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Journal articles on the topic 'TRNK-MATK'

Author: Grafiati

Published: 5 June 2025

Last updated: 2 August 2025

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1

PIÑEROS URREGO, PAOLA, HAROLD SUÁREZ-BARÓN, Natalia Pabón-Mora, and FAVIO GONZÁLEZ. "Reinstatement of the genus <i>Psorodendron</i> and related systematic novelties as revealed from phylogenetic analyses of the tribe Amorpheae (Leguminosae, Papilionoideae)." Caldasia 45, no. 1 (2022): 49–65. http://dx.doi.org/10.15446/caldasia.v45n1.96498.

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The legume tribe Amorpheae comprises eight genera and ca. 240 species exclusive to the New World. We performed parsimony and maximum likelihood phylogenetic analyses based on sequence data from the nuclear gene CNGC4, the chloroplast trnK/matK genes and the nuclear ribosomal ITS regions. Our goal was to infer the generic-level phylogenetic relationships of the tribe with an expanded sampling on Dalea, a genus that comprises nearly 70 % of the species of the tribe. We corroborated that the tribe Amorpheae is formed by the Daleoid clade, comprising Dalea, Marina, and Psorothamnus, and the Amorph

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2

Mnxati, Sifiso, and Ledile Mankga. "Phylogenetic Relationships of Dianthus (Caryophyllaceae) Species Found in South Africa." Diversity 17, no. 3 (2025): 202. https://doi.org/10.3390/d17030202.

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This study addresses the phylogenetic relationships within the genus Dianthus in South Africa, employing a molecular analysis approach and the distribution pattern of the representatives of the genus. A robust phylogenetic tree comprising three plastids (trnH-psbA, trnK-matK, and trnK-psbA) and a nuclear region was assembled based on 94 taxa of Dianthus and Petrorhagia species using Mr Bayes analysis. Furthermore, distribution maps for each Dianthus species were generated using QGIS. Our results have revealed Dianthus as monophyletic when Petrorhagia is used as an outgroup. Four strongly suppo

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CRAWLEY, Sunny S., and Khidir W. HILU. "Caryophyllales: Evaluating phylogenetic signal in trnK intron versus matK." Journal of Systematics and Evolution 50, no. 5 (2012): 387–410. http://dx.doi.org/10.1111/j.1759-6831.2012.00197.x.

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4

Wagstaff, Steven J., Brian P. J. Molloy, and Jennifer A. Tate. "Evolutionary significance of long-distance dispersal and hybridisation in the New Zealand endemic genus Hoheria (Malvaceae)." Australian Systematic Botany 23, no. 2 (2010): 112. http://dx.doi.org/10.1071/sb09017.

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Parsimony and SplitsTree analyses of ITS and 5′ trnK/matK sequence data were used to assess the extent of hybridisation and its evolutionary significance in the New Zealand endemic genus Hoheria A.Cunn. The seven species of Hoheria form a monophyletic group along with the New Zealand endemic genus Plagianthus J.R.Forst. & G.Forst. and the Australian endemics Asterotrichion Klotzsch. and Gynatrix Alef. This strongly supported clade is sister to a clade of Australian species of Lawrencia Hook. The inferred evolutionary history of Hoheria suggests that the extant species are derived from a co

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Rosazlina, Rusly, Niels Jacobsen, Marian Ørgaard, and Ahmad Sofiman Othman. "Molecular evidence of the hybrid origin of Cryptocoryne ×purpurea Ridl. nothovar. purpurea (Araceae)." PLOS ONE 16, no. 1 (2021): e0239499. http://dx.doi.org/10.1371/journal.pone.0239499.

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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 rel

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PRASETYA, E., LAZUARDI, A. HASAIRIN, Y. RACHMAWATI, M. JANNAH, and T. HARSONO. "DNA BARCODING OF CANANGA ODORATA (LAM. HOOK.F. & THOMSON) USING CHLOROPLAST GENES IN NORTH SUMATRA, INDONESIA." SABRAO Journal of Breeding and Genetics 54, no. 5 (2022): 1066–76. http://dx.doi.org/10.54910/sabrao2022.54.5.9.

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Cananga odorata (Lam.) Hook.f. & Thomson, a member of the Annonaceae family, has become widespread from the Indo-Malayan region to northern Australia and Malaysia. This plant has economic value because it produces essential oils used in the perfume and food industries. No research existed yet related to DNA barcoding to see intraspecific variations in C. odorata. This study aimed to analyze the potential of chloroplast genes maturase K (matK)-trnK, ribulose 1,5-biphosphate carboxylase (rbcL), and trnL-F intergenic spacer as DNA barcodes on C. odorata from North Sumatra, Indonesia. The rese

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7

Wilson, Carol A. "Phylogeny of Iris based on chloroplast matK gene and trnK intron sequence data." Molecular Phylogenetics and Evolution 33, no. 2 (2004): 402–12. http://dx.doi.org/10.1016/j.ympev.2004.06.013.

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8

Wanke, S., M. S. Samain, L. Vanderschaeve, G. Mathieu, P. Goetghebeur, and C. Neinhuis. "Phylogeny of the Genus Peperomia (Piperaceae) Inferred from the trnK/matK Region (cpDNA)." Plant Biology 8, no. 1 (2006): 93–102. http://dx.doi.org/10.1055/s-2005-873060.

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9

Srivastava, Devendra Kumar, Pekhna Bansal, Pradeep Kumar Singh, and Manjit Inder Singh Saggoo. "Molecular Autograph of Maturase-K Gene in Isodon rugosus (Lamiaceae)." Botanica 26, no. 1 (2020): 95–100. http://dx.doi.org/10.2478/botlit-2020-0009.

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AbstractMolecular autograph of trn/mat-K gene was used as one of the important candidate marker in addressing the questions of systematics and barcoding of medicinal plants. Features of trn/mat-K gene in Isodon rugosus (Lamiaceae) were assessed for the first time (NCBI GenBank Accession Number: MH939199.1). Sequence of 756 bp length was amplified by the universal matK primers (matK472F and matK1248R) in the cpDNA of the plant. It was reported to contain trnK gene (>1…..50; >746…..756), partial sequence; and matK gene (>51…..745), partial coding DNA sequence. Alignment search and analy

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10

DAMIÁN, ALEXANDER, and GERARDO A. SALAZAR. "A NEW SPECIES AND FIRST RECORD OF THE GENUS PTEROGLOSSA (ORCHIDACEAE: SPIRANTHINAE) FROM PERU." Phytotaxa 311, no. 3 (2017): 235. http://dx.doi.org/10.11646/phytotaxa.311.3.3.

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The first species of the genus Pteroglossa is recorded from Peru. Pteroglossa acalcarata, a new orchid species from the eastern slope of the Peruvian Andes, is described and illustrated. It is similar in overall floral morphology to Pteroglossa macrantha, which is its closest relative according to a phylogenetic analysis of nucleotide sequences of plastid matK-trnK region presented here. However, P. acalcarata is distinguished from P. macrantha by its pubescent petals (vs. glabrous), inconspicuous lateral lobes of the labellum free from the sides of the column and absence of a spur.

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11

Cheng, Ya-Chih, and Rachel Houston. "Evaluation of the trnK-matK-trnK, ycf3, and accD-psal chloroplast regions to differentiate crop type and biogeographical origin of Cannabis sativa." International Journal of Legal Medicine 135, no. 4 (2021): 1235–44. http://dx.doi.org/10.1007/s00414-021-02518-x.

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12

Vogel, Jörg, Thomas Hübschmann, Thomas Börner, and Wolfgang R. Hess. "Splicing and intron-internal RNA editing of trnK-matK transcripts in barley plastids: support for MatK as an essential splice factor." Journal of Molecular Biology 270, no. 2 (1997): 179–87. http://dx.doi.org/10.1006/jmbi.1997.1115.

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Hilu, Khidir W., Chelsea Black, Diaga Diouf, and J. Gordon Burleigh. "Phylogenetic signal in matK vs. trnK: A case study in early diverging eudicots (angiosperms)." Molecular Phylogenetics and Evolution 48, no. 3 (2008): 1120–30. http://dx.doi.org/10.1016/j.ympev.2008.05.021.

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Quandt, Dietmar, and Susann Wicke. "Universal primers for the amplification of the plastid trnK/matK region in land plants." Anales del Jardín Botánico de Madrid 66, no. 2 (2009): 285–88. http://dx.doi.org/10.3989/ajbm.2231.

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15

Jiao, Lichao, Tuo He, Eleanor E. Dormontt, Yonggang Zhang, Andrew J. Lowe, and Yafang Yin. "Applicability of chloroplast DNA barcodes for wood identification between Santalum album and its adulterants." Holzforschung 73, no. 2 (2019): 209–18. http://dx.doi.org/10.1515/hf-2018-0047.

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AbstractThe East Indian sandalwood,Santalum albumL., is known for its fragrant heartwood and extractive oils. The increasing demand for the valuable sandalwood products has led to illegal and excessive logging, and there are otherSantalumspecies in the commercial market as substitutes (adulterants). Improved tools for the identification ofSantalumspecies are needed to control this situation. In this study, four chloroplast DNA (cpDNA) regions were screened (matK,psbA-trnH,trnK andtrnL) on 35 vouchered specimens covering fiveSantalumspecies, i.e.Santalum acuminatum,S. album,Santalum lanceolatum

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16

Dkhar, Jeremy, Suman Kumaria, and Pramod Tandon. "Molecular adaptation of the chloroplast matK gene in Nymphaea tetragona, a critically rare and endangered plant of India." Plant Genetic Resources 9, no. 2 (2011): 193–96. http://dx.doi.org/10.1017/s1479262111000396.

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Sustainable utilization of plant genetic resources for food and agriculture has been increasingly discussed at both national and international forums. Besides exploitation, conservation of plant genetic resources has become an integral part of these discussions. Conservation aims at maintaining the diversity of living organisms, their habitat and the interrelationship between organisms and their environment. For achieving such goals, appropriate conservation strategies have to be adopted. Determining the genetic makeup of a particular plant species is of critical importance when planning a sui

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17

Anton, Ana M., Tania Hernández-Hernández, Arturo De-Nova, and Victoria Sosa. "Evaluating the phylogenetic position of the monotypic family Halophytaceae (Portulacinae, Caryophyllales) based on plastid and nuclear molecular data sets." Botanical Sciences 92, no. 3 (2014): 351. http://dx.doi.org/10.17129/botsci.93.

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<p>A pesar de numerosos estudios ﬁlogenéticos para determinar las relaciones de las familias del orden Caryophyllales y particularmente del suborden Portulacinae, no se ha establecido aún la posición de Halophytaceae. <em>Halophytum ameghinoi</em> es el único representante de esta familia de hierbas suculentas, endémico de la ecoregión Monte Argentino, creciendo en vegetación arbustiva árida o semi-árida. Algunos autores han sugerido una relación con Chenopodiaceae y otros con Basellaceae y/o Portulacaceae y Montiaceae. Para determinar la posición de <em>Halophytum</

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18

CHEN, SHI-PIN, LIANG MA, SI-REN LAN, and MING-HE Li. "Morphological and molecular evidence for a new species from China: Dendrobium zhenghuoense (Epidendroideae; Orchidaceae)." Phytotaxa 275, no. 3 (2016): 277. http://dx.doi.org/10.11646/phytotaxa.275.3.5.

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We conducted morphological and molecular analyses to describe a new species of orchid, Dendrobium zhenghuoense, which was observed in northern Fujian Province, China. Detailed morphological comparisons between the newly discovered orchid and other members of Dendrobium indicate that D. zhenghuoense is similar to D. luoi, but it can be distinguished by its shorter peduncle, longer lip, pedicel & ovary, as well as the size of its mentum. Molecular analyses based on the ITS of the nuclear ribosomal and plastid DNA (rbcL, matK-trnK, trnH-psbA and trnL-F) support the claims that D. zhenghuoense

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19

HAMMER, TIMOTHY A., ROBERT W. DAVIS, and KEVIN R. THIELE. "Wadithamnus, a new monotypic genus in Amaranthaceae." Phytotaxa 295, no. 2 (2017): 173. http://dx.doi.org/10.11646/phytotaxa.295.2.5.

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A new monotypic genus from near-coastal areas of Oman and Yemen is here described and named Wadithamnus. The generitype is Wadithamnus artemisioides comb. nov. (basionym Aerva artemisioides). On the basis of morphology, W. artemisioides can be separated from Aerva on the basis of its 3(–7)-flowered cymes and flowers with two outer and four inner tepals, and four stamens alternating with the inner tepals. Molecular data (nuclear ITS and chloroplast trnK–matK sequences) confirm Wadithamnus as a distinct genus outside Aerva, the latter marker placing it at a basal position to the achyranthoid cla

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20

CIRES, EDUARDO, CARLA PINTO-CRUZ, HERMINIO S. NAVA, and JOSÉ ANTONIO FERNÁNDEZ PRIETO. "A new species from the temporary ponds of southwest Portugal: Helosciadium milfontinum." Phytotaxa 456, no. 1 (2020): 49–62. http://dx.doi.org/10.11646/phytotaxa.456.1.3.

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The genus Helosciadium has six species of which three have been identified in Portugal: H. nodiflorum, frequent and abundant in much of the territory, and H. inundatum and H. repens, with a scattered distribution in Portugal. In the present study, a new species, Helosciadium milfontinum, a seriously threatened plant endemic, rare and scarce that grows in the temporary ponds of the Vicentinan Coastal District is described and illustrated. Morphological characters and molecular analysis of nuclear internal transcribed spacers (ITS) and plastid regions (matK, rps16-trnK and trnL-F) confirm the ex

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Wanke, Stefan, M. Alejandra Jaramillo, Thomas Borsch, Marie-Stéphanie Samain, Dietmar Quandt, and Christoph Neinhuis. "Evolution of Piperales—matK gene and trnK intron sequence data reveal lineage specific resolution contrast." Molecular Phylogenetics and Evolution 42, no. 2 (2007): 477–97. http://dx.doi.org/10.1016/j.ympev.2006.07.007.

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22

LI, MING-HE, OLAF GRUSS, and ZHONG-JIAN LIU. "Nomenclature changes in Phalaenopsis subgen. Hygrochilus (Orchidaceae; Epidendroideae; Vandeae) based on DNA evidence." Phytotaxa 275, no. 1 (2016): 55. http://dx.doi.org/10.11646/phytotaxa.275.1.6.

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The taxonomy of Phalaenopsis subgen. Hygrochilus is poorly understood, resulting in great difficulties in distinguishing and identifying infrageneric taxa. It has long been known that the plant called H. parishii has two strikingly different flowers forms, ‘parishii’ and ‘marriottiana’. An analysis of ITS nrDNA and five plastid regions (atpI-atpH, trnK-matK, trnH-psbA, trnL-F and trnS-trnM) obtains clear evidence that the ‘parishii’ and ‘marriottiana’ forms are two distinct species. Here, five species of subgenus Hygrochilus are recognized: Phalaenopsis japonica, P. marriottiana, P. subparishi

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Mglinets, A. V. "Phylogenetic relationships of genus Beta species based on the chloroplast trnK (matK) gene intron sequence information." Doklady Biochemistry and Biophysics 420, no. 1 (2008): 135–38. http://dx.doi.org/10.1134/s1607672908030101.

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Pang, Xinbo, Hongshan Liu, Suran Wu, et al. "Species Identification of Oaks (Quercus L., Fagaceae) from Gene to Genome." International Journal of Molecular Sciences 20, no. 23 (2019): 5940. http://dx.doi.org/10.3390/ijms20235940.

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Species identification of oaks (Quercus) is always a challenge because many species exhibit variable phenotypes that overlap with other species. Oaks are notorious for interspecific hybridization and introgression, and complex speciation patterns involving incomplete lineage sorting. Therefore, accurately identifying Quercus species barcodes has been unsuccessful. In this study, we used chloroplast genome sequence data to identify molecular markers for oak species identification. Using next generation sequencing methods, we sequenced 14 chloroplast genomes of Quercus species in this study and

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Lau, Bruna Ladeira, João Aguiar Nogueira Batista, Antônio Massensini Junior, W. Mark Whitten, and Eduardo Leite Borba. "Unravelling the Habenaria repens (Orchidaceae) complex in Brazil: a biosystematic and molecular phylogenetic approach." Botanical Journal of the Linnean Society 197, no. 2 (2021): 229–48. http://dx.doi.org/10.1093/botlinnean/boab022.

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Abstract Habenaria repens (Orchidaceae) represents a species complex distributed from the southern USA to northern Argentina, including several morphological variants, here referred to as morphotypes. To investigate and clarify the morphological and genetic relationships between these morphotypes and resolve the taxonomy of the complex, we applied a biosystematic multi-population approach using molecular phylogenetic, morphometric and population genetics analyses in the group. We sampled 31 (phylogenetic analyses) and 20 (morphometric and microsatellite analyses) populations of Habenaria arani

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Miller, Joseph T., and Randall J. Bayer. "Molecular phylogenetics of Acacia subgenera Acacia and Aculeiferum (Fabaceae : Mimosoideae), based on the chloroplast matK coding sequence and flanking trnK intron spacer regions." Australian Systematic Botany 16, no. 1 (2003): 27. http://dx.doi.org/10.1071/sb01035.

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The genus Acacia is subdivided into the following three subgenera: subg. Acacia, subg. Aculeiferum and the predominantly Australian subg. Phyllodineae. Morphological and molecular studies have suggested that the tribe Acacieae and genus Acacia are artificial and have a close affinity to the tribe Ingeae. Sequence analysis of the chloroplast trnK intron, including the matK coding region and flanking non-coding regions, were undertaken to examine taxon relationships within Acacia subgenera Acacia and Aculeiferum. Subgenus Acacia is monophyletic while subgenus Aculeiferum is paraphyletic. Within

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Semerikova, S. A. "Chloroplast DNA Markers on the Phylogeography Study of Roburoid Oaks (<i>Quercus</i> L. sect. <i>Quercus</i>, Fagaceae) in the Crimean-Caucasian Region." Генетика 59, no. 1 (2023): 50–64. http://dx.doi.org/10.31857/s0016675823010095.

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The variability of five fragments of chloroplast DNA (ASq, CDq, TFq, trnH-psbA and trnK-matK) with a total length of more than 10,000 bp in three species of roburoid oaks of the Crimean-Caucasian region (Q. robur, Q. petraea, Q. pubescens) was studied. A total of 11 haplotypes were found in 290 individuals from 20 populations, 10 of which differed from the haplotypes of the main range. The obtained results show a pronounced structure of the geographical distribution of haplotypes of roburoid oaks in the Crimea and the Caucasus, and the chloroplast haplotypes of the region belong to several div

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Jobson, Richard W., and Melissa Luckow. "Phylogenetic Study of the Genus Piptadenia (Mimosoideae: Leguminosae) using Plastid trnL-F and trnK/matK Sequence Data." Systematic Botany 32, no. 3 (2007): 569–75. http://dx.doi.org/10.1600/036364407782250544.

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Nyffeler, R. "Phylogenetic relationships in the cactus family (Cactaceae) based on evidence from trnK/ matK and trnL-trnF sequences." American Journal of Botany 89, no. 2 (2002): 312–26. http://dx.doi.org/10.3732/ajb.89.2.312.

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Chaw, Shu-Miaw, Terrence W. Walters, Chien-Chang Chang, Shu-Hsuan Hu, and Shin-Hsiao Chen. "A phylogeny of cycads (Cycadales) inferred from chloroplast matK gene, trnK intron, and nuclear rDNA ITS region." Molecular Phylogenetics and Evolution 37, no. 1 (2005): 214–34. http://dx.doi.org/10.1016/j.ympev.2005.01.006.

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Fassou, Georgia, Nadja Korotkova, Anush Nersesyan, Marcus A. Koch, Panayotis Dimopoulos, and Thomas Borsch. "Taxonomy of Dianthus (Caryophyllaceae) – overall phylogenetic relationships and assessment of species diversity based on a first comprehensive checklist of the genus." PhytoKeys 196 (May 23, 2022): 91–214. http://dx.doi.org/10.3897/phytokeys.196.77940.

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In this study, we present an overall phylogenetic framework for Dianthus using four plastid regions (matK-trnK-psbA, rpl32-trnL, trnQ-rps16) and nuclear ITS and a species-level checklist for the genus developed by using all available databases and the literature. The trees from the plastid dataset depict a clade of Dianthus that also includes Velezia and a few taxa of Petrorhagia. New combinations in Dianthus are provided for these species. The checklist of Dianthus in this new delimitation covers 1781 names, with 384 accepted species, 150 subspecies, 12 heterotypic varieties and two forms (no

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Prieto, José Antonio Fernández, Joaquín Molero Mesa, Marta Pérez Suárez, Mauro Sanna, José Miguel Muñoz Díaz, and Eduardo Cires. "Are they different species or vicariant elevational races of the same species? The case of an Iberian endemic plant, Ranunculus bupleuroides (Ranunculaceae)." Phytotaxa 239, no. 3 (2015): 242. http://dx.doi.org/10.11646/phytotaxa.239.3.5.

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The infrageneric taxonomy and evolution of Ranunculus are still not well understood. In this regard, we investigated the origin and genetic diversity of the Iberian endemic plant Ranunculus bupleuroides s.l. by analysis of nuclear internal transcribed spacers (ITS) and plastid (rpl32-trnL, rps16-trnQ, trnK-matK, ycf6-psbM) sequence data. Phylogenetic analysis reveals two geographically well supported subclades: one formed by high mountain plants and another by more typical samples of Ranunculus bupleuroides from the lowlands of the western Iberian Peninsula. The subclade of montane plants incl

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FONSECA-CORTÉS, ANDRÉS, DOMINGOS BENÍCIO OLIVEIRA SILVA CARDOSO, CRISTIANE SNAK, and LUCIANO PAGANUCCI DE QUEIROZ. "A new endemic species of Macropsychanthus (Leguminosae: Papilionoideae) from the Brazilian Atlantic Forest." Phytotaxa 620, no. 3 (2023): 225–34. http://dx.doi.org/10.11646/phytotaxa.620.3.3.

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The Brazilian Atlantic Forest is a world’s remarkable biodiversity hotspot, seriously endangered by urbanization, industrialization, and agricultural expansion. More than a thousand species of legumes (Leguminosae) occur in the Atlantic Forest, with a record of 443 endemic species. Here, we describe Macropsychanthus ruschii, a new species narrowly endemic from a pristine Atlantic Forest area in the Espírito Santo state, eastern Brazil. This species is uniquely characterized by its inflorescences up to 15 cm and uncommon pink petals. A molecular phylogenetic analysis of nuclear ribosomal (ETS a

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Fassou, Georgia, Nadja Korotkova, Anush Nersesyan, Marcus A. Koch, Panayotis Dimopoulos, and Thomas Borsch. "Taxonomy of Dianthus (Caryophyllaceae) – overall phylogenetic relationships and assessment of species diversity based on a first comprehensive checklist of the genus." PhytoKeys 196 (May 23, 2022): 91–214. https://doi.org/10.3897/phytokeys.196.77940.

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In this study, we present an overall phylogenetic framework for Dianthus using four plastid regions (matK-trnK-psbA, rpl32-trnL, trnQ-rps16) and nuclear ITS and a species-level checklist for the genus developed by using all available databases and the literature. The trees from the plastid dataset depict a clade of Dianthus that also includes Velezia and a few taxa of Petrorhagia. New combinations in Dianthus are provided for these species. The checklist of Dianthus in this new delimitation covers 1781 names, with 384 accepted species, 150 subspecies, 12 heterotypic varieties and two forms (no

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Berlingeri, Chiara, Manuel B. Crespo, and Teodardo Calles. "The Macroptilium gracile species complex (Fabaceae, Papilionoideae): an integrative taxonomic study based on morphological, molecular and ecological data." Botanical Journal of the Linnean Society 194, no. 1 (2020): 118–39. http://dx.doi.org/10.1093/botlinnean/boaa036.

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Abstract Macroptilium gracile (Phaseolinae, Fabaceae) sensu lato is an extremely diverse species distributed from Mexico to Argentina. The taxonomic and nomenclatural history of the species is confusing, due to existing contrasting treatments. All 15 names corresponding to 12 taxa that have often been considered akin to M. gracile were selected here to clarify the identity of this taxonomic aggregate, using morphological, molecular and biogeographical analyses. Univariate and multivariate statistical analyses (nMDS and cluster) of 67 morphological traits were performed on a sample of 109 herba

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Silakadze, Nana, Marine Mosulishvili, Thomas Borsch, and Norbert Kilian. "The polyphyletic Caucasus-centred Campanula subg. Scapiflorae (Campanulaceae) revisited with a newly circumscribed C. sect. Tridentatae for its core clade." PhytoKeys 243 (June 25, 2024): 149–84. http://dx.doi.org/10.3897/phytokeys.243.120908.

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Campanula L. is among the genera with the highest number of endemics in the Caucasus ecoregion. A group of attractive alpine and subalpine perennial rosette plants with short single-flowered stems centred in the Caucasus has been treated as Campanula subg. Scapiflorae or at other ranks, with considerably varying circumscription and classification. Molecular phylogenetic analysis of three plastid DNA regions (trnK/matK, petD, rpl16) of a strongly extended sampling, comprising 23 of the 27 commonly accepted taxa (85%) with 330 accessions built on and guided by the results of our previous study o

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Martine, Christopher T., Gregory J. Anderson, and Donald H. Les. "Gender-bending aubergines: molecular phylogenetics of cryptically dioecious Solanum in Australia." Australian Systematic Botany 22, no. 2 (2009): 107. http://dx.doi.org/10.1071/sb07039.

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The causes, consequences and correlates of dioecy have been the subject of much discussion since the days of Darwin. Several recent authors have stressed the importance of informing this body of theory, with studies focusing on lineages in which both dioecy and hermaphroditism are present. The genus Solanum is an ideal group for analysis, because dioecy, hermaphroditism and potential unisexual transitions (e.g. andromonoecy) among them all occur. Phylogenetic hypotheses are presented for the Australian species in Solanum subgenus Leptostemonum (the ‘spiny solanums’) section Melongena, which co

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SALAZAR, GERARDO A., LUIS BAQUERO, MARCO JIMÉNEZ, and FEDERICO RIZO-PATRÓN. "DNA links Andean tepui endemic Helonoma peruviana to Hapalorchis (Orchidaceae, Spiranthinae)." Phytotaxa 574, no. 1 (2022): 61–72. http://dx.doi.org/10.11646/phytotaxa.574.1.3.

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Helonoma peruviana is here reported as a generic and specific addition to the Ecuadorian orchid flora based on a plant found recently in the Cordillera del Cóndor. The systematic position of H. peruviana was assessed by means of a Bayesian inference analysis of plastid (matK-trnK, trnL-trnF) and nuclear (ITS) DNA sequences from 43 genera and 50 species of Spiranthinae, plus suitable outgroups. The analysis recovered H. peruviana as the strongly supported sister of Hapalorchis, being more distantly related to Beloglottis, a genus in which Helonoma has been merged at the sectional level. Despite

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Janssens, Steven, Thomas L.P. Couvreur, Arne Mertens, et al. "A large-scale species level dated angiosperm phylogeny for evolutionary and ecological analyses." Biodiversity Data Journal 8 (January 21, 2020): e39677. https://doi.org/10.3897/BDJ.8.e39677.

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Phylogenies are a central and indispensable tool for evolutionary and ecological research. Even though most angiosperm families are well investigated from a phylogenetic point of view, there are far less possibilities to carry out large-scale meta-analyses at order level or higher. Here, we reconstructed a large-scale dated phylogeny including nearly 1/8th of all angiosperm species, based on two plastid barcoding genes, <i>matK</i> (incl. <i>trnK</i>) and <i>rbcL.</i> Novel sequences were generated for several species, while the rest of the data were mined from GenBank. The resulting tree was

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Moja, S., Y. Guitton, F. Nicolè, et al. "Genome size and plastid trnK-matK markers give new insights into the evolutionary history of the genus Lavandula L." Plant Biosystems - An International Journal Dealing with all Aspects of Plant Biology 150, no. 6 (2015): 1216–24. http://dx.doi.org/10.1080/11263504.2015.1014006.

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Miller, Joseph T., and Randall J. Bayer. "Molecular phylogenetics of Acacia (Fabaceae: Mimosoideae) based on the chloroplast MATK coding sequence and flanking TRNK intron spacer regions." American Journal of Botany 88, no. 4 (2001): 697–705. http://dx.doi.org/10.2307/2657071.

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Hausner, Georg, Robert Olson, Dawn Simon, et al. "Origin and Evolution of the Chloroplast trnK (matK) Intron: A Model for Evolution of Group II Intron RNA Structures." Molecular Biology and Evolution 23, no. 2 (2005): 380–91. http://dx.doi.org/10.1093/molbev/msj047.

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Solórzano, Chincoya, Sanchez-Flores, et al. "De Novo Assembly Discovered Novel Structures in Genome of Plastids and Revealed Divergent Inverted Repeats in Mammillaria (Cactaceae, Caryophyllales)." Plants 8, no. 10 (2019): 392. http://dx.doi.org/10.3390/plants8100392.

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The complete sequence of chloroplast genome (cpDNA) has been documented for single large columnar species of Cactaceae, lacking inverted repeats (IRs). We sequenced cpDNA for seven species of the short-globose cacti of Mammillaria and de novo assembly revealed three novel structures in land plants. These structures have a large single copy (LSC) that is 2.5 to 10 times larger than the small single copy (SSC), and two IRs that contain strong differences in length and gene composition. Structure 1 is distinguished by short IRs of <1 kb composed by rpl23-trnI-CAU-ycf2; with a total length of 1

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de Mestier, Astrid, Ernesto Campos Pineda, Marco Cedeño Fonseca, and Orlando O. Ortiz. "A new species of Casearia Jacq. (Salicaceae) from Central Panama and insights into its phylogenetic position within the genus." PhytoKeys 236 (December 6, 2023): 97–112. http://dx.doi.org/10.3897/phytokeys.236.108651.

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We describe here a new species of Casearia from Panama based on both morphological and molecular data. Casearia isthmicasp. nov. is restricted to the mid-elevation cloud forests of Central Panama and presents morphological similarities with two more widespread species, C. sanchezii from high elevation areas of El Salvador and Mexico and C. tremula from the Caribbean, Central America, and Northern South America. Casearia isthmica differs in presenting pedunculated and congested inflorescences with up to 20 flowers, as well as flowers with 12 stamens and a pubescent style. Phylogenetic analysis

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Silakadze, Nana, Marine Mosulishvili, Thomas Borsch, and Norbert Kilian. "The polyphyletic Caucasus-centred Campanula subg. Scapiflorae (Campanulaceae) revisited with a newly circumscribed C. sect. Tridentatae for its core clade." PhytoKeys 243 (June 25, 2024): 149–84. https://doi.org/10.3897/phytokeys.243.120908.

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<i>Campanula</i> L. is among the genera with the highest number of endemics in the Caucasus ecoregion. A group of attractive alpine and subalpine perennial rosette plants with short single-flowered stems centred in the Caucasus has been treated as Campanula subg. Scapiflorae or at other ranks, with considerably varying circumscription and classification. Molecular phylogenetic analysis of three plastid DNA regions (<i>trnK/matK</i>, <i>petD</i>, <i>rpl16</i>) of a strongly extended sampling, comprising 23 of the 27 commonly accepted taxa (85%) with 330 accessions built on and guided by the res

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DOĞRU-KOCA, ASLI. "Multilocus phylogenetic assessment of the taxonomic status of the Turkish endemic Astrantia maxima subsp. haradjianii (Saniculoideae)." Phytotaxa 706, no. 3 (2025): 173–85. https://doi.org/10.11646/phytotaxa.706.3.1.

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Astrantia is a small genus within the family Apiaceae. Among its 15 recognized taxa, Astrantia maxima subsp. haradjianii is a Turkish endemic that has not previously been included in any phylogenetic analyses. This study aimed to evaluate the taxonomic status of subsp. haradjianii, which, despite exhibiting clear morphological distinctions, such as smaller umbel size, has been classified as a subspecies. To investigate its potential elevation to species rank, multiple populations of both subspecies were analyzed using phylogenetic methods based on nuclear ribosomal (complete internal transcrib

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Ohsako, Takanori, and Ohmi Ohnishi. "Nucleotide sequence variation of the chloroplast trnK/matK region in two wild Fagopyrum(Polygonaceae) species, F. leptopodum and F. statice." Genes & Genetic Systems 76, no. 1 (2001): 39–46. http://dx.doi.org/10.1266/ggs.76.39.

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Bolsheva, Nadezhda L., Nataliya V. Melnikova, Ekaterina M. Dvorianinova, et al. "Clarification of the Position of Linum stelleroides Planch. within the Phylogeny of the Genus Linum L." Plants 11, no. 5 (2022): 652. http://dx.doi.org/10.3390/plants11050652.

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The phylogeny of members of the family Linaceae DC. ex Perleb has not been adequately studied. In particular, data on the phylogenetic relationship between Linum stelleroides Planch. and other representatives of the blue-flowered flax are very controversial. In the present work, to clarify this issue, we obtained DNA sequences of three nuclear loci (IGS and ITS1 + 5.8S rDNA + ITS2 of the 35S rRNA gene and the 5S rRNA gene) and eight chloroplast loci (rbcL, the trnL–trnF intergenic spacer, matK, the 3′ trnK intron, ndhF, trnG, the psbA–trnH intergenic spacer, and rpl16) of 10 Linum L. species (

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Hernández-Gutiérrez, Rebeca, Carolina Granados Mendoza, and Susana Magallón. "Low-Copy Nuclear Genes Reveal New Evidence of Incongruence in Relationships Within Malvaceae s. l." Systematic Botany 46, no. 4 (2021): 1042–52. http://dx.doi.org/10.1600/036364421x16370109698551.

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Abstract— The family Malvaceae s. l. is a clade that comprises nine subfamilies. Phylogenetic relationships among them are not completely resolved and are inconsistent among studies, probably due to low phylogenetic informativeness of conventional molecular markers. In the present study, we provide new phylogenetic information for Malvaceae s. l. derived from newly-designed group-specific nuclear markers. By mining transcriptome data from the One Thousand Plants Project (1KP) and publicly available genome information from cotton, cacao, and Arabidopsis, we designed a set of molecular markers o

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MILJKOVIĆ, MILICA, VLADIMIR RANĐELOVIĆ, and DÖRTE HARPKE. "A new species of Crocus (Iridaceae) from southern Albania (SW Balkan Peninsula)." Phytotaxa 265, no. 1 (2016): 39. http://dx.doi.org/10.11646/phytotaxa.265.1.3.

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A new Crocus species (Iridaceae) for southern Albania, Crocus novicii sp. nov. (Iridaceae), is described and illustrated. We here provide diagnostic morphological characteristics, results of molecular analyses, detailed descriptions and illustrations of this new species and compare it with its relatives C. jablanicensis, C. cvijicii and C. veluchensis. Our molecular analysis is based on two chloroplast (matK–trnK, rps16–trnQ) and three nuclear markers (nrETS, nrITS, TOPO6B exon3–exon6) and includes representatives of all related species (C. cvijicii, C. dalmaticus, C. jablanicensis, C. rujanen

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