ITS sequence variation supports the hybrid origin of Malus toringoides Hughes

2007 ◽  
Vol 85 (7) ◽  
pp. 659-666 ◽  
Author(s):  
Ting-Ting Feng ◽  
Zhi-Qin Zhou ◽  
Jian-Min Tang ◽  
Ming-Hao Cheng ◽  
Shi-Liang Zhou
Keyword(s):  
Sequence Variation ◽  
Gene Tree ◽  
Natural Populations ◽  
Its Sequences ◽  
Nuclear Ribosomal Dna ◽  
Hybrid Origin ◽  
Putative Hybrid ◽  
Molecular Evidence ◽  
Sequence Information ◽  
Aflp Data

Malus toringoides (Rehd.) Hughes was suggested to have originated from hybridization between Malus transitoria Schneid. and Malus kansuensis Rehd., followed by repeated backcrossing to one of the putative parents. In the present study, the sequence information of the internal transcribed spacer (ITS) of nuclear ribosomal DNA (nrDNA) was used to re-examine the origin of this species. A total of 69 accessions from three natural populations (Maerkang, Xiaba and Kehe, Aba Autonomous Region, Sichuan, China) of M. toringoides and 10 accessions of its putative parents were analyzed. Using Malus angustifolia (Ait.) Michx., Malus ioensis (Wood) Britt. and Malus doumeri Chev. as outgroups, our phylogenetic analysis of the ITS sequences of M. toringoides and its putative parents showed that M. toringoides was not monophyletic, and two different types of ITS sequences which were obtained from each of the six accessions of M. toringoides were found to have clustered separately with those of the two putative parent species on the gene tree. A comparison of the sequence variation between M. toringoides and its putative parents revealed an additive variation pattern of ITS sequences in the putative hybrid species. These results are consistent with the previous morphological and amplified fragment length polymorphism (AFLP) data which suggested that M. toringoides was of hybrid origin. Our ITS data provide new molecular evidence for the hybrid origin hypothesis of M. toringoides and these results are of great importance for future study on hybridization, polyploid speciation and evolution of the genus Malus Miller.

Genetic status of the putative hybrid swarms of mountain dwarf pine and Scots pine in contact zones of their distribution in Slovakia

Biologia ◽  
2015 ◽  
Vol 70 (10) ◽  
Author(s):  
Peter Maňka ◽  
Andrej Kormuťák ◽  
Martin Galgóci ◽  
Dušan Gömöry
Keyword(s):  
Genetic Structure ◽  
Scots Pine ◽  
Molecular Level ◽  
Natural Populations ◽  
Hybrid Origin ◽  
Putative Hybrid ◽  
Hybrid Swarm ◽  
Pure Species ◽  
Hybrid Swarms ◽  
History Of

AbstractGenetic structure of the mountain dwarf pine (Pinus mugo) and Scots pine (P. sylvestris) natural populations along with their 4 putative hybrid swarms in Slovakia were analyzed using 12 enzyme loci. The study aimed in evaluation of postulated hybrid status of the swarms on molecular level. Based on semidiagnostic allele frequencies of the MDH B, MDH C, 6PGDH B, ADH 1 and F-EST loci in their megagametophytes and vegetative buds, the conspicuous genetic differences were detected between P. mugo and P. sylvestris populations. The putative hybrid swarms seem to incline by their genetic structure to P. mugo rather than to P. sylvestris. Obtained results indicate independent developmental history of each of the scored hybrid swarms. The putative hybrid swarm in Sucha Hora was found to be a mixed stand consisting prevailingly of pure-species individuals of P. mugo and P. sylvestris. On the contrary, the putative hybrid swarms in Habovka, Tisovnica and Terchova are supposed to be of hybrid origin.

scholarly journals Molecular evidence and ecological niche modeling reveal an extensive hybrid zone among three Bursera species (section Bullockia)

PLoS ONE ◽  
2021 ◽  
Vol 16 (11) ◽  
pp. e0260382
Author(s):  
Eduardo Quintero Melecio ◽  
Yessica Rico ◽  
Andrés Lira Noriega ◽  
Antonio González Rodríguez
Keyword(s):  
Interspecific Hybridization ◽  
Hybrid Zone ◽  
Dna Sequences ◽  
Ecological Niche ◽  
Ecological Niche Modeling ◽  
Molecular Data ◽  
Niche Modeling ◽  
Hybrid Origin ◽  
Putative Hybrid ◽  
Molecular Evidence

The genus Bursera, includes ~100 shrub and trees species in tropical dry forests with its center of diversification and endemism in Mexico. Morphologically intermediate individuals have commonly been observed in Mexican Bursera in areas where closely related species coexist. These individuals are assumed to result from interspecific hybridization, but no molecular evidence has supported their hybrid origins. This study aimed to investigate the existence of interspecific hybridization among three Mexican Bursera species (Bullockia section: B. cuneata, B. palmeri and B. bipinnata) from nine populations based on DNA sequences (three nuclear and four chloroplast regions) and ecological niche modeling for three past and two future scenario projections. Results from the only two polymorphic nuclear regions (PEPC, ETS) supported the hybrid origin of morphologically intermediate individuals and revealed that B. cuneata and B. bipinnata are the parental species that are genetically closer to the putative hybrids. Ecological niche modeling accurately predicted the occurrence of putative hybrid populations and showed a potential hybrid zone extending in a larger area (74,000 km2) than previously thought. Paleo-reconstructions showed a potential hybrid zone existing from the Last Glacial Maximum (~ 21 kya) that has increased since the late Holocene to the present. Future ecological niche projections show an increment of suitability of the potential hybrid zone for 2050 and 2070 relative to the present. Hybrid zone changes responded mostly to an increase in elevational ranges. Our study provides the first insight of an extensive hybrid zone among three Mexican Bursera species based on molecular data and ecological niche modeling.

scholarly journals Molecular evidence of the hybrid origin of Cryptocoryne ×purpurea Ridl. nothovar. purpurea (Araceae)

PLoS ONE ◽  
2021 ◽  
Vol 16 (1) ◽  
pp. e0239499
Author(s):  
Rusly Rosazlina ◽  
Niels Jacobsen ◽  
Marian Ørgaard ◽  
Ahmad Sofiman Othman
Keyword(s):  
Parental Species ◽  
Peninsular Malaysia ◽  
Natural Hybridization ◽  
Nuclear Ribosomal Dna ◽  
Hybrid Origin ◽  
Distribution Area ◽  
Molecular Evidence ◽  
Sequencing Data ◽  
Sympatric Distribution ◽  
Putative Hybrids

Natural hybridization has been considered a source of taxonomic complexity in Cryptocoryne. A combined study of DNA sequencing data from the internal transcribed spacer (ITS) of nuclear ribosomal DNA and the trnK-matK region of chloroplast DNA was used to identify the parents of Cryptocoryne putative hybrids from Peninsular Malaysia. Based on the intermediate morphology and sympatric distribution area, the plants were tentatively identified as the hybrid Cryptocoryne ×purpurea nothovar. purpurea. The plants were pollen sterile and had long been considered as hybrids, supposedly between two related and co-existing species, C. cordata var. cordata and C. griffithii. The status of C. ×purpurea nothovar. purpurea was independently confirmed by the presence of an additive ITS sequence pattern from these two parental species in hybrid individuals. An analysis of the chloroplast trnK-matK sequences showed that the hybridization is bidirectional with the putative hybrids sharing identical sequences from C. cordata var. cordata and C. griffithii, indicating that both putative parental species had been the maternal parent in different accessions.

scholarly journals On the hybrid origin of the C2Salsola divaricata agg. (Amaranthaceae) from C3 and C4 parental lineages

2021 ◽  
Author(s):  
Delphine Tanita Tefarikis ◽  
Diego F Morales-Briones ◽  
Ya Yang ◽  
Gerald Edwards ◽  
Gudrun Kadereit
Keyword(s):  
Canary Islands ◽  
Gene Tree ◽  
Phylogenetic Networks ◽  
Hybrid Origin ◽  
Putative Hybrid ◽  
Species Trees ◽  
Independent Variation ◽  
Gene Tree Discordance ◽  
Photosynthetic Traits

C2 photosynthesis is characterized by recapturing photorespiratory CO2 by RuBisCO in Kranz-like cells and is therefore physiologically intermediate between C3 and C4 photosynthesis. C2 is either interpreted as an evolutionary precursor of C4 or as the result of hybridization between a C3 and C4 lineage. We compared the expression of photosynthetic traits among populations of the Salsola divaricata agg. (C2) from humid subtropical to arid habitats on the coasts of the Canary Islands and Morocco, and subjected them to salt and drought treatments. We screened for enhanced C4-like expression of traits related to habitat or treatment. We estimated species trees with a transcriptome dataset of Salsoleae and explored patterns of gene tree discordance. With phylogenetic networks and hybridization analyses we tested for hybrid origin of the Salsola divaricata agg. We observed independent variation of photosynthetic traits within and among populations and no clear evidence for selection towards C4-like trait expression in more stressful habitats or treatments. We found reticulation and gene tree incongruencies in the Salsoleae supporting a putative hybrid origin of the Salsola divaricata agg. C2 photosynthesis in the Salsola divaricata agg. combines traits inherited from its C3 and C4 parental lineages and seems well adapted to a wide climatic amplitude.

scholarly journals Molecular evidence for the hybrid origin of Cryptocoryne ×purpurea Ridl. nothovar. purpurea (Araceae)

2020 ◽  
Author(s):  
Rusly Rosazlina ◽  
Niels Jacobsen ◽  
Marian Ørgaard ◽  
Ahmad Sofiman Othman
Keyword(s):  
Internal Transcribed Spacer ◽  
Parental Species ◽  
Peninsular Malaysia ◽  
Natural Hybridization ◽  
Nuclear Ribosomal Dna ◽  
Hybrid Origin ◽  
Molecular Evidence ◽  
Sequencing Data ◽  
Sympatric Distribution ◽  
Putative Hybrids

AbstractNatural hybridization has been considered a source of taxonomic complexity in Cryptocoryne. A combined study of DNA sequencing data from internal transcribed spacer (ITS) of nuclear ribosomal DNA and trnK-matK region of chloroplast DNA was used to identify the parents of Cryptocoryne putative hybrids from Peninsular Malaysia. Based on the morphological intermediary and sympatric distribution, the plants were tentatively identified as the hybrid Cryptocoryne ×purpurea nothovar. purpurea; plants were pollen sterile and had long been considered to be hybrids, possibly between two related and co-existing species, C. cordata var. cordata and C. griffithii. The C. ×purpurea nothovar. purpurea status was independently confirmed by the presence of an additive ITS sequence pattern from these two parental species in hybrid individuals. Analysis of the chloroplast trnK-matK sequences showed that the hybridization is bidirectional with the putative hybrids sharing identical sequences from C. cordata var. cordata and C. griffithii, indicating that both putative parental species had been the maternal parent in different accessions.

scholarly journals Molecular phylogenetic analyses of internal transcribed spacer (ITS) sequences of nuclear ribosomal DNA indicate monophyly of the genus Phytolacca L. (Phytolaccaceae)

2015 ◽  
Vol 22 (1) ◽  
pp. 1-8 ◽  
Author(s):  
M. Ajmal Ali ◽  
Joongku Lee ◽  
Soo-Yong Kim ◽  
Sang-Hong Park ◽  
Fahad M.A. Al-Hemaid
Keyword(s):  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Analyses ◽  
Its Sequences ◽  
Nuclear Ribosomal Dna ◽  
Phylogenetic Study ◽  
Molecular Evidence ◽  
The Family ◽  
Molecular Phylogenetic ◽  
Plant Taxon

Relationships within the family Phytolaccaceae sensu lato were examined based on internal transcribed spacer (ITS) sequences of nuclear ribosomal DNA (nrDNA). The study revealed Phytolacca L. as taxonomically the most difficult genus in the family with completely unknown phylogeny. Molecular evidence was used from nrDNA ITS sequences of about 90% of the species for maximum parsimony analyses, and the molecular phylogenetic analyses defined a monophyletic Phytolacca. This first molecular phylogenetic study of Phytolacca concludes that the relationships among the species within the genus do not show harmony with the generic classification based on morphology. These results set the stage for a more detailed phylogenetic analysis of Phytolacca.Bangladesh J. Plant Taxon. 22(1): 1­–8, 2015 (June)

Molecular Evidence of Wolbachia Infection in Natural Populations of Tropical Odonates

2003 ◽  
Vol 47 (4) ◽  
pp. 314-318 ◽  
Author(s):  
Apisit Thipaksorn ◽  
Wanwisa Jamnongluk ◽  
Pattamaporn Kittayapong
Keyword(s):  
Natural Populations ◽  
Wolbachia Infection ◽  
Molecular Evidence

scholarly journals Sequence Variation in Two Protein-Coding Genes Correlates with Mycelial Compatibility Groupings in Sclerotium rolfsii

2013 ◽  
Vol 103 (5) ◽  
pp. 479-487 ◽  
Author(s):  
Efrén Remesal ◽  
Blanca B. Landa ◽  
María del Mar Jiménez-Gasco ◽  
Juan A. Navas-Cortés
Keyword(s):  
Rna Polymerase Ii ◽  
Sequence Variation ◽  
Geographic Origin ◽  
Sclerotium Rolfsii ◽  
Nuclear Ribosomal Dna ◽  
Causal Organism ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Wide Range ◽  
Mycelial Compatibility

Populations of Sclerotium rolfsii, the causal organism of Sclerotium root-rot on a wide range of hosts, can be placed into mycelial compatibility groups (MCGs). In this study, we evaluated three different molecular approaches to unequivocally identify each of 12 previously identified MCGs. These included restriction fragment length polymorphism (RFLP) patterns of the internal transcribed spacer (ITS) region of nuclear ribosomal DNA (rDNA) and sequence analysis of two protein-coding genes: translation elongation factor 1α (EF1α) and RNA polymerase II subunit two (RPB2). A collection of 238 single-sclerotial isolates representing 12 MCGs of S. rolfsii were obtained from diseased sugar beet plants from Chile, Italy, Portugal, and Spain. ITS-RFLP analysis using four restriction enzymes (AluI, HpaII, RsaI, and MboI) displayed a low degree of variability among MCGs. Only three different restriction profiles were identified among S. rolfsii isolates, with no correlation to MCG or to geographic origin. Based on nucleotide polymorphisms, the RPB2 gene was more variable among MCGs compared with the EF1α gene. Thus, 10 of 12 MCGs could be characterized utilizing the RPB2 region only, while the EF1α region resolved 7 MCGs. However, the analysis of combined partial sequences of EF1α and RPB2 genes allowed discrimination among each of the 12 MCGs. All isolates belonging to the same MCG showed identical nucleotide sequences that differed by at least in one nucleotide from a different MCG. The consistency of our results to identify the MCG of a given S. rolfsii isolate using the combined sequences of EF1α and RPB2 genes was confirmed using blind trials. Our study demonstrates that sequence variation in the protein-coding genes EF1α and RPB2 may be exploited as a diagnostic tool for MCG typing in S. rolfsii as well as to identify previously undescribed MCGs.

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