Paleontological data and molecular phylogenetic analysis

Paleobiology ◽  
1994 ◽  
Vol 20 (3) ◽  
pp. 259-273 ◽  
Author(s):  
Andrew B. Smith ◽  
D. T. J. Littlewood
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Evolution ◽  
Sequence Data ◽  
Molecular Data ◽  
Total Evidence ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Sequence Data ◽  
Geological Past ◽  
Molecular Phylogenetic ◽  
Rates Of Molecular Evolution

Molecular data are becoming an indispensable tool for the reconstruction of phylogenies. Fossil molecular data remain scarce, but have the potential to resolve patterns of deep branching and provide empirical tests of tree reconstruction techniques. A total evidence approach, combining and comparing complementary morphological, molecular and stratigraphical data from both recent and fossil taxa, is advocated as the most promising way forward because there are several well-established problems that can afflict the analysis of molecular sequence data sometimes resulting in spurious tree topologies. The integration of evidence allows us to: (1) choose suitable taxa for molecular phylogenetic analysis for the question at hand; (2) discriminate between conflicting hypotheses of taxonomic relationship and phylogeny; (3) evaluate procedures and assumptions underlying methods of building trees; and (4) estimate rates of molecular evolution in the geological past. Paleontology offers a set of independent data for comparison and corroboration of analyses and provides the only direct means of calibrating molecular trees, thus giving insight into rates of molecular evolution in the geological past.

Molecular phylogeny of Pemphiginae (Hemiptera: Aphididae) inferred from nuclear gene EF-1α sequences

2008 ◽  
Vol 98 (5) ◽  
pp. 499-507 ◽  
Author(s):  
H.C. Zhang ◽  
G.X. Qiao
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Phylogeny ◽  
Host Specificity ◽  
Nuclear Gene ◽  
Molecular Data ◽  
Molecular Phylogenetic Analysis ◽  
Phylogenetic Study ◽  
Primary Host ◽  
Molecular Phylogenetic Study ◽  
Molecular Phylogenetic

AbstractThree traditional tribes of Fordini, Pemphigini and Eriosomatini comprise Pemphiginae, and there are two subtribes in Fordini and Pemphigini, respectively. Most of the species in this subfamily live heteroecious holocyclic lives with distinct primary host specificity. The three tribes of Pemphigini (except Prociphilina), Eriosomatini and Fordini use three families of plants, Salicaceae (Populus), Ulmaceae (Ulums) and Anacardiaceae (Pistacia and Rhus), as primary hosts, respectively, and form galls on them. Therefore, the Pemphigids are well known as gall makers, and their galls can be divided into true galls and pseudo-galls in type. We performed the first molecular phylogenetic study of Pemphiginae based on molecular data (EF-1α sequences). Results show that Pemphiginae is probably not a monophylum, but the monophyly of Fordini is supported robustly. The monophyly of Pemphigini is not supported, and two subtribes in it, Pemphigina and Prociphilina, are suggested to be raised to tribal level, equal with Fordini and Eriosomatini. The molecular phylogenetic analysis does not show definite relationships among the four tribes of Pemphiginae, as in the previous phylogenetic study based on morphology. It seems that the four tribes radiated at nearly the same time and then evolved independently. Based on this, we can speculate that galls originated independently four times in the four tribes, and there is no evidence to support that true galls are preceded by pseudo-galls, as in the case of thrips and willow sawflies.

Russula rubricolor sp. nov. from Himalayan forests of Pakistan

Mycotaxon ◽  
2020 ◽  
Vol 135 (4) ◽  
pp. 765-776
Author(s):  
Sana Jabeen ◽  
Arooj Naseer ◽  
Abdul Nasir Khalid
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Sequence Data ◽  
Molecular Phylogenetic Analysis ◽  
Its Sequence ◽  
Central Depression ◽  
Molecular Phylogenetic ◽  
A New Species ◽  
Himalayan Forests

A new species, Russula rubricolor, was collected in the Himalayan forests of Pakistan. This species is morphologically characterized by the yellowish hymenium, bright red pileus that is convex to flat with central depression and finally infundibuliform and striate towards margin, becoming blackish red with age. The newly reported species is placed in Russula subsect. Maculatinae based molecular phylogenetic analysis of ITS sequence data and supported by the red pileus color.

A framework for a phylogenetic classification in the genus Cortinarius (Basidiomycota, Agaricales) derived from morphological and molecular data

2005 ◽  
Vol 83 (11) ◽  
pp. 1457-1477 ◽  
Author(s):  
Sigisfredo Garnica ◽  
Michael Weiß ◽  
Bernhard Oertel ◽  
Franz Oberwinkler
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Data ◽  
Internal Transcribed Spacers ◽  
Molecular Phylogenetic Analysis ◽  
Nuclear Rdna ◽  
Ecological Data ◽  
Natural Classification ◽  
Geographical Patterns ◽  
Rdna Sequences ◽  
Molecular Phylogenetic

Phylogenetic relationships in the genus Cortinarius with emphasis on European species were studied by integrating a molecular phylogenetic analysis of nuclear rDNA sequences with morphological, chemical, and ecological data. Internal transcribed spacers (ITS1 and ITS2, including 5.8S) and the D1–D2 regions of nuclear rDNA of 262 Cortinarius species including most of the recognised subgenera from Europe, South America, Australia, Tasmania, New Zealand, and Asia were sequenced and analysed by maximum likelihood and neighbour joining. Our morphological and molecular analyses showed considerable disagreement with earlier morphology-based hypotheses concerning the infrageneric delimitations in Cortinarius. We propose a new base for a more natural classification system in Cortinarius involving the taxonomic rearrangement of the species into the following major lineages that we informally designate as “clades” at this time: (1) phlegmacioid species are included in Alluti, Amarescentes, Arguti, Calochroi, Caerulescentes, Percomes, Phlegmacioides, Phlegmacium, Purpurascentes, Scauri, and Vulpini; (2) the Heterocliti clade includes species of the subgenera Leprocybe and Cystogenes ; (3) most of the Myxacium species are included in the Delibuti and Myxacium clades; (4) part of Rozites are included in the Rozites clade; (5) the north-hemispheric species of subgenus Dermocybe are included in the Dermocybe clade and part of the south-hemispheric species in the Splendidi clade; (6) part of Sericeocybe are integrated in the Anomali and Telamonia clades; (7) members of subgenus Cortinarius are assigned to the Cortinarius clade; (8) telamonioid taxa are included in the Obtusi, Renidentes, and Telamonia clades. Several Cortinarius species with peculiar patterns of morphology and basidiome coloration had isolated positions in the sequence analysis, and the evolutionary relationships among the major lineages remained unresolved. Our results suggest the convergent evolution of certain morphological traits across phylogenetically divergent lineages in Cortinarius. However, combinations of features such as pileipellis anatomy, spore shape, veil coloration, basidiome pigments, and stipe shape appear useful to circumscribe clades. Our molecular phylogenetic analysis allows insights in global geographical patterns of species distribution within the major lineages in the genus Cortinarius. The clade structure proposed here could be used as backbone for further more detailed systematic studies.

scholarly journals Zehneria grandibracteata (Cucurbitaceae), an overlooked new species from western Kenyan forests

PhytoKeys ◽  
2020 ◽  
Vol 165 ◽  
pp. 85-98
Author(s):  
Neng Wei ◽  
Zhi-Xiang Zhong ◽  
David Kimutai Melly ◽  
Solomon Kipkoech ◽  
Benjamin Muema Watuma ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Molecular Data ◽  
Molecular Phylogenetic Analysis ◽  
Western Kenya ◽  
Entire Plant ◽  
Molecular Phylogenetic ◽  
Morphological And Molecular Data ◽  
A New Species

Zehneria grandibracteata, a new species of Cucurbitaceae from western Kenya, is described here, based on morphological and molecular data. It has long been misidentified as the widely-distributed species Z. scabra. However, it differs by its ovate leafy probract at the base of the inflorescences, subglabrous condition of the entire plant, shorter receptacle-tube and filaments, as well as denser and sessile inflorescences. Furthermore, the molecular phylogenetic analysis of Zehneria, based on nrITS sequences, further supports the argument that Z. grandibracteata should be segregated from Z. scabra.

Stellaria multipartita (Caryophyllaceae), a new species from Chongqing, China

Phytotaxa ◽  
2020 ◽  
Vol 442 (3) ◽  
pp. 196-204 ◽  
Author(s):  
YAN-FENG SONG ◽  
MENG LI ◽  
BO XU ◽  
SHUI-FEI CHEN ◽  
LIN CHEN ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Molecular Data ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Phylogenetic ◽  
Morphological And Molecular Data ◽  
A New Species

Stellaria multipartita sp. nov. (Caryophyllaceae) from Chongqing, China, is described and illustrated based on morphological and molecular data. The new species is similar to S. radians by the palmately fimbriate petals with more linear divisions. Different characters are: shape of the leaves (oblong-triangular to ovate-triangular vs. oblong-lanceolate to ovate-lanceolate in S. radians), petals (10–12-cleft vs. 5–7-cleft in S. radians), and seeds (with mamillate ornamentation vs. scrobiculate ornamentation in S. radians). A molecular phylogenetic analysis supports the recognition of Chongqing population as a new species for science.

A new species of Tetrataenium (Tordyliinae, Apiaceae) from SW Yunnan, China, based on morphological and molecular data

Phytotaxa ◽  
2021 ◽  
Vol 491 (1) ◽  
pp. 85-91
Author(s):  
ZE-HUAN WANG ◽  
YI WANG ◽  
BAO-LIN LIU ◽  
CHAO-HE WANG ◽  
XIAN-GUO FU
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Molecular Data ◽  
Sensu Stricto ◽  
The Other ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Phylogenetic ◽  
Nuclear Its ◽  
Morphological And Molecular Data ◽  
A New Species

Tetrataenium mianguaqi, a traditionally used medicinal herb in Cangyuan County, SW Yunnan, China, is described as a species new to science and illustrated. Molecular phylogenetic analysis based on nuclear ITS well supports its belonging to Tetrataenium sensu stricto. The new species can be easily distinguished by its unique peltate, palmatilobate basal and lower leaves from the other five Chinese Tetrataenium species.

Description of Hypocambala zizhongi sp. nov. and the new combination, Glyphiulus polytrichus (Golovatch et al., 2011) comb. nov., based on morphological and molecular data (Spirostreptida: Cambalidea: Cambalopsidae)

Zootaxa ◽  
2021 ◽  
Vol 4903 (3) ◽  
pp. 405-418
Author(s):  
XUAN-KONG JIANG ◽  
ZU-XU ZHANG ◽  
HUI-MING CHEN ◽  
ZHI-CAI XIE
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Molecular Data ◽  
New Combination ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Phylogenetic ◽  
Morphological And Molecular Data ◽  
A New Species

The recent delimitation of the cambalopsid genera Hypocambala and Glyphiulus is debatable. The focus of controversy is whether the presence of crests on the trunk rings is an appropriate key character dividing these two genera. To address this issue, we conducted a molecular phylogenetic analysis including species with or without crests belonging to Hypocambala and species with crests belonging to Glyphiulus. The results of the phylogenetic analysis suggest that cambalopsids with crests are monophyletic and sister to a species without crests. Hypocambala polytricha, a cambalopsid with crests that is in a clade with crested Glyphiulus species, should be transferred to Glyphiulus. Therefore, a new combination is proposed, Glyphiulus polytrichus comb. nov. In addition, a discussion on the boundary between these two genera and a description of a new species, Hypocambala zizhongi sp. nov., are provided. 

A new species of Clavariadelphus (Basidiomycota: Clavariadelphaceae) from China based on morphological and molecular data

Phytotaxa ◽  
2020 ◽  
Vol 447 (1) ◽  
pp. 61-67
Author(s):  
LU XIA ◽  
LI FAN
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
North China ◽  
Molecular Data ◽  
Its Sequences ◽  
Molecular Phylogenetic Analysis ◽  
Molecular Phylogenetic ◽  
Morphological And Molecular Data ◽  
A New Species

Clavariadelphus griseoclavus sp. nov. is described and illustrated from North China. Morphologically, the new species is distinguished from other Clavariadelphus species by its grey to greyish basidiomata. Molecular phylogenetic analysis based on ITS sequences is provided and supports the establishment of the new species.

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