Phylogenetic assessment of the monotypic genera Sundacarpus and Manoao (Coniferales: Podocarpaceae) utilising evidence from 18S rDNA sequences

2002 ◽  
Vol 15 (1) ◽  
pp. 29 ◽  
Author(s):  
Dean G. Kelch
Keyword(s):  
Sequence Data ◽  
Morphological Data ◽  
Bootstrap Support ◽  
Conservative Approach ◽  
Parsimony Analysis ◽  
Rdna Sequences ◽  
The Family ◽  
18S Rdna Sequences ◽  
High Bootstrap ◽  
Lagarostrobos Franklinii

The Podocarpaceae are the most morphologically diverse of conifer families. A taxonomic trend has resulted in recognising this diversity via smaller generic groupings, including several monotypes. A phylogenetic assessment of the monotypic genera Sundacarpus and Manoao was conducted employing maximum parsimony the analysis of sequence data from 18S-ribosomal DNA from 34 gymnosperm taxa, including 29 Podocarpaceae. In resulting trees, there is high bootstrap support for Podocarpaceae, including Phyllocladus, but the order of deep branches within the family is equivocal. Prumnopitys (Sundacarpus) amara (Blume) de Laub. and four other Prumnopitys spp. comprise a clade with a bootstrap value of 100%, supporting the retention of Sundacarpus as a section of Prumnopitys. Lagarostrobos franklinii (Hook.f.) Quinn and L. (Manoao) colensoi (Hook.) Quinn comprise a clade with equivocal bootstrap support, echoing previous results from parsimony analysis of morphological data. A conservative approach (i.e. one avoiding unnecessary monotypes) favours the retention of L. colensoi in Lagarostrobos, pending further evidence of relationships within the group.

Phylogenetic analysis of nematode nuclear 18S rDNA sequences indicates the genus Tripylina Brzeski, 1963 (Nematoda: Tripylidae de Man, 1876) should be placed in Enoplida

Zootaxa ◽  
2009 ◽  
Vol 2238 (1) ◽  
pp. 25-32 ◽  
Author(s):  
ZENG QI ZHAO ◽  
THOMAS R. BUCKLEY
Keyword(s):  
Phylogenetic Analysis ◽  
New Zealand ◽  
Dna Sequence ◽  
Sequence Data ◽  
Extensive Study ◽  
Dna Sequence Data ◽  
Rdna Sequences ◽  
The Family ◽  
18S Rdna Sequences ◽  
De Man

We have made an extensive study of New Zealand representatives of nematodes from the family Tripylidae de Man, 1876. Based on SSU DNA sequence data and phylogenetic analysis, the genera Tripylina Brzeski, 1964 and Trischistoma Cobb, 1913 are not closely related to Tripyla Bastian, 1865, the type genus of the family Tripylidae de Man 1876. The genus Tripylina is sister to Trischistoma and Trefusia de Man, 1893 and is more closely related to Enoplida than to Triplonchida. Our phylogenetic results indicate that Tripylina should be placed in Enoplida.

Molecular phylogeny of Diploschistes inferred from ITS sequence data

2003 ◽  
Vol 35 (1) ◽  
pp. 27-32 ◽  
Author(s):  
María P. Martín ◽  
Scott LaGreca ◽  
H. Thorsten Lumbsch
Keyword(s):  
Sequence Data ◽  
Cladistic Analysis ◽  
Sister Group ◽  
Morphological Data ◽  
Bootstrap Support ◽  
Evolutionary Trend ◽  
5.8S Rdna ◽  
Rdna Sequences ◽  
Strong Bootstrap Support ◽  
Nuclear Its

AbstractThe phylogeny of the genus Diploschistes was investigated using nucleotide sequences of the nuclear ITS rDNA region (ITS1, ITS2 and 5.8S rDNA). Sequences of 22 Diploschistes species were aligned to those of six other species of Thelotremataceae, Graphis scripta and Aspicilia cinerea, with the last used as an outgroup. The alignment was analysed cladistically using maximum parsimony. In the most parsimonious trees, Diploschistes is monophyletic, with D. ocellatus being a sister group to the remaining Diploschistes spp. (= Diploschistes s. str.). A previous cladistic analysis of morphological data suggested an evolutionary trend within the genus from perithecioid to urceolate ascomata. The present ITS data suggest the opposite: perithecioid ascomata are apparently an apomorphic character within the genus, with the actinostomus group forming a derived monophyletic clade. However, the topology within Diploschistes s. str. Lacks strong bootstrap support.

Phaeosphaeria chinensis sp. nov. (Phaeosphaeriaceae) with an asexual/sexual morph connection from GuangDong Province, China

Phytotaxa ◽  
2019 ◽  
Vol 419 (1) ◽  
pp. 28-38 ◽  
Author(s):  
KE-KE ZHANG ◽  
SINANG HONGSANAN ◽  
DANUSHKA S. TENNAKOON ◽  
SHENG-LI TIAN ◽  
NING XIE
Keyword(s):  
New Species ◽  
Bayesian Inference ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Guangdong Province ◽  
Distinct Species ◽  
Bootstrap Support ◽  
Comprehensive Description ◽  
High Bootstrap ◽  
Asexual Morphs

Phaeosphaeria chinensis sp. nov. was found on dead leaves, collected from Guangdong Province, China. Morphology of the new species was compared with other Phaeosphaeria species and related genera of Phaeosphaeriaceae. Phylogenetic analyses of combined ITS, LSU, SSU and TEF-1 sequence data based on maximum parsimony (MP), maximum likelihood (ML) and Bayesian inference (BI) revealed that P. chinensis as a distinct species within the Phaeosphaeria with high bootstrap support. The comparison of the new species with other Phaeosphaeria species and a comprehensive description and micrographs are provided. The linkage of sexual and asexual morphs of the new species is also showed.

Phylogeny of the Parmeliaceae–DNA Data Versus Morphological Data

1998 ◽  
Vol 30 (4-5) ◽  
pp. 463-472 ◽  
Author(s):  
Jan-Eric Mattsson ◽  
Mats Wedin
Keyword(s):  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Morphological Data ◽  
Slight Variation ◽  
Hypogymnia Physodes ◽  
Nuclear Rdna ◽  
Future Studies ◽  
The Family ◽  
Rdna Sequence Data ◽  
Close Relationship

AbstractIn order to identify monophyletic groups within the family Parmeliaceae, eleven taxa (Bryoria capillaris, Cetraria islandica, Evernia pruniastri, Hypogymnia physodes, Parmelia saxatilis, Platismatia glauca, Pleurosticta acetabulum, Usneaflorida, Vulpicida juniperina, V. pinastri, and Xanthoparmelia conspersa) were studied using newly produced nuclear rDNA sequence data from the ITS and 5·8S regions. The resulting evolutionary hypothesis was compared with results from previous phylogenetic analyses based on anatomy, morphology, and chemistry. The outcome of this comparison does not support the earlier proposed phylogenies but is not stable enough for identifying monophyletic groups, with one exception. The results indicate a close relationship between Cetraria and Vulpicida, which is contradictory to previous published analyses. The variation in ascus structures in the Parmeliaceae is discussed and it is questioned whether the earlier distinguished ‘ forms ’ of ascus types represent synapomorphies, if they are based on poorly supported analyses, or if they are exaggerations of relatively slight variation in shape. Further interpretations of the results are discussed and areas of future studies based on DNA-data are suggested.

Monophyly of the family Desmoscolecidae (Nematoda, Demoscolecida) and Its Phylogenetic position inferred from 18S rDNA sequences

2009 ◽  
Vol 27 (5) ◽  
pp. 515-523 ◽  
Author(s):  
Ui Wook Hwang ◽  
Eun Hwa Choi ◽  
Dong Sung Kim ◽  
Wilfrida Decraemer ◽  
Cheon Young Chang
Keyword(s):  
18S Rdna ◽  
Phylogenetic Position ◽  
Rdna Sequences ◽  
The Family ◽  
18S Rdna Sequences

scholarly journals Taxonomic characterization of ten Thraustochytrids strains isolated from mangrove Xuan Thuy, Nam Dinh

2016 ◽  
Vol 14 (2) ◽  
pp. 377-384
Author(s):  
Nguyễn Thị Hoài Hà ◽  
Phạm Thị Bích Đào ◽  
Nguyễn Đình Tuấn
Keyword(s):  
Cell Division ◽  
18S Rdna ◽  
Rdna Sequences ◽  
Marine Habitats ◽  
The Family ◽  
Molecular Phylogenetic ◽  
Binary Division ◽  
18S Rdna Sequences ◽  
Amoeboid Cells

Thraustochytrids have become of considerable industrial and scientific interest in the past decade due to their health benefits. Thraustochytrids are found in a wide variety of marine habitats such as the coastal, mangrove and sediments including the deep sea. Thraustochytrids are extremely common on the detritus, macroalgae and decaying leaf, they play an important role as organic matter-degrading microorganisms Thraustochytrids are unicellular, eukaryotic, chemo-organotrophic organisms. Ten thraustochytrids strains PT269, PT270, PT273, PT274, PT279, PT284, PT285, PT287, PT81, PT84 were isolated from four locations in Xuan Thuy mangroves, Nam Dinh. In this report, classification is based on morphology and 18S rDNA sequences. Ten Thraustochytrid strains could be classified into three types of colony and four types of cell morphology. Molecular phylogenetic analysis of 18S rDNA sequences showed homology score to be 99-100% and these strains belonged to four genera in the family Thraustochytriaceae. PT269, PT279, PT284 and PT287 strains belong to Aurantiochytrium genus, they produce amoeboid cells and occur successive binary division. PT273 and PT285 strains belong to Thraustochytrium genus, thallus directly develop and cleave into sporangium. PT274 strain belong to Aplanochytrium genus with two distinct development, amoeboid cells are found, they rapidly round up and become sporangium; and successive binary cell division. PT270, PT81 and PT84 strains belong to genus Schizochytrium, they have successive binary cell division, zoospores release.

scholarly journals Revisiting the Zingiberales: using multiplexed exon capture to resolve ancient and recent phylogenetic splits in a charismatic plant lineage

PeerJ ◽  
2016 ◽  
Vol 4 ◽  
pp. e1584 ◽  
Author(s):  
Chodon Sass ◽  
William J.D. Iles ◽  
Craig F. Barrett ◽  
Selena Y. Smith ◽  
Chelsea D. Specht
Keyword(s):  
Family Relationships ◽  
Phylogenetic Relationships ◽  
Sequence Data ◽  
Cost Effective ◽  
Model Systems ◽  
Bootstrap Support ◽  
Exon Capture ◽  
Cost Effective Method ◽  
High Bootstrap ◽  
Phylogenetic Estimation

The Zingiberales are an iconic order of monocotyledonous plants comprising eight families with distinctive and diverse floral morphologies and representing an important ecological element of tropical and subtropical forests. While the eight families are demonstrated to be monophyletic, phylogenetic relationships among these families remain unresolved. Neither combined morphological and molecular studies nor recent attempts to resolve family relationships using sequence data from whole plastomes has resulted in a well-supported, family-level phylogenetic hypothesis of relationships. Here we approach this challenge by leveraging the complete genome of one member of the order,Musa acuminata, together with transcriptome information from each of the other seven families to design a set of nuclear loci that can be enriched from highly divergent taxa with a single array-based capture of indexed genomic DNA. A total of 494 exons from 418 nuclear genes were captured for 53 ingroup taxa. The entire plastid genome was also captured for the same 53 taxa. Of the total genes captured, 308 nuclear and 68 plastid genes were used for phylogenetic estimation. The concatenated plastid and nuclear dataset supports the position of Musaceae as sister to the remaining seven families. Moreover, the combined dataset recovers known intra- and inter-family phylogenetic relationships with generally high bootstrap support. This is a flexible and cost effective method that gives the broader plant biology community a tool for generating phylogenomic scale sequence data in non-model systems at varying evolutionary depths.

Molecular Phylogeny of the Family Ophryscolecidae (Ciliophora, Litostomatea) Inferred from 18S rDNA Sequences

2015 ◽  
Vol 62 (5) ◽  
pp. 584-590 ◽  
Author(s):  
Mariana F. Rossi ◽  
Roberto Júnio. P. Dias ◽  
Marcus V. X. Senra ◽  
Isabel Martinele ◽  
Carlos A. G. Soares ◽  
...  
Keyword(s):  
Molecular Phylogeny ◽  
18S Rdna ◽  
Rdna Sequences ◽  
The Family ◽  
18S Rdna Sequences

Molecular phylogeny of the family Bacillariaceae based on 18S rDNA sequences: focus on freshwaterNitzschiaof the sectionLanceolatae

2011 ◽  
Vol 26 (3) ◽  
pp. 273-291 ◽  
Author(s):  
Frédéric Rimet ◽  
Lenaïg Kermarrec ◽  
Agnès Bouchez ◽  
Lucien Hoffmann ◽  
Luc Ector ◽  
...  
Keyword(s):  
Molecular Phylogeny ◽  
18S Rdna ◽  
Rdna Sequences ◽  
The Family ◽  
18S Rdna Sequences

scholarly journals Corrigendum to: Phylogeny and biogeography of the ant subfamily Myrmeciinae (Hymenoptera : Formicidae)

2003 ◽  
Vol 17 (4) ◽  
pp. 605 ◽  
Author(s):  
Philip S. Ward ◽  
Seán G. Brady
Keyword(s):  
Sequence Data ◽  
Strong Support ◽  
Sister Group ◽  
Molecular Data ◽  
Morphological Data ◽  
Recent Common Ancestor ◽  
Bootstrap Support ◽  
Data Set ◽  
Molecular Sequence Data ◽  
Most Recent Common Ancestor

We investigated phylogenetic relationships among the 'primitive' Australian ant genera Myrmecia and Nothomyrmecia (stat. rev.) and the Baltic amber fossil genus Prionomyrmex, using a combination of morphological and molecular data. Outgroups for the analysis included representatives from a variety of potential sister-groups, including five extant subfamilies of ants and one extinct group (Sphecomyrminae). Parsimony analysis of the morphological data provides strong support (~95% bootstrap proportions) for the monophyly of (1) genus Myrmecia, (2) genus Prionomyrmex, and (3) a clade containing those two genera plus Nothomyrmecia. A group comprising Nothomyrmecia and Prionomyrmex is also upheld (85% bootstrap support). Molecular sequence data (~2200 base pairs from the 18S and 28S ribosomal RNA genes) corroborate these findings for extant taxa, with Myrmecia and Nothomyrmecia appearing as sister-groups with ~100% bootstrap support under parsimony, neighbour-joining and maximum-likelihood analyses. Neither the molecular nor the morphological data set allows us to identify unambiguously the sister-group of (Myrmecia + (Nothomyrmecia + Prionomyrmex)). Rather, Myrmecia and relatives are part of an unresolved polytomy that encompasses most of the ant subfamilies. Taken as a whole, our results support the contention that many of the major lineages of ants – including a clade that later came to contain Myrmecia, Nothomyrmecia and Prionomyrmex – arose at around the same time during a bout of diversification in the middle or late Cretaceous. On the basis of Bayesian dating analysis, the estimated age of the most recent common ancestor of Myrmecia and Nothomyrmecia is 74 million years (95% confidence limits, 53–101�million years), a result consistent with the origin of the myrmeciine stem lineage in the Cretaceous. The ant subfamily Myrmeciinae is redefined to contain two tribes, Myrmeciini (genus Myrmecia) and Prionomyrmecini (Nothomyrmecia and Prionomyrmex). Phylogenetic analysis of the enigmatic Argentine fossils Ameghinoia and Polanskiella demonstrates that they are also members of the Myrmeciinae, probably more closely related to Prionomyrmecini than to Myrmeciini. Thus, the myrmeciine ants appear to be a formerly widespread group that retained many ancestral formicid characteristics and that became extinct everywhere except in the Australian region.

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