Resolved phylogeny of Cleomaceae based on all three genomes

Patchell, Melanie J.; Roalson, Eric H.; Hall, Jocelyn C.

doi:10.12705/632.17

Cited by 58 publications

(71 citation statements)

References 62 publications

(123 reference statements)

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“…The first group is resolved as (( Oxystylis + Wislizenia ) + Cleomella ) + Cleome (Fig. S3; BS = 82%), corresponding to the North American cleomoids (Hall, ; Feodorova et al, ; Riser et al, ; Patchell et al, ), which agrees with the taxonomic revision of Roalson et al () that reduced the whole clade to the single large genus, Cleomella . The second group (BS = 52%) is composed of the majority of Cleome with Polanisia , Dactylaena , Podandrogyne , and Dipterygium .…”

Section: Relationships Within Fabidaesupporting

confidence: 82%

Phylogeny of the Rosidae: A dense taxon sampling analysis

Sun

Naeem

et al. 2016

J of Sytematics Evolution

125

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Rosidae, a clade of approximately 90 000 species of angiosperms, exhibits remarkable morphological diversity and extraordinary heterogeneity in habitats and life forms. Resolving phylogenetic relationships within Rosidae has been difficult, in large part due to nested radiations and the enormous size of the clade. Current estimates of phylogeny contain areas of poor resolution and/or support, and there have been few attempts to synthesize the available data into a comprehensive view of Rosidae phylogeny. We aim to improve understanding of the phylogeny of Rosidae with a dense sampling scheme using both newly generated sequences and data from GenBank of the chloroplast rbcL, atpB, and matK genes and the mitochondrial matR gene. We combined sequences from 9300 species, representing 2775 genera, 138 families, and 17 orders into a supermatrix. Although 59.26% of the cells in the supermatrix have no data, our results generally agree with previous estimates of Rosidae phylogeny and provide greater resolution and support in several areas of the topology. Several noteworthy phylogenetic relationships are recovered, including some novel relationships. Two families (Euphorbiaceae and Salvadoraceae) and 467 genera are recovered as non-monophyletic in our sampling, suggesting the need for future systematic studies of these groups. Our study shows the value of a botanically informed bioinformatics approach and dense taxonomic sampling for resolving rosid relationships. The resulting tree provides a starting point for large-scale analyses of the evolutionary patterns within Rosidae.Key words: phylogeny, rapid radiation, Rosidae, supermatrix.With approximately 90 000 species (estimated from Hinchliff et al., 2015), 135-140 families, and 17 orders (Soltis et al., 2005;APG III, 2009;APG IV, 2016), Rosidae contains at least one quarter of all angiosperm species and approximately 39% of eudicot species diversity (Magall on et al., 1999;Wang et al., 2009). Molecular dating indicates that Rosidae originated in the Early to Late Cretaceous, between 115 and 93 million years ago (Mya), followed by rapid diversification resulting in the Fabidae and Malvidae crown groups approximately 112 to 91 Mya (Albian to Coniacian) and 109 to 83 Mya (Cenomanian to Santonian), respectively (Wang et al., 2009;Bell et al., 2010), with major lineages diversifying in perhaps as little as 4 to 5 million years (Wang et al., 2009;Soltis et al., 2010). The radiations in Rosidae also represent the rapid rise of angiosperm-dominated forests and associated co-diversification events that have profoundly shaped much of the current terrestrial biodiversity (Wang et al., 2009).This extraordinarily diverse clade exhibits enormous heterogeneity in habitats and life forms, including herbs, shrubs, trees, vines, aquatics, succulents, and parasites. Species of Rosidae generally have bitegmic, crassinucellate ovules, distinguishing them from Asteridae, which are generally characterized by unitegmic, tenuinucellate ovules. Moreover, some members possess novel bio...

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Section: Relationships Within Fabidaesupporting

confidence: 82%

Phylogeny of the Rosidae: A dense taxon sampling analysis

Sun

Naeem

et al. 2016

J of Sytematics Evolution

125

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“…Given the high number of variable nucleotide sites in the above two matrices, gaps were treated as missing in subsequent analyses. Following separated analyses of the two main matrices, we checked for ‘hard incongruencies’ (Mason-Gamer & Kellogg, 1996; Seelanan, Schnabel & Wendel, 1997; Wendel & Doyle, 1998) in the resulting trees: branch placement was only considered to be in hard incongruence when they received >70% bootstrap and >0.95 posterior probability support—an approach advocated by many workers (Daru et al, 2013; Patchell, Roalson & Hall, 2014; Scheunert & Heubl, 2014), favoured over the commonly used ILD-test (Farris et al, 1994), which can fail to correctly test combinability (Dolphin et al, 2000; Barker & Lutzoni, 2002; Darlu & Lecointre, 2002). Since no such hard incongruence was observed, we combined the nuclear and plastid matrices into a combined matrix.…”

Section: Methodsmentioning

confidence: 99%

Molecular phylogenetics, seed morphometrics, chromosome number evolution and systematics of EuropeanElatineL. (Elatinaceae) species

Sramkó

Molnár

Tóth

et al. 2016

PeerJ

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The genus Elatine contains ca 25 species, all of which are small, herbaceous annuals distributed in ephemeral waters on both hemispheres. However, due to a high degree of morphological variability (as a consequence of their amphibious life-style), the taxonomy of this genus remains controversial. Thus, to fill this gap in knowledge, we present a detailed molecular phylogenetic study of this genus based on nuclear (rITS) and plastid (accD-psaI, psbJ-petA, ycf6-psbM-trnD) sequences using 27 samples from 13 species. On the basis of this phylogenetic analysis, we provide a solid phylogenetic background for the modern taxonomy of the European members of the genus. Traditionally accepted sections of this tree (i.e., Crypta and Elatinella) were found to be monophyletic; only E. borchoni—found to be a basal member of the genus—has to be excluded from the latter lineage to achieve monophyly. A number of taxonomic conclusions can also be drawn: E. hexandra, a high-ploid species, is most likely a stabilised hybrid between the main sections; E. campylosperma merits full species status based on both molecular and morphological evidence; E. gussonei is a more widespread and genetically diverse species with two main lineages; and the presence of the Asian E. ambigua in the European flora is questionable. The main lineages recovered in this analysis are also supported by a number of synapomorphic morphological characters as well as uniform chromosome counts. Based on all the evidence presented here, two new subsections within Elatinella are described: subsection Hydropipera consisting of the temperate species of the section, and subsection Macropodae including the Mediterranean species of the section.

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“…& J. Presl inclui ervas a arbustos, com folhas palmado-compostas (3-12-folioladas), inflorescências racemosas, ebracteadas ou bracteadas, flores bissexuais, actinomorfas ou zigomorfas, com nectário disciforme, cônico, obsoleto ou ausente, estames 6-27 e frutos em cápsulas ou síliquas elevadas por um ginóforo bem desenvolvido ou ausente. A família atualmente é composta por 18 gêneros e 350 espécies (Patchell et al 2014). Seus representantes apresentam distribuição pantropical, ocorrendo com mais frequência nas regiões tropicais e subtropicais dos neotrópicos (Tucker 2009;Iltis & Cochrane 2014;Patchell et al 2014).…”

Section: Cleomaceaeunclassified

“…A família atualmente é composta por 18 gêneros e 350 espécies (Patchell et al 2014). Seus representantes apresentam distribuição pantropical, ocorrendo com mais frequência nas regiões tropicais e subtropicais dos neotrópicos (Tucker 2009;Iltis & Cochrane 2014;Patchell et al 2014). No Brasil, a família está representada por oito gêneros e 29 espécies ocorrendo em todo território brasileiro (BFG 2015).…”

Section: Cleomaceaeunclassified

Flora das cangas da Serra dos Carajás, Pará, Brasil: Cleomaceae

Neto

2017

Rodriguésia

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ResumoNeste estudo são retratadas as espécies de Cleomaceae que foram registradas para as cangas da Serra dos Carajás, no estado do Pará. São apresentadas descrições morfológicas, ilustração, imagens e comentários sobre as espécies. Foram registradas duas espécies para a área de estudo: Melidiscus giganteus e Tarenaya spinosa, ambas com ampla distribuição na região Neotropical. Palavras-chave: Amazônia, diversidade, FLONA Carajás, flora, norte do Brasil. AbstractThe species of Cleomaceae that occur in the cangas of Serra dos Carajás, Pará state, Brazil, are described in this study. Morphological descriptions, illustrations, images and notes about the species are given here. Melidiscus giganteus and Tarenaya spinosa, both species with broad geographic distribution in the Neotropical region, were recorded in the area studied.

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Resolved phylogeny of Cleomaceae based on all three genomes

Cited by 58 publications

References 62 publications

Phylogeny of the Rosidae: A dense taxon sampling analysis

Phylogeny of the Rosidae: A dense taxon sampling analysis

Molecular phylogenetics, seed morphometrics, chromosome number evolution and systematics of EuropeanElatineL. (Elatinaceae) species

Flora das cangas da Serra dos Carajás, Pará, Brasil: Cleomaceae

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