scholarly journals New Insights on Lilium Phylogeny Based on a Comparative Phylogenomic Study Using Complete Plastome Sequences

Plants ◽  
2019 ◽  
Vol 8 (12) ◽  
pp. 547 ◽  
Author(s):  
Hyoung Tae Kim ◽  
Ki-Byung Lim ◽  
Jung Sung Kim
Keyword(s):  
Species Tree ◽  
Long Distance ◽  
Plant Groups ◽  
Lilium Species ◽  
Molecular Phylogenetic ◽  
Group A ◽  
Sectional Classification ◽  
Natural Characteristics ◽  
Phylogenomic Study

The genus Lilium L. is widely distributed in the cold and temperate regions of the Northern Hemisphere and is one of the most valuable plant groups in the world. Regarding the classification of the genus Lilium, Comber’s sectional classification, based on the natural characteristics, has been primarily used to recognize species and circumscribe the sections within the genus. Although molecular phylogenetic approaches have been attempted using different markers to elucidate their phylogenetic relationships, there still are unresolved clades within the genus. In this study, we constructed the species tree for the genus using 28 Lilium species plastomes, including three currently determined species (L. candidum, L. formosanum, and L. leichtlinii var. maximowiczii). We also sought to verify Comber’s classification and to evaluate all loci for phylogenetic molecular markers. Based on the results, the genus was divided into two major lineages, group A and B, consisting of eastern Asia + Europe species and Hengduan Mountains + North America species, respectively. Sectional relationships revealed that the ancestor Martagon diverged from Sinomartagon species and that Pseudolirium and Leucolirion are polyphyletic. Out of all loci in that Lilium plastome, ycf1, trnF-ndhJ, and trnT-psbD regions are suggested as evaluated markers with high coincidence with the species tree. We also discussed the biogeographical diversification and long-distance dispersal event of the genus.

Phylogenetic relationships and a new sectional classification of Croton (Euphorbiaceae) in Australia

2015 ◽  
Vol 28 (4) ◽  
pp. 219 ◽  
Author(s):  
Benjamin W. van Ee ◽  
Paul I. Forster ◽  
Paul E. Berry
Keyword(s):  
Maximum Likelihood ◽  
Dna Sequences ◽  
Pacific Islands ◽  
Australian Species ◽  
Molecular Phylogenetic ◽  
Species Lists ◽  
Nuclear Its ◽  
Australian Flora ◽  
Sectional Classification

A molecular phylogeny, morphological descriptions, species lists and a key to the sections of Croton L. (Euphorbiaceae) recognised for Australia are presented. The molecular phylogenetic results supported the recognition of six sections, to account for the 29 native Australian species. The monophyly of each of these sections was highly supported in the Bayesian and maximum-likelihood analyses of nuclear ITS and plastid trnL–F DNA sequences, whereas their relationships to each other and to other groups were less well resolved. Croton may represent one, two or three separate arrivals to Australia, with support for hypotheses of subsequent dispersals from Australia to Pacific islands and to Asia. Croton sections Argyrati, Arnhemici, Caudati, Dockrilliorum and Insulares are newly described. Croton section Gymnocroton Baill., previously placed in synonymy, is again recognised. Croton armstrongii S.Moore is excluded from the Australian flora.

A new classification for Lipocarpha and Volkiella as infrageneric taxa of Cyperus s.l. (Cypereae, Cyperoideae, Cyperaceae): insights from species tree reconstruction supplemented with morphological and floral developmental data

Phytotaxa ◽  
2014 ◽  
Vol 166 (1) ◽  
pp. 1 ◽  
Author(s):  
KENNETH BAUTERS ◽  
ISABEL LARRIDON ◽  
MARC REYNDERS ◽  
PIETER ASSELMAN ◽  
ALEXANDER VRIJDAGHS ◽  
...  
Keyword(s):  
Phylogenetic Analyses ◽  
Morphological Characters ◽  
Species Tree ◽  
Gene Trees ◽  
New Classification ◽  
Tree Reconstruction ◽  
Separate Gene ◽  
Molecular Phylogenetic ◽  
Sectional Classification

Recent molecular phylogenetic analyses showed that Lipocarpha and Volkiella are nested in a paraphyletic Cyperus s.s. and therefore should be viewed as part of a broadly circumscribed genus Cyperus (Cyperaceae). In this paper, molecular phylogenetic analyses of Lipocarpha and Volkiella based on nuclear ribosomal ETS1f and plastid rpl32-trnL and trnH-psbA markers are presented. Separate gene trees as well as a species tree were constructed. Results indicate a polyphyletic Lipocarpha s.l. consisting of a paraphyletic core Lipocarpha s.s in which the monotypic Volkiella is included, and a small non-related clade with species formerly placed in the genus Rikliella. Core Lipocarpha s.s. encompasses six clades, which can be distinguished based on morphological characters. Floral developmental data for Lipocarpha rehmannii (the type of Rikliella) confirms that this species is not a true Lipocarpha s.s. Based on our findings, Lipocarpha s.l. and Volkiella are here included in Cyperus subg. Cyperus. New names and combinations for Lipocarpha s.l. and Volkiella species and a new sectional classification for these species are proposed. 

Classification of the Relhania generic group (Asteraceae, Gnaphalieae) revisited using molecular phylogenetic analysis

Phytotaxa ◽  
2018 ◽  
Vol 344 (2) ◽  
pp. 101 ◽  
Author(s):  
NICOLA G. BERGH ◽  
JOANNE BENTLEY ◽  
GEORGE ANTHONY VERBOOM
Keyword(s):  
Nuclear Dna ◽  
Plastid Dna ◽  
Morphological Characters ◽  
African Lineage ◽  
Generic Group ◽  
Molecular Phylogenetic ◽  
Group A ◽  
Base Chromosome Number ◽  
Species Being

Phylogenetic relationships within the Relhania generic group, a southern African lineage of 45 yellow-flowered daisy species, are examined using parsimony and Bayesian analysis of plastid DNA, nuclear DNA, and morphological characters. The resulting phylogenetic hypothesis indicates that the species fall into two clades, one comprising the genera containing short-lived (annual / biennial) species, and the other exclusively perennial. Within the perennial clade, containing six genera, several well-supported and morphologically coherent clades are recovered. However, there is substantial generic non-monophyly and many relationships lack resolution, with several species being unplaced. Subdivision into multiple genera would require the recognition of up to twelve small or monospecific genera, and lack of resolution would render this solution potentially unstable. Instead, the six currently-recognised perennial genera Antithrixia, Comborhiza, Oreoleysera, Relhania and Rosenia are here synonymized under the oldest name, Oedera Linnaeus. An infrageneric taxonomy comprising eight sections is proposed for Oedera sensu amplo. This new, enlarged concept of Oedera is defined by the perennial life-history, by leaves with involute or flat margins, by pappus bristles (if present) that are never plumose, and by a base chromosome number of x = 7. Keys to the genera, an updated description of Oedera sensu amplo, and keys to the sections and species are provided. A total of 25 new combinations is made.

scholarly journals Disentangling relationships among eastern Mediterranean Cymbalaria including description of a novel species from the southern Peloponnese (Greece)

2021 ◽  
Vol 307 (2) ◽  
Author(s):  
Pau Carnicero ◽  
Núria Garcia-Jacas ◽  
Llorenç Sáez ◽  
Theophanis Constantinidis ◽  
Mercè Galbany-Casals
Keyword(s):  
Eastern Mediterranean ◽  
Phylogenetic Analyses ◽  
Taxonomic Revision ◽  
Distribution Patterns ◽  
Morphological Characters ◽  
Molecular Data ◽  
Morphological Data ◽  
Long Distance ◽  
Aegean Islands ◽  
Molecular Phylogenetic

AbstractThe eastern Mediterranean basin hosts a remarkably high plant diversity. Historical connections between currently isolated areas across the Aegean region and long-distance dispersal events have been invoked to explain current distribution patterns of species. According to most recent treatments, at least two Cymbalaria species occur in this area, Cymbalaria microcalyx and C. longipes. The former comprises several intraspecific taxa, treated at different ranks by different authors based on morphological data, evidencing the need of a taxonomic revision. Additionally, some populations of C. microcalyx show exclusive morphological characters that do not match any described taxon. Here, we aim to shed light on the systematics of eastern Mediterranean Cymbalaria and to propose a classification informed by various sources of evidence. We performed molecular phylogenetic analyses using ITS, 3’ETS, ndhF and rpl32-trnL sequences and estimated the ploidy level of some taxa performing relative genome size measures. Molecular data combined with morphology support the division of traditionally delimited C. microcalyx into C. acutiloba, C. microcalyx and C. minor, corresponding to well-delimited nrDNA lineages. Furthermore, we propose to combine C. microcalyx subsp. paradoxa at the species level. A group of specimens previously thought to belong to Cymbalaria microcalyx constitute a well-defined phylogenetic and morphological entity and are described here as a new species, Cymbalaria spetae. Cymbalaria longipes is non-monophyletic, but characterized by being glabrous and diploid, unlike other eastern species. The nrDNA data suggest at least two dispersals from the mainland to the Aegean Islands, potentially facilitated by marine regressions.

Tracing the origins of hybrids through history: monstrous cultivars and Napoléon Bonaparte’s exiled paper daisies (Asteraceae; Gnaphalieae)

2021 ◽  
Author(s):  
Timothy L Collins ◽  
Jeremy J Bruhl ◽  
Alexander N Schmidt-Lebuhn ◽  
Ian R H Telford ◽  
Rose L Andrew
Keyword(s):  
Gene Flow ◽  
Phylogenetic Analyses ◽  
Strong Support ◽  
Napoleon Bonaparte ◽  
Snp Data ◽  
Cast Doubt ◽  
Molecular Phylogenetic ◽  
St Helena ◽  
New Evidence

Abstract Golden everlasting paper daisies (Xerochrysum, Gnaphalieae, Asteraceae) were some of the earliest Australian native plants to be cultivated in Europe. Reputedly a favourite of Napoléon Bonaparte and Empress Joséphine, X. bracteatum is thought to have been introduced to the island of St Helena in the South Atlantic during Napoléon’s exile there. Colourful cultivars were developed in the 1850s, and there is a widely held view that these were produced by crossing Xerochrysum with African or Asian Helichrysum spp. Recent molecular phylogenetic analyses and subtribal classification of Gnaphalieae cast doubt on this idea. Using single-nucleotide polymorphism (SNP) data, we looked for evidence of gene flow between modern cultivars, naturalized paper daisies from St Helena and four Xerochrysum spp. recorded in Europe in the 1800s. There was strong support for gene flow between cultivars and X. macranthum. Paper daisies from St Helena were genotypically congruent with X. bracteatum and showed no indications of ancestry from other species or from the cultivars, consistent with the continuous occurrence of naturalized paper daisies introduced by Joséphine and Napoléon. We also present new evidence for the origin of colourful Xerochrysum cultivars and hybridization of congeners in Europe from Australian collections.

scholarly journals Ground beetles (Carabidae) from slopes of Macošská stráň and Vilémovická stráň (Protected landscape area of Moravský kras, Czech Republic)

2011 ◽  
Vol 59 (3) ◽  
pp. 143-150 ◽  
Author(s):  
Jana Niedobová ◽  
Vladimír Hula ◽  
Pavla Šťastná
Keyword(s):  
Czech Republic ◽  
Endangered Species ◽  
Threatened Species ◽  
Ground Beetles ◽  
Red List ◽  
The Other ◽  
Pitfall Traps ◽  
The Czech Republic ◽  
Group A

Collecting of Carabidae was conducted using pitfall traps at four sites. The first two sites (T1 + T2) were at the slope of Macošská stráň and the other two sites (T3 + T4) at the slope of Vilémovická stráň. The study was done in 2008 and 2009. At Macošská stráň in 2008, 21 species of Carabidae with the total number of 228 individuals were found and in 2009, 18 species of the total number of 116 specimens were collected. At Vilémovická stráň in 2008, 22 species of Carabidae with the total number of 1977 specimens were found and in 2009, 21 species of the total number of 623 specimens were caught. In terms of classification of relictness, Macošská stráň in 2008 was dominated by species of adaptable group A (60%), species of eurytop group (E) were represented by 35% and of relic group (R) by 5%. In 2009, the same representation of species of groups A and E (47%) were found and the species of group R were represented by 6%. Vilémovická stráň in 2008 was dominated by species of group A (52%), species of group E were represented by 43% and of group R by 5%. In 2009 also dominated species of group A (54%), species of group E were represented by 41% and of group R by 5%. In the studied area we reported four endangered species of Carabidae protected by Law (No. 395/1992 Coll.) as amended, these were Calosoma auropunctatum (critically endangered), Brachinus crepitans, Carabus ullrichii and Cicindela campestris (endangered) and two species listed under the Red List of Threatened Species of the Czech Republic (Veselý et al., 2005). One of the species is listed as vulnerable (Calosoma auropunctatum) and one as near endangered (Carabus cancellatus). Another significant species found on the monitored sites was Aptinus bombarda.

scholarly journals A Novel Technique for Mapping the Vascularity of Labia Minora Prior to Labiaplasty: Cold Light Illumination

2018 ◽  
Vol 78 (08) ◽  
pp. 775-784 ◽  
Author(s):  
Aski Kaya ◽  
Ozan Dogan ◽  
Murat Yassa ◽  
Alper Basbug ◽  
Eray Çalışkan
Keyword(s):  
Light Source ◽  
Outer Surface ◽  
Descriptive Study ◽  
Light Illumination ◽  
Labia Minora ◽  
Novel Technique ◽  
Group A ◽  
The Right ◽  
Upper Third

Abstract Objective Aim of the study was to assess the feasibility of a novel technique to determine the vascularity of labia minora prior to labiaplasty. Methods A cold light source employed in laparoscopic procedures was used to illuminate the outer surface of the labia minora as described in this prospective descriptive study. Results Of the patients, 46.1% (n = 41) had upper third prominence, 36% (n = 32) had middle third prominence, and 18% (n = 16) had lower third prominence according to the Banwell classification of morphologies. Right labia minora width was 0 – 2 cm in 51.7% (n = 46), 2 – 4 cm in 47.2% (n = 42) and > 4 cm in 1.1% (n = 1) of cases. Left labia minora width was 0 – 2 cm in 52.8% (n = 47), 2 – 4 cm in 41.6% (n = 37) and > 4 cm in 5.6% (n = 5) of cases. The incidence of Anterior 2 and Posterior 1 vessels in the different morphologies were statistically significantly different (p = 0.007, p = 0.018). The Anterior 2 vessel was higher in the lower morphology group whereas the Posterior 1 vessel was higher in the upper morphology group. A central vessel was observed in 93.3% (n = 83) of patients in the left labium minus and the right labium minus. The incidence of the Posterior 1 vessel was significantly higher in the left labium minus than in the right labium minus (p = 0.021). Discussion This novel technique to assess labial vascularity using a cold light source could be very useful to reduce dehiscence by avoiding excessive resection of highly vascularized tissue. Most units can easily access a cold light source, which can be used to assess labial vascularity prior to labiaplasty.

scholarly journals Positive polarity predicates

Linguistics ◽  
2018 ◽  
Vol 56 (2) ◽  
pp. 361-400 ◽  
Author(s):  
Jack Hoeksema
Keyword(s):  
Binary Classification ◽  
Complex Interaction ◽  
Positive Polarity ◽  
Long Distance ◽  
Recent Proposal ◽  
Polarity Items ◽  
Semantics And Pragmatics ◽  
Negative Quantifiers ◽  
High Degree

Abstract This paper presents Dutch and English predicates that behave as positive polarity items and provides a partial, semantically-grounded classification of this group of PPIs. The items are studied from the perspective of anti-licensing behavior (by negation, either locally or long-distance, in questions, and by weakly negative quantifiers such as little and few). Predicates, unlike quantifiers, do not have wide scope readings (which allow quantificational PPIs such as somebody to appear in the syntactic scope of negation). Using a mixture of corpus data and introspective judgments, we show that anti-licensing among PPIs is not uniform (mirroring earlier results on NPIs which likewise show considerable variation). Rescuing contexts are likewise shown to differ among PPIs. Some of the PPI predicates show complex interaction with illocutionary force (especially mandative force), and others with differences between presupposed and asserted propositions. High degree predicates, finally, point toward the existence of connections between the marking of degree and positive polarity. PPI status is argued to be the result of a complex interaction between the effects of negation and other nonveridical operators, and other semantic factors, which differ among subclasses of PPIs. Anti-licensing by weak negation correlates fairly well with anti-licensing by long-distance negation, a finding which is (partly) in line with a recent proposal by Spector (2014, Global positive polarity items and obligatory exhaustivity. Semantics and Pragmatics 7(11). 1–61) concerning global PPIs. However, we find there to be more variation among the PPIs studied here than the classification of Spector (2014) or any binary classification stipulates.

A Global Phylogenomic Study of the Thelypteridaceae

2021 ◽  
Vol 46 (4) ◽  
pp. 891-915
Author(s):  
Susan Fawcett ◽  
Alan R. Smith ◽  
Michael Sundue ◽  
J. Gordon Burleigh ◽  
Emily B. Sessa ◽  
...  
Keyword(s):  
Morphological Characters ◽  
Morphological Evidence ◽  
Phylogenetic Studies ◽  
The Family ◽  
Likelihood Analysis ◽  
Single Genus ◽  
The Subject ◽  
Recent Classification ◽  
Phylogenomic Study

Abstract— The generic classification of the Thelypteridaceae has been the subject of much controversy. Proposed taxonomic systems have varied from recognizing the approximately 1200 species in the family within the single genus Thelypteris, to systems favoring upwards of 30 genera. Insights on intrafamilial relationships, especially for neotropical taxa, have been gained from recent phylogenetic studies; however, in the most recent classification, 10 of 30 recognized genera are either non-monophyletic or untested. We sequenced 407 nuclear loci for 621 samples, representing all recognized genera and approximately half the known species diversity. These were analyzed using both maximum likelihood analysis of a concatenated matrix and multi-species coalescent methods. Our phylogenomic results, informed by recently published morphological evidence, provide the foundation for a generic classification which recircumscribed 14 genera and recognized seven new genera. The 37 monophyletic genera sampled demonstrate greater geographic coherence than previous taxonomic concepts suggested. Additionally, our results demonstrate that certain morphological characters, such as frond division, are evolutionarily labile and are thus inadequate for defining genera.

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