ChaseAbstract:A plastid rbcL sequence was obtained from a recent collection of Lissocarpa benthamii Gfirke, and was analysed with two earlier molecular datasets. The results strongly support Lissocarpa as the sister group of Diospyros. We propose that Lissocarpa should be included in a broader concept of Ebenaceae. The number of genera that should be recognized in the family will depend upon more extensive molecular sampling.
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a molecular evaluation of the monophyly of the order ebenales based upon rbcl sequence data
Systematic Botany, 1996Co-Authors: C M Morton, Mark W Chase, Kathleen A Kron, Susan M SwensenAbstract:Molecular support for monophyly of Ebenales and its phylogenetic relationships to other dicot families was investigated using parsimony analysis of nucleotide sequences of the large subunit of ribulose-1,5-biphosphate carboxylase (rbcL). All families of Ebenales were examined except for the remote monogeneric family Lissocarpaceae, due to the lack of material. In addition we examined 93 rbcL sequences of 34 other families. All analyses strongly support monophyly of the asterid III grouping (identified in an analysis of 500 rbcL sequences by Chase et al.). The rbcL tree identified Ebenales to be distributed among several major subclades of the asterid III clade. Sapotaceae are sister to Symplocaceae and more closely related to Lecythidaceae/Scytopetalaceae than to other families of Ebenales. Ebenaceae are sister to Primulales. Styracaceae are polyphyletic, with Diapensiaceae and some Styracaceae sister to Polemoniaceae, and this clade is then sister to members of Clethraceae and Styrax. Although the phylogenetic hypothesis appears to be poorly resolved between groups, there is considerable support, as indicated by decay and jackknife support, for many of the inter-familial relationships. Evolutionary relationships of Ebenales (Takhtajan 1987; Cronquist 1981, 1988; Dahlgren 1989; Thorne 1992) have been based on the importance of a few "key" characters and the general criterion of overall similarity to indicate relationships. Additionally many of the families placed within Ebenales are themselves defined by a combination of characters, many of which are also used at "higher" taxonomic levels. Evidence of the complexity of this problem can be seen in the varied treatments within and the circumscription of Ebenales (Table 1). Ebenales usually consists of two to 5 families and about 2,000 species, chiefly of tropical and subtropical regions (Takhtajan 1987; Cronquist 1981, 1988; Dahlgren 1989; Thorne 1992). As treated in this paper, (sensu Cronquist 1981) Ebenales is composed of the families Ebenaceae, Lissocarpaceae, Sapotaceae, Styracaceae, and Symplocaceae. These five families share only the following morphological features: woodiness, simple leaves, radially symmetrical flowers, axile placentation, (1-8) tenuninucellate ovules per locule, and few large seeds with endosperm. Ebenales s.l. are thus characterized by a combination of features, none of which are individually unique to the order nor unusual among dicots in general. The families that make up the order vary from the morphologically distinctive monogeneric Lissocarpaceae and Symplocaceae to the highly variable Styracaceae and the large Ebenaceae and Sapotaceae. Concepts of evolutionary relationships among Ebenales are conflicting. Cronquist (1981, 1988) believed that Ebenales were derived from the thealean complex. Thorne (1992) and Dahlgren (1983, 1989) assigned Ebenaceae, Lissocarpaceae, Sapotaceae, and Styracaceae to Ebenales. Thorne placed Symplocaceae closer to Theales whereas Dahlgren considered Symplocaceae to belong within Cornales. Takhtajan's (1987) interpretation of relationships treated these five families in three different orders: Ebenaceae, Lissocarpaceae and Styracaceae in Ebenales; Sapotaceae in Sapotales; and Symplocaceae in Theales (Table 1). Wagenitz (1964) included Ebenaceae, Hoplestigmataceae, Lissocarpaceae, Sapotaceae, Sarcospermataceae, Styracaceae, and Symplocaceae in Ebenales. Hutchinson (1967, 1969, 1973) recognized two orders, Ebenales and Styracales. Ebenales contained Ebenaceae, Sapotaceae, and Sarcospermataceae (usually included in Sapotaceae). Styracales included Lissocarpaceae, Styracaceae, and Symplocaceae. Hutchinson believed that Ebenaceae provided a link between Myrsinaceae (Myrsinales) and Sapotaceae (Ebenales), suggesting that both orders probably were derived from thealean stock and stating that Styracales was difficult to place in any system. Nooteboom (1975) also believed, on the basis of
Jérôme Munzinger - One of the best experts on this subject based on the ideXlab platform.
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Systematics and evolution of the Old World Ebenaceae, a review with emphasis on the large genus Diospyros and its radiation in New Caledonia
Botanical Journal of the Linnean Society, 2019Co-Authors: Rosabelle Samuel, Jérôme Munzinger, Sutee Duangjai, Michael H J Barfuss, Barbara Turner, Ovidiu Paun, Mark ChaseAbstract:In this review article, we provide an overview of the status of research on Old World Ebenaceae with an emphasis on the large genus Diospyros. The well-supported phylogenetic tree obtained from nucleotide sequences of multiple regions of plastid genome gave clear insights into the subfamilial classification of Ebenaceae. It supported inclusion of previously recognized genera such as Cargillia, Gunisanthus, Maba, Macreightia and Tetraclis in Diospyros. Endemic Diospyros spp. of New Caledonia have multiple origins. One of these clades has c. 21 species that are morphologically distinct and occupy different ecological niches, but they exhibit low genetic variation, leading to a lack of phylogenetic resolution. Analyses of whole plastid genome sequences did not greatly increase resolution or support for results of our previous plastid analyses. Geographical clustering of the individuals against a background of lower sequence divergence of the whole plastid genome could be due to transfer of plastid genomes during hybridization and introgression following secondary contact. However, > 8400 filtered single nucleotide polymorphisms (SNPs) from restriction site associated DNA sequencing (RADseq) confirmed species circumscriptions for this clade and produced well-supported phylogenetic relationships, pointing to an early regional clustering among populations and species. This supported allopatric speciation with respect to macrohabitat (i.e. climatic conditions) having had a role in the initial differentiation in the group. A later, more rapid radiation involved divergence with respect to microhabitat (e.g. soil preference). Although chromosome counts indicate that Diospyros spp. are consistently diploids with 2n = 30, extensive variation in genome size has been observed, which is due to an increase of repeat elements, including LTR/gypsy. In Ebenaceae, pollen is heterogeneous, and palynological synapomorphies are traced at different taxonomic levels. Several new Diospyros spp. have recently been identified and documented from India, Thailand, China, Africa and New Caledonia. Taxonomic revisions have been completed for the Australian species, and synonyms are reported for some New Caledonian Diospyros spp.
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molecular phylogenetics of new caledonian diospyros Ebenaceae using plastid and nuclear markers
Molecular Phylogenetics and Evolution, 2013Co-Authors: Barbara Turner, Jérôme Munzinger, Sutee Duangjai, Michael H J Barfuss, Mark W Chase, Eva M Temsch, Reinhold Stockenhuber, Rosabelle SamuelAbstract:To clarify phylogenetic relationships among New Caledonian species of Diospyros, sequences of four plastid markers (atpB, rbcL, trnK–matK and trnS–trnG) and two low-copy nuclear markers (ncpGS and PHYA) were analysed. New Caledonian Diospyros species fall into three clades, two of which have only a few members (1 or 5 species); the third has 21 closely related species for which relationships among species have been mostly unresolved in a previous study. Although species of the third group (NC clade III) are morphologically distinct and largely occupy different habitats, they exhibit little molecular variability. Diospyros vieillardii is sister to the rest of the NC clade III, followed by D. umbrosa and D. flavocarpa, which are sister to the rest of this clade. Species from coastal habitats of western Grande Terre (D. cherrieri and D. veillonii) and some found on coralline substrates (D. calciphila and D. inexplorata) form two well-supported subgroups. The species of NC clade III have significantly larger genomes than found in diploid species of Diospyros from other parts of the world, but they all appear to be diploids. By applying a molecular clock, we infer that the ancestor of the NC clade III arrived in New Caledonia around 9 million years ago. The oldest species are around 7 million years old and the youngest ones probably much less than 1 million years.
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A multi-locus plastid phylogenetic analysis of the pantropical genus Diospyros (Ebenaceae), with an emphasis on the radiation and biogeographic origins of the New Caledonian endemic species.
Molecular Phylogenetics and Evolution, 2009Co-Authors: Sutee Duangjai, Jérôme Munzinger, Rosabelle Samuel, Félix Forest, Bruno Wallnöfer, Michael H J Barfuss, Gunter Fischer, Mark W ChaseAbstract:We aimed to clarify phylogenetic relationships within the pantropical genus Diospyros (Ebenaceae sensulato), and ascertain biogeographical patterns in the New Caledonian endemic species. We used DNA sequences from eight plastid regions (rbcL, atpB, matK, ndhF, trnK intron, trnL intron, trnL-trnF spacer, and trnS-trnG spacer) and included 149 accessions representing 119 Diospyros species in our analysis. Results from this study confirmed the monophyly of Diospyros with good support and provided a clearer picture of the relationships within the genus than in previous studies. Evidence from phylogenetic analyses suggests that Diospyros colonized New Caledonia multiple times. The four lineages of Diospyros in New Caledonia also differ in their degree of diversification. The molecular data indicate that one lineage is paleoendemic and derived from an ancient Australian species. The other three lineages are more closely related to several Southeast Asian species; two of them are neoendemics, and one has radiated rapidly and recently.
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generic delimitation and relationships in Ebenaceae sensu lato evidence from six plastid dna regions
American Journal of Botany, 2006Co-Authors: Sutee Duangjai, Jérôme Munzinger, Rosabelle Samuel, Bruno Wallnöfer, Mark W ChaseAbstract:Phylogenetic relationships of the pantropical family Ebenaceae s.l. were investigated using plastid DNA sequence data from six regions: atpB, matK, ndhF, trnK intron, trnL intron, and trnL-trnF spacer. Sampling included representatives of all currently recognized genera of Ebenaceae, Diospyros, Euclea, and Lissocarpa, and nearly all taxa that were previously recognized at the generic level, e.g., Cargillia, Gunisanthus, Maba, Macreightia, Royena, and Tetraclis. Our results strongly support monophyly of Ebenaceae s.l. and demonstrate that the previous infrafamilar classifications of the family do not circumscribe monophyletic groups. A new infrafamilial classification based on a phylogenetic approach is proposed here and consists of two subfamilies, Lissocarpoideae and Ebenoideae, and four genera, Lissocarpa, Euclea, Royena, and Diospyros. Relationships and potential synapomorphic characters are discussed and summarized. This study supports a western Gondwanan origin of family and indicates that both vicariant and long-distance dispersal events played an important role in attaining current distributions.
