scholarly journals Comparative systematics and phylogeography ofQuercusSectionCerrisin western Eurasia: inferences from plastid and nuclear DNA variation

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e5793 ◽  
Author(s):  
Marco Cosimo Simeone ◽  
Simone Cardoni ◽  
Roberta Piredda ◽  
Francesca Imperatori ◽  
Michael Avishai ◽  
...  
Keyword(s):  
Nuclear Dna ◽  
East Asian ◽  
Northeast Asia ◽  
Hybrid Origin ◽  
Dna Variation ◽  
Early Oligocene ◽  
Eurasian Lineage ◽  
Taxonomic Framework ◽  
Chloroplast Haplotypes ◽  
Western Eurasia

Oaks (Quercus) comprise more than 400 species worldwide and centres of diversity for most sections lie in the Americas and East/Southeast Asia. The only exception is the Eurasian sect.Cerristhat comprises about 15 species, most of which are confined to western Eurasia. This section has not been comprehensively studied using molecular tools. Here, we assess species diversity and provide a first comprehensive taxonomic and phylogeographic scheme of western Eurasian members of sect.Cerrisusing plastid (trnH-psbA) and nuclear (5S-IGS) DNA variation with a dense intra-specific and geographic sampling. Chloroplast haplotypes primarily reflected phylogeographic patterns originating from interspecific cytoplasmic gene flow within sect.Cerrisand its sister sectionIlex. We identified two widespread and ancestral haplotypes, and locally restricted derived variants. Signatures shared with Mediterranean species of sect.Ilex, but not with the East AsianCerrisoaks,suggest that the western Eurasian lineage came into contact withIlexonly after the first (early Oligocene) members of sect.Cerrisin Northeast Asia had begun to radiate and move westwards. Nuclear 5S-IGS diversification patterns were more useful for establishing a molecular-taxonomic framework and to reveal hybridization and reticulation. Four main evolutionary lineages were identified. The first lineage is comprised ofQ. libani,Q. trojanaandQ. afaresand appears to be closest to the root of sect.Cerris. These taxa are morphologically most similar to the East Asian species ofCerris, and to both Oligocene and Miocene fossils of East Asia and Miocene fossils of western Eurasia. The second lineage is mainly composed of the widespreadQ. cerrisand the narrow endemic speciesQ. castaneifolia, Q. look, andQ. euboica. The third lineage comprises three Near East species (Q. brantii,Q. ithaburensisandQ. macrolepis), well adapted to continental climates with cold winters. The forth lineage appears to be the most derived and comprisesQ. suberandQ. crenata.Q. cerrisandQ.  trojanadisplayed high levels of variation;Q. macrolepisandQ. euboica,previously treated as subspecies ofQ. ithaburensisandQ. trojana,likely deserve independent species status. A trend towards inter-specific crosses was detected in several taxa; however, we found no clear evidence of a hybrid origin ofQ.afaresandQ. crenata, as currently assumed.

scholarly journals Comparative systematics and phylogeography of Quercus Section Cerris in western Eurasia: inferences from plastid and nuclear DNA variation

2018 ◽  
Author(s):  
Marco Cosimo Simeone ◽  
Simone Cardoni ◽  
Roberta Piredda ◽  
Francesca Imperatori ◽  
Michael Avishai ◽  
...  
Keyword(s):  
Nuclear Dna ◽  
East Asian ◽  
Northeast Asia ◽  
Hybrid Origin ◽  
Dna Variation ◽  
Early Oligocene ◽  
Eurasian Lineage ◽  
Taxonomic Framework ◽  
Chloroplast Haplotypes ◽  
Western Eurasia

Oaks (Quercus) comprise more than 400 species worldwide and centres of diversity for most sections lie in the Americas and East/Southeast Asia. The only exception is the Eurasian Sect. Cerris that comprises 15 species, a dozen of which are confined to western Eurasia. This section has not been comprehensively studied using molecular tools. Here, we assess species diversity and reconstruct a first comprehensive taxonomic scheme of western Eurasian members of Sect. Cerris using plastid (trnH-psbA) and nuclear (5S-IGS) DNA variation with a dense intra-specific and geographic sampling. Chloroplast haplotypes primarily reflected geographic patterns of species coevolution within Sect. Cerris and its sister section Ilex. We identified two widespread and ancestral haplotypes, and less common, locally restricted, derived variants. Signatures shared with Mediterranean species of Sect. Ilex, but not with the East Asian Cerris siblings, suggest that the western Eurasian lineage came into contact with Ilex only after the first (early Oligocene) members of Sect. Cerris in Northeast Asia had begun to radiate and move westwards. Nuclear 5S-IGS diversification patterns were more efficient for establishing a molecular-taxonomic framework and to reveal hybridization and reticulation processes. Four main evolutionary lineages were identified. The first lineage comprises Q. libani, Q. trojana and Q. afares and appears to be closest to the root of Sect. Cerris. These taxa are morphologically most similar to the East Asian species of Cerris, and to both Oligocene and Miocene fossils of East Asia and Miocene fossils of western Eurasia. The second lineage is mainly composed of the widespread Q. cerris and the narrow endemic species Q. castaneifolia, Q. look, and Q. euboica. The third lineage comprises three Near East species (Q. brantii, Q. ithaburensis and Q. macrolepis), well adapted to continental climates with cold winters. The forth lineage appears the most derived and comprises Q. suber, the cork oak, and Q. crenata. Quercus cerris and Q. trojana displayed exceptional levels of variation; Q. macrolepis and Q. euboica, previously treated as subspecies of Q. ithaburensis and Q. trojana, likely deserve an independent species status. A trend towards inter-specific crosses was detected in several taxa; however, we found no clear evidence of a hybrid origin of Q. afares and Q. crenata, as currently assumed. Phylogeographic inferences on the origin and diversification of Quercus Sect. Cerris are provided to fill an important gap in the knowledge of oak diversity and evolution.

scholarly journals Comparative systematics and phylogeography of Quercus Section Cerris in western Eurasia: inferences from plastid and nuclear DNA variation

2018 ◽  
Author(s):  
Marco Cosimo Simeone ◽  
Simone Cardoni ◽  
Roberta Piredda ◽  
Francesca Imperatori ◽  
Michael Avishai ◽  
...  
Keyword(s):  
Nuclear Dna ◽  
East Asian ◽  
Northeast Asia ◽  
Hybrid Origin ◽  
Dna Variation ◽  
Early Oligocene ◽  
Eurasian Lineage ◽  
Taxonomic Framework ◽  
Chloroplast Haplotypes ◽  
Western Eurasia

Oaks (Quercus) comprise more than 400 species worldwide and centres of diversity for most sections lie in the Americas and East/Southeast Asia. The only exception is the Eurasian Sect. Cerris that comprises 15 species, a dozen of which are confined to western Eurasia. This section has not been comprehensively studied using molecular tools. Here, we assess species diversity and reconstruct a first comprehensive taxonomic scheme of western Eurasian members of Sect. Cerris using plastid (trnH-psbA) and nuclear (5S-IGS) DNA variation with a dense intra-specific and geographic sampling. Chloroplast haplotypes primarily reflected geographic patterns of species coevolution within Sect. Cerris and its sister section Ilex. We identified two widespread and ancestral haplotypes, and less common, locally restricted, derived variants. Signatures shared with Mediterranean species of Sect. Ilex, but not with the East Asian Cerris siblings, suggest that the western Eurasian lineage came into contact with Ilex only after the first (early Oligocene) members of Sect. Cerris in Northeast Asia had begun to radiate and move westwards. Nuclear 5S-IGS diversification patterns were more efficient for establishing a molecular-taxonomic framework and to reveal hybridization and reticulation processes. Four main evolutionary lineages were identified. The first lineage comprises Q. libani, Q. trojana and Q. afares and appears to be closest to the root of Sect. Cerris. These taxa are morphologically most similar to the East Asian species of Cerris, and to both Oligocene and Miocene fossils of East Asia and Miocene fossils of western Eurasia. The second lineage is mainly composed of the widespread Q. cerris and the narrow endemic species Q. castaneifolia, Q. look, and Q. euboica. The third lineage comprises three Near East species (Q. brantii, Q. ithaburensis and Q. macrolepis), well adapted to continental climates with cold winters. The forth lineage appears the most derived and comprises Q. suber, the cork oak, and Q. crenata. Quercus cerris and Q. trojana displayed exceptional levels of variation; Q. macrolepis and Q. euboica, previously treated as subspecies of Q. ithaburensis and Q. trojana, likely deserve an independent species status. A trend towards inter-specific crosses was detected in several taxa; however, we found no clear evidence of a hybrid origin of Q. afares and Q. crenata, as currently assumed. Phylogeographic inferences on the origin and diversification of Quercus Sect. Cerris are provided to fill an important gap in the knowledge of oak diversity and evolution.

East Asian Exceptionalism to Western Populism and Migration Crisis

2018 ◽  
pp. 196-210
Author(s):  
John Lie
Keyword(s):  
World War Ii ◽  
East Asia ◽  
East Asian ◽  
Northeast Asia ◽  
Historical Account ◽  
World War ◽  
Post World War Ii ◽  
The World ◽  
Migration Crisis ◽  
And Migration

In the 2010s, the world is seemingly awash with waves of populism and anti-immigration movements. Yet virtually all discussions, owing to the prevailing Eurocentric perspective, bypass East Asia (more accurately, Northeast Asia) and the absence of strong populist or anti-immigration discourses or politics. This chapter presents a comparative and historical account of East Asian exceptionalism in the matter of migration crisis, especially given the West’s embrace of an insider-outsider dichotomy superseding the class- and nation-based divisions of the post–World War II era. The chapter also discusses some nascent articulations of Western-style populist discourses in Northeast Asia, and concludes with the potential for migration crisis in the region.

Mitochondrial and nuclear DNA variation, genotype fingerprinting and genetic relationships in lentil (Lens culinaris Medik.)

1997 ◽  
Vol 77 (4) ◽  
pp. 515-521 ◽  
Author(s):  
Om P. Rajora ◽  
John D. Mahon
Keyword(s):  
Mitochondrial Dna ◽  
Restriction Fragment ◽  
Lens Culinaris ◽  
Nuclear Dna ◽  
Genetic Relationships ◽  
Restriction Enzymes ◽  
Dna Variation ◽  
Apocytochrome B ◽  
Nuclear Dna Variation ◽  
Mean Similarity

Mitochondrial DNA (mtDNA) and nuclear DNA (nuDNA) variations were examined in six cultivars of Lens culinaris ssp. culinaris and two (mtDNA) or one (nuDNA) accession(s) of L. culinaris ssp. orientalis. Total leaf DNA was digested with up to 15 restriction endonucleases, separated by agarose gel electrophoresis and trasferred to nylon membranes. To examine mtDNA variation, blots were probed with mtDNA coding for cytochrome c oxidase I (coxI) and ATPase 6 (atp6) of both wheat and maize as well as apocytochrome b (cob) and Orf25 (orf25) of wheat. Sixteen combinations of mtDNA probes and restriction enzymes revealed 34 fragments that discriminated between at least two lentil accessions. For nuDNA analysis, probes from cDNA and genomic DNA clones of lentil were used to probe the same blots, and identified 46 diagnostic fragments from 19 probe/enzyme combinations. Each lentil accession could be unequivocably distinguished from all others on the basis of both mitochondrial and nuclear DNA fragment patterns. The mitochondrial restriction fragment similarities ranged from 0.944 to 0.989, with a mean of 0.970 but nuclear restriction fragment similarities varied from 0.582 to 0.987, with a mean of 0.743. The apparent genetic relationships among accessions differed according to the source of DNA examined, although the commercial varieties Laird, Brewer and Redchief showed similarly high levels of mean similarity with both nuclear (0.982) and mitochondrial DNA (0.983). Key words: Lens culinaris Medik., genetic variation, mitochondrial, nuclear, DNA, lentil

Molecular systematics of Thouarella (Octocorallia:Primnoidae) with the description of three new species from the Southern Ocean based on combined molecular and morphological evidence

2021 ◽  
Author(s):  
Mónica Núñez-Flores ◽  
Daniel Gomez-Uchida ◽  
Pablo J. López-González
Keyword(s):  
New Species ◽  
Southern Ocean ◽  
Species Delimitation ◽  
Nuclear Dna ◽  
Phylogenetic Analyses ◽  
Weddell Sea ◽  
Morphological Evidence ◽  
Three New Species ◽  
Taxonomic Framework ◽  
The Antarctic

Thouarella Gray, 1870, is one of the most speciose genera among gorgonians of the family Primnoidae (Cnidaria:Octocorallia:Anthozoa), being remarkably diverse in the Antarctic and sub-Antarctic seafloor. However, their diversity in the Southern Ocean is likely underestimated. Phylogenetic analyses of mitochondrial and nuclear DNA markers were integrated with species delimitation approaches as well as morphological colonial and polyps features and skeletal SEM examinations to describe and illustrate three new species within Thouarella, from the Weddell Sea, Southern Ocean: T. amundseni sp. nov., T. dolichoespinosa sp. nov. and T. pseudoislai sp. nov. Our species delimitation results suggest, for the first time, the potential presence of Antarctic and sub-Antarctic cryptic species of primnoids, based on the likely presence of sibling species within T. undulata and T. crenelata. With the three new species here described, the global diversity of Thouarella has increased to 41 species, 15 of which are endemic to the Antarctic and sub-Antarctic waters. Consequently, our results provide new steps for uncovering the shelf benthonic macrofauna’s hidden diversity in the Southern Ocean. Finally, we recommend using an integrative taxonomic framework in this group of organisms and species delimitation approaches because the distinctions between some Thouarella species based only on a superficial examination of their macro- and micromorphological features is, in many cases, limited.

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