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Journal articles on the topic 'TrnL-trnF'

Author: Grafiati

Published: 4 June 2021

Last updated: 25 July 2025

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1

HERMAN, H. AL-KHAIRI, AR WANSYAH, et al. "THE ABILITY OF matK AND trnL-trnL-trnF INTERGENIC SPACER TO DISCERN CERTAIN SPECIES ACCESSIONS OF THE FAMILIES SOLANACEAE AND FABACEAE." SABRAO Journal of Breeding and Genetics 55, no. 1 (2023): 97–106. http://dx.doi.org/10.54910/sabrao2023.55.1.9.

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Indonesia, as a mega-biodiversity country, has many kinds of tropical fruits. Solanaceae and Fabaceae families contain plant species that produce fruits and vegetables for human food, such as ‘rimbang’ (Solanum torvum), ‘terung asam’ (S. ferox), ‘kabau’ (Archidendron microcarpum), ‘jengkol’ (A. pauciflorum), and ‘petai’ (Parkia speciosa). This study aimed to determine the ability of DNA barcodes (matK and trnL-trnL-trnF intergenic spacer [IGS]) in distinguishing some of those tropical fruit plants. Plant materials came from Riau Province, Indonesia. Methods developed include total DNA extracti

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Magar, Madhu Shudan Thapa, Seerjana Maharjan, Januka Pathak, Dhan Raj Kandel, and Ganga Rijal. "Some Barcoding DNA Sequence Analysis of Sphagnum nepalense H. Suzuki, a Bryophyte Species Endemic to East Nepal." Journal of Plant Resources 20, no. 1 (2022): 47–51. http://dx.doi.org/10.3126/bdpr.v20i01.56577.

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Sphagnum nepalense is a bryophyte endemic to Nepal. The objective of the present study is to analyze DNA barcoding markers useful for delineating the Sphagnum species. Here, a specimen of Sphagnum nepalense collected from the bank of Maipokhari lake, Ilam (2107 m asl) was used. Three chloroplast loci from the sample viz. rbcL, psbA-trnH and trnF-trnL, the latter two being intergenic spacers, were amplified and sequenced. Four accessions of plastome sequences of S. junghuhnianum, S. multifibrosum, S. palustre and S. subsecundum were retrieved from the National Center for Biotechnology Informati

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Sedláková, V., P. Sedlák, D. Zeka, J. Domkářová, P. Doležal, and P. Vejl. "Evaluation of variations in plastid DNA non-coding regions in selected species of the genus Solanum." Czech Journal of Genetics and Plant Breeding 53, No. 3 (2017): 127–31. http://dx.doi.org/10.17221/76/2015-cjgpb.

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The diversity of three non-coding plastid DNA loci (trnL/trnF spacer, trnV/16SrRNA spacer, trnL/trnL intron) was assessed in 16 Solanum L. species (135 individuals). Polymorphisms were detected by denaturing gradient gel electrophoresis (DGGE) and verified by direct sequencing. No intraspecific diversity and only poor interspecific diversity was detected. Unique S. mochiquense Ochoa specific length polymorphism at the trnL/trnL locus represented by duplication of an 18 bp segment was discovered. The detected DGGE interspecific trnL/trnF locus polymorphism did not specifically associate with si

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Roslim, Dewi Indriyani, Herman Herman, Shalsadila Rahmadani Putri, et al. "Verification of Maman (Cleome gynandra (L.) Briq.) from Riau Based on matK and trnL-trnL-trnF Intergenic Spacer." Biosaintifika: Journal of Biology & Biology Education 15, no. 3 (2023): 296–305. http://dx.doi.org/10.15294/biosaintifika.v15i3.46937.

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Maman is a traditional plant frequently used as food by people in Melayu Rokan of Riau Province. Morphological detection indicates that the scientific name of maman is Cleome gynandra L. The objective of this study is to confirm the taxonomic status of maman from Riau basedon matK and trnL-trnL-trnF intergenic spacer (IGS) sequences. Methods utilized in this study included sampling, DNA extraction, PCR, electrophoresis, sequencing, and data analysis. The fresh leaves were picked up from Rokan Hulu Regency, Riau Province. In this study, the matK and trnL-trnL-trnF IGS sequences of maman with a

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Souza, Jean Silva de, Jéssica de Souza Alves, Thomaz Mansini Carrenho Fabrin, Joice Karina Otênio, Ezilda Jacomassi, and Luciano Seraphim Gasques. "Genetic differentiation of two morphotypes of Piper regnellii (Miq.) C. DC. var. regnellii." Acta Scientiarum. Biological Sciences 44 (March 15, 2022): e56510. http://dx.doi.org/10.4025/actascibiolsci.v44i1.56510.

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Piper regnellii (Miq.) C. DC. var. regnellii, popularly known as "pariparoba", is used for therapeutic purposes. However, the morphological similarity among Piper species can lead to misidentifications, so molecular markers have been used to validate the identification of species and their morphotypes. Among the molecular markers used in plants, the intergenic spacer region trnL-trnF has proven effective in identifying plant species. For this reason, this region was used to evaluate two morphotypes of Piper regnellii var. regnellii. Studies with the trnL-trnF region have shown this region as a

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6

Tüyel, Abdurrahman Umut, Ezgi Çabuk Şahin, Funda Şentürk Akfirat, Yıldız Aydin, and Ahu Altınkut Uncuoğlu. "Phylogenetic analysis of Colchicum (Colchicaceae) genus by molecular markers from nuclear and chloroplast genome." Genetics & Applications 4, no. 1 (2020): 1. http://dx.doi.org/10.31383/ga.vol4iss1pp1-11.

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We evaluated the patterns of genetic variation of 16 Colchicum species, including 37 different genotypes, using RAPD marker and trnL–trnF chloroplast DNA sequence. A total of 861 polymorphic alleles through RAPDs showed a mean of 33.88 ± 3.80 alleles per primer, while mean major allele frequency was 0.067 ± 0.05. The sequence length of trnL–trnF ranged from 1022 bp to 1081 bp. The phylogenetic tree was constructed to understand the relationship between Colchicum species and the discrimination power of the nuclear and chloroplast genome for species. The results showed that trnL–trnF gene region

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7

Jarret, Robert L. "DNA Barcoding in a Crop Genebank: The Capsicum annuum Species Complex." Open Biology Journal 1, no. 1 (2008): 35–42. http://dx.doi.org/10.2174/1874196700801010035.

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Variability within eight cpDNA introns including trnS-trnfM, trnL-trnT, trnH-psbA, trnF-trnL, trnD-trnT, trnCrpoB, rps16 and matK, and the nuclear waxy introns was examined in seven species of Capsicum (C. annuum, C. baccatum, C. chinense, C. frutescens, C. pubescens, C. chacoense and C. rhomboideum) in order to evaluate the feasibility of utilizing these loci for DNA barcoding within the C. annuum complex. Numerous insertions/deletions (indels) and substitutions were detected in all cpDNA introns. However, none was sufficient to differentiate the individual members of the C. annuum complex (C

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8

ZHANG, WEI, JIAO QIN, RUI YANG, YI YANG, and SHI-BAO ZHANG. "Two new natural hybrids in the genus Pleione (Orchidaceae) from China." Phytotaxa 350, no. 3 (2018): 247. http://dx.doi.org/10.11646/phytotaxa.350.3.4.

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Several species in the genus Pleione (Orchidaceae) have same or overlapping geographical distribution in China. In this study, two new natural hybrids, Pleione × baoshanensis and Pleione × maoershanensis, were described and illustrated. The parentage for these two hybrids was confirmed using molecular data from ITS of the nuclear ribosomal, trnT-trnL spacer and trnL-trnF region (trnL intron and trnL-trnF spacer) of the plastid DNA. Pleione × baoshanensis is intermediate between P. albiflora and P. yunnanensis, and characterized by its erose lamellae on the lip. Meanwhile, Pleione × maoershanen

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Yingzhi, Li, Cheng Yunjiang, Tao Nengguo, and Deng Xiuxin. "Phylogenetic Analysis of Mandarin Landraces, Wild Mandarins, and Related Species in China Using Nuclear LEAFY Second Intron and Plastid trnL-trnF Sequence." Journal of the American Society for Horticultural Science 132, no. 6 (2007): 796–806. http://dx.doi.org/10.21273/jashs.132.6.796.

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Nucleotide sequences of the second intron of the nuclear LEAFY gene (FLint2) and trnL-trnF region of the chloroplast genome were used to analyze the phylogenetic relationships among eight wild mandarins (Citrus reticulata Blanco), 19 mandarin landraces, and 19 related species of Citrus L. Forty-six trnL-trnF sequences and 111 FLint2 sequences were obtained from 46 ingroup accessions, with an average length of 1059.7 and 776.7 bp respectively. Phylogeny reconstructions were conducted separately for these two data sets using maximum parsimony and maximum likelihood criteria. Monophyly of mandari

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10

Feng, Tingting, Qiwei Li, Yesheng Wang, et al. "Phylogenetic analysis of Aquilaria Lam. (Thymelaeaceae) based on DNA barcoding." Holzforschung 73, no. 6 (2019): 517–23. http://dx.doi.org/10.1515/hf-2018-0127.

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AbstractAquilariaLam. is an important group of trees that produce agarwood, which is widely used for manufacturing medicine, perfumes and incense. The members of the genusAquilariaare close to being extinct due to illegal harvesting and are now protected in many countries. In this study, five DNA barcodes [internal transcribed spacer (ITS), maturase K (matK),psbA-trnH, ribulose bisphosphate carboxylase (rbcL) andtrnL-trnF] and their combinations were evaluated for the discrimination of the major (16 out of 21) species ofAquilariabased on three criteria: sequence variation, genetic distances an

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11

Putri, Fatma Jumaita, Herman Herman, and Dewi Indriyani Roslim. "Multilocus Analysis of matK, atpB-rbcL Intergenic Spacer, and trnL-trnF Intergenic Spacer in Pandanaceae." Jurnal Biologi Tropis 25, no. 2 (2025): 2040–52. https://doi.org/10.29303/jbt.v25i2.8775.

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Species within the Pandanaceae family, particularly those in the Pandanus genus, exhibit substantial morphological variation, often leading to challenges in accurate species identification. This study conducted a multilocus DNA barcode analysis using sequences of matK, atpB-rbcL Intergenic Spacer (IGS), and trnL-trnF Intergenic Spacer (IGS) obtained from GenBank. Sequence alignment was performed using MAFFT v.7, and the aligned sequences were concatenated into multilocus datasets. Further analyses included frequency data evaluation and phylogenetic tree construction using the Neighbor Joining

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12

Murphy, Daniel J., Frank Udovicic, and Pauline Y. Ladiges. "Phylogenetic analysis of Australian Acacia (Leguminosae: Mimosoideae) by using sequence variations of an intron and two intergenic spacers of chloroplast DNA." Australian Systematic Botany 13, no. 5 (2000): 745. http://dx.doi.org/10.1071/sb99027.

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Three regions of chloroplast DNA are assessed for their utility for phylogenetic analysis of Acacia subgenus Phyllodineae: psbA–trnH intergenic spacer, the trnL intron and the trnL–trnF intergenic spacer. There are large differences in the lengths of the psbA–trnH spacer (155–440 bp) and trnL–trnF intergenic spacer (101–422 bp) regions, and large multi-residue indels were coded as multistate characters. Overall information content in these regions is relatively low, but the total evidence tree has 12 nodes resolved, five with jackknife support. By using Parkia timoriana as the outgroup, Acacia

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Mustapha, S. B., H. Ben Tamarzizt, G. Baraket, D. Abdallah, and A. Salhi-Hannachi. "Cytoplasmic polymorphism and evolutionary history of plum cultivars: Insights from chloroplast DNA sequence variation of trnL-trnF spacer and aggregated trnL intron & trnL-trnF spacer." Genetics and Molecular Research 14, no. 2 (2015): 3964–79. http://dx.doi.org/10.4238/2015.april.27.11.

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14

Meagher, David A., and Michael J. Bayly. "Morphological and molecular data support reinstatement of Spiridens muelleri Hampe (Bryophyta: Hypnodendraceae), a Lord Howe Island endemic." Australian Systematic Botany 27, no. 2 (2014): 95. http://dx.doi.org/10.1071/sb14001.

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For more than 75 years, the Lord Howe Island moss Spiridens muelleri Hampe has been considered conspecific with Spiridens vieillardii Schimp., originally described from New Caledonia. A comparison of morphological characters not previously considered, along with DNA sequences from three chloroplast loci (trnL–trnF, rps4–trnS, rpl32–trnL) and ITS-2 of nuclear rDNA, supports their recognition as separate species.

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15

Beghalem, Hamida, Khadidja Aliliche, and Ahmed Landoulsi. "Phylogeny and Sequence Analysis of Sulla species Based on Intergenic Spacers trnL-trnF." South Asian Journal of Experimental Biology 11, no. 3 (2021): 321–26. http://dx.doi.org/10.38150/sajeb.11(3).p321-326.

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Chloroplast DNA (cpDNA) sequence variations are broadly used to investi-gate interspecific relationships among plants. The trnL-trnF spacer is located in the large single-copy region of the chloroplast genome. The objective of this study was to evaluate the level of genetic variability between the Algeri-an and Tunisian species Hedysarum pallidum (North African endemic spe-cies) and H. capitatum. The phylogenetic relationships among the studied species were investigated by means of maximum Likehood analysis of se-quence polymorphism from chloroplast trnL-trnF spacer DNA; the tree parti-tioned

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Nosov, N. N., A. A. Gnutikov, E. O. Punina, E. M. Machs, G. Yu Konechnaya, and A. V. Rodionov. "On distinction of the reed species (Phragmites, Poaceae) according to the molecular phylogenetic data." Проблемы ботаники Южной Сибири и Монголии 19, no. 1 (2020): 8–13. http://dx.doi.org/10.14258/pbssm.2020002.

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Molecular phylogenetic analysis of the marker sequences ITS and trnL–trnF of the Phragmites australis,P. altissimus, some putative hybrids between them and the sample of P. australis s. l. from Republic of Tuva was performed.ITS1 sequences of the sample from Tuva were studied by the New-generation sequencing method (NGS) revealingintragenomic polymorphism of the ITS sequences in allopolyploid species. We showed good differences betweenP. australis and P. altissimus in the ITS1-5.8S rDNA-ITS2 sequences by many single-nucleotide substitutions anddeletions, in particular, there is a 12 b.p. delet

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17

Hue, Huynh Thi Thu, Nguyen Thi Thanh Hoa, Le Thi Thu Hien, and Nguyen Đang Ton. "Analyzing the plastid trnL-trnF sequences of Vietnamese Solanum procumbens Lour. plants." Vietnam Journal of Biotechnology 19, no. 2 (2021): 309–19. http://dx.doi.org/10.15625/1811-4989/15361.

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Solanum is a genus which belongs to Solanaceae family, includes many species of cropsor medicinal plants as eggplant, tomato, potato, twoleaf nightshade, etc. Number of species are used as medicinal herbs of Solanum genus in Vietnam is up to 41, one of those is Solanum procumbens Lour., which is often used to treat hepatitis or cirrhosis. The needs of planting this plant is rising up, but it still lacks of studies based on DNA barcode of Solanum, in order to prevent the confusion of the raw materials in dry form of medicinal plants. This study provides sequencing and analysis the DNA barcode r

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18

Wangiyana, I. Gde Adi Suryawan. "DNA BARCODING LIBRARY DATABASE OF AQUILARIA MEMBER AND GYRINOPS MEMBER." Jurnal Silva Samalas 3, no. 2 (2020): 68. http://dx.doi.org/10.33394/jss.v3i2.3693.

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Aquilaria and Gyrinops are the primary agarwood producer on international trade. For authentication and standardization purposes, it is essential to carry DNA barcoding studies of these genera. DNA barcoding studies on plants need a database of several regions on the plant genome that could act as a barcoding marker. These DNA barcoding markers could be divided into Chloroplasts barcoding and Nuclear barcoding. Several markers have been used for DNA barcoding study of agarwood producer species, including trnL-trnF, matK, rbcL, rpoC1, ycf1 (Chloroplast barcoding), and ITS (Nuclear barcoding). T

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Wangiyana, I. Gde Adi Suryawan. "COMPARATION OF DENDROGRAM AND CLADOGRAM TOPOLOGY OF Gyrinops versteegii AND OTHERS GYRINOPS MEMBER FOR POLYPHASIC TAXONOMY." Jurnal Silva Samalas 2, no. 1 (2019): 13. http://dx.doi.org/10.33394/jss.v2i1.3673.

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The purpose of this research is to compare topology of dendrogram and cladogram of G. versteegii and others Gyrinops members for polyphasic taxonomy approach. Character of leaf, stem, flower and fruit of Gyrinops member were used for numeric phenetic analysis. On the other hands, trnL-trnF interspacer of chloroplast gene sequence were used for phylogenetic analysis. MVSP 3.1A were used for dendrogram construction using Simple Matching Coefficient and Jaccard’s Coefficient as clustering method. Co-stat cohor 6 were used for cophenetic correlation analysis. Multiple sequence alignment of trnL –

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RESIDA, E., T. CHIKMAWATI, N. ARIYANTI, and FITMAWATI. "MANGIFERA KEMANGA BLUME (ANACARDIACEAE) TAXONOMIC ASSESSMENT FOR GENETIC DIVERSITY BASED ON MOLECULAR SUBSTANTIATION." SABRAO Journal of Breeding and Genetics 55, no. 1 (2023): 175–86. http://dx.doi.org/10.54910/sabrao2023.55.1.17.

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Mangifera kemanga Blume is a wild relative of mango (Mangifera indica) and a local fruit with various potential uses. The community uses its fruit and leaves for food and its wood as a building material. However, the genetic diversity and taxonomic status of M. kemanga species still need more exploration and have a dispute with M. caesia Jack. The presented study aimed to determine the taxonomic status of M. kemanga and its relationship with M. caesia through a molecular approach and to recognize the species’ delimitation. The recorded data analysis used the trnL-trnF intergenic spacer sequenc

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21

ZHAO, YUE, GEORGII A. LAZKOV, ORZIMAT T. TURGINOV, et al. "Updated Taxonomy of Chinese Phlomoides: description of three newly recorded species and their systematic placement." Phytotaxa 670, no. 4 (2024): 259–72. http://dx.doi.org/10.11646/phytotaxa.670.4.4.

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Phlomoides iliensis, P. dshungarica and P. rotala, previously known only from Kazakhstan, are newly recorded in Xinjiang Uygur Autonomous Region, China. Molecular phylogenetic analyses using eight plastid DNA markers (atpB-rbcL, psbA-trnH, rpl16, rpl32-trnL, rps16, trnK, trnL-trnF, trnT-trnL) revealed that these three species are nested within Clade VI, with their relationships to similar or allied species discussed. This study increases the total number of Phlomoides species in China to 64. In addition, diagnostic characters, updated morphological descriptions, detailed illustrations, and a k

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Zhao, Yue, Ya-Ping Chen, Rui-Zhu Bai, Colin A. Pendry, Alexander P. Sukhorukov, and Chun-Lei Xiang. "A new species and a new record of Phlomoides (Lamiaceae) from Xizang, China." PhytoKeys 246 (August 27, 2024): 15–26. http://dx.doi.org/10.3897/phytokeys.246.129057.

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Phlomoides bomiensis, a new species in Bomi County, Xizang, China, was described and illustrated. In addition, Phlomoides longidentata, previously only known from Nepal and Bhutan, is newly recorded from Dingri County, Xizang, China. The phylogenetic placement of both species within the genus was analysed using nine plastid DNA markers (atpB-rbcL, psbA-trnH, rpl16, rpl32-trnL, rps16, trnK, trnL-trnF, trnS-trnG, trnT-trnL). Both species have brown-black trichomes inside the upper corolla lip and nested within the same subclade of Clade II. A diagnostic key to the Phlomoides species belonging to

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Saadati, Nasim, Maryam Khoshsokhan Mozaffar, Mahboubeh Sherafati, and Shahrokh Kazempour Osaloo. "Pseudoheterocaryum, a new genus segregated from Heterocaryum (Boraginaceae) on the basis of molecular data." Australian Systematic Botany 30, no. 1 (2017): 105. http://dx.doi.org/10.1071/sb16022.

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The phylogeny of Heterocaryum and Suchtelenia was examined using sequence data from the internal transcribed spacer region of the nuclear rDNA (ITS) and plastid trnL intron and trnL–trnF intergenic spacer (trnL–F) regions. Results indicated that Heterocaryum is non-monophyletic because of the inclusion of Suchtelenia calycina (C.A.Mey.) A.DC. Heterocaryum laevigatum (Kar. & Kir.) A.DC. formed a distinct branch sister to S. calycina and remaining Heterocaryum species. Hence, all species of Heterocaryum except H. laevigatum (type species of the genus) are transferred to a new genus, Pseudohe

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Klak, Cornelia, Terry A. Hedderson, and H. Peter Linder. "A Molecular Systematic Study of the Lampranthus Group (Aizoaceae) Based on the Chloroplast TrnL-trnF and Nuclear ITS and 5S NTS Sequence Data." Systematic Botany 28, no. 1 (2003): 70–85. https://doi.org/10.1043/0363-6445-28.1.70.

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Klak, Cornelia, Hedderson, Terry A., Linder, H. Peter (2003): A Molecular Systematic Study of the Lampranthus Group (Aizoaceae) Based on the Chloroplast TrnL-trnF and Nuclear ITS and 5S NTS Sequence Data. Systematic Botany 28 (1): 70-85, DOI: 10.1043/0363-6445-28.1.70

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Bernhardt, Phillip D. H., Markus S. Dillenberger, and Joachim W. Kadereit. "Identität, Verbreitung und mögliche Verwandtschaft von Elymus arenosus." Kochia 15 (April 29, 2022): 1–10. http://dx.doi.org/10.21248/kochia.v15.131.

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Die Sand-Quecke, Elymus arenosus, ist eine in ihrer Umgrenzung, taxonomischen Bewertung und geographischen Verbreitung umstrittene Art. Während einige Autoren sie als Endemiten des Mainzer Sandes betrachten, wird sie von anderen Autoren, häufig als Unterart, als auch an den Küsten Nordwesteuropas weitverbreitet aufgefasst. Unter Verwendung von plastidären trnL-trnF und nukleär-ribosomalen ITS-Sequenzen wird hier versucht, die Identität, Verbreitung und mögliche Verwandtschaft von E. arenosus zu klären. Individuen vom Mainzer Sand haben einen nur ihnen eigenen trnL-trnF-Haplotypen, der auch in

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Mast, Austin R. "Molecular systematics of subtribe Banksiinae (Banksia and Dryandra; Proteaceae) Based on cpDNA and nrDNA sequence data: Implications for taxonomy and biogeography." Australian Systematic Botany 11, no. 4 (1998): 321. http://dx.doi.org/10.1071/sb97026.

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Despite considerable research interest in the subtribe Banksiinae (Banksia L.f. and Dryandra R.Br.), no strongly supported phylogenetic hypothesis for the relationship between the genera exists, nor have molecular characters been sampled for phylogenetic reconstruction at any level. In this study, DNA sequence characters were sampled from chloroplast DNA (cpDNA; the trnL intron, the trnL 3′ exon, and the spacer between the trnL 3′ exon and trnF) and nuclear ribosomal DNA (nrDNA; both internal transcribed spacers) of 18 species of Banksia and five of Dryandra, with six outgroup taxa from the su

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Mittal, Khushboo, Rakhee Dangi, Priyanka Ingle, and Akhtar H. Malik. "Molecular phylogenetic studies on Trigonella section Ellipticae (Trifolieae, Fabaceae) from India utilising nrDNA (ITS) and cpDNA (trnL-trnF & petL-psbE)." Phytotaxa 669, no. 2 (2024): 105–18. https://doi.org/10.11646/phytotaxa.669.2.3.

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Mittal, Khushboo, Dangi, Rakhee, Ingle, Priyanka, Malik, Akhtar H. (2024): Molecular phylogenetic studies on Trigonella section Ellipticae (Trifolieae, Fabaceae) from India utilising nrDNA (ITS) and cpDNA (trnL-trnF & petL-psbE). Phytotaxa 669 (2): 105-118, DOI: 10.11646/phytotaxa.669.2.3, URL: https://doi.org/10.11646/phytotaxa.669.2.3

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YURTSEVA, OLGA V., ELENA E. SEVEROVA, ANDREY G. DEVIATOV, MARINA V. OLONOVA, and TAHIR H. SAMIGULLIN. "Polygonum schischkinii is a member of Atraphaxis (Polygonaceae, Polygoneae): evidences from morphological and molecular analyses." Phytotaxa 491, no. 3 (2021): 193–216. http://dx.doi.org/10.11646/phytotaxa.491.3.1.

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The Chinese endemic Polygonum schischkinii was studied from both morphological and molecular points of view. On the basis of the structure of ocreas and ocreolas, P. schischkinii appears to be a member of the genus Atraphaxis. The results of Maximum Likelihood and Bayesian analyses of combined data of the plastid [rpl32-trnL(UAG) IGS, trnL(UAA) intron, trnL-trnF IGS] and nuclear rDNA ITS1–2 regions, carried out on 61 members of tribe Polygoneae, confirmed position of P. schischkinii in the Atraphaxis clade. A new combination—Atraphaxis glareosa—based on P. glareosum, which has nomenclatural pr

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JIANG, MING-TAO, SHA-SHA WU, ZHONG-JIAN LIU, and SI-REN LAN. "Pleione jinhuana (Arethuseae; Epidendroideae; Orchidaceae), a new species from China based on morphological and DNA evidence." Phytotaxa 345, no. 1 (2018): 43. http://dx.doi.org/10.11646/phytotaxa.345.1.5.

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Pleione jinhuana, a new orchid from China, is illustrated and described based on morphological and phylogenetic evidence. Detailed morphological comparisons between the new species and other members of Pleione indicate that P. jinhuana is similar to P. bulbocodioides and P. formosana but differs in having a lip with an erose apical margin and lateral lobes not enfolding the column. To explore the phylogenetic position of this species, nuclear ribosomal ITS and plastid DNA (matK exon, trnT-trnL spacer, trnL exon and trnL-trnF spacer) were sequenced for P. jinhuana and individuals of P. formosan

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Vaganov, Alexey V., Tatyana A. Sinitsyna, Maxim G. Kutsev, et al. "DNA barcodes of the vascular flora of the Altai Mountain Country: type material of the Herbarium ALTB. Part II." Turczaninowia 27, no. 2 (2024): 28–34. https://doi.org/10.14258/turczaninowia.27.2.3.

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The article presents the second stage results of the work on DNA barcoding of type specimens of ALTB Herbarium (Barnaul, Russia). Obtained sequences of ITS and trnL-trnF, trnH-psbA, rbcL markers of DNA were deposited in NCBI GenBank, and corresponding dataset was published in the GBIF (Global Biodiversity Information Facility).

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31

Zhao, Yue, Ya-Ping Chen, Rui-Zhu Bai, Colin A. Pendry, Alexander P. Sukhorukov, and Chun-Lei Xiang. "A new species and a new record of Phlomoides (Lamiaceae) from Xizang, China." PhytoKeys 246 (August 27, 2024): 15–26. https://doi.org/10.3897/phytokeys.246.129057.

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<i>Phlomoides bomiensis</i>, a new species in Bomi County, Xizang, China, was described and illustrated. In addition, <i>Phlomoides longidentata</i>, previously only known from Nepal and Bhutan, is newly recorded from Dingri County, Xizang, China. The phylogenetic placement of both species within the genus was analysed using nine plastid DNA markers (<i>atpB-rbcL</i>, <i>psbA-trnH</i>, <i>rpl16</i>, <i>rpl32-trnL</i>, <i>rps16</i>, <i>trnK</i>, <i>trnL-trnF</i>, <i>trnS-trnG</i>, <i>trnT-trnL</i>). Both species have brown-black trichomes inside the upper corolla lip and nested within the same

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32

Zhao, Yue, Ya-Ping Chen, Rui-Zhu Bai, Colin A. Pendry, Alexander P. Sukhorukov, and Chun-Lei Xiang. "A new species and a new record of Phlomoides (Lamiaceae) from Xizang, China." PhytoKeys 246 (August 27, 2024): 15–26. https://doi.org/10.3897/phytokeys.246.129057.

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<i>Phlomoides bomiensis</i>, a new species in Bomi County, Xizang, China, was described and illustrated. In addition, <i>Phlomoides longidentata</i>, previously only known from Nepal and Bhutan, is newly recorded from Dingri County, Xizang, China. The phylogenetic placement of both species within the genus was analysed using nine plastid DNA markers (<i>atpB-rbcL</i>, <i>psbA-trnH</i>, <i>rpl16</i>, <i>rpl32-trnL</i>, <i>rps16</i>, <i>trnK</i>, <i>trnL-trnF</i>, <i>trnS-trnG</i>, <i>trnT-trnL</i>). Both species have brown-black trichomes inside the upper corolla lip and nested within the same

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33

Zhao, Yue, Ya-Ping Chen, Rui-Zhu Bai, Colin A. Pendry, Alexander P. Sukhorukov, and Chun-Lei Xiang. "A new species and a new record of Phlomoides (Lamiaceae) from Xizang, China." PhytoKeys 246 (August 27, 2024): 15–26. https://doi.org/10.3897/phytokeys.246.129057.

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<i>Phlomoides bomiensis</i>, a new species in Bomi County, Xizang, China, was described and illustrated. In addition, <i>Phlomoides longidentata</i>, previously only known from Nepal and Bhutan, is newly recorded from Dingri County, Xizang, China. The phylogenetic placement of both species within the genus was analysed using nine plastid DNA markers (<i>atpB-rbcL</i>, <i>psbA-trnH</i>, <i>rpl16</i>, <i>rpl32-trnL</i>, <i>rps16</i>, <i>trnK</i>, <i>trnL-trnF</i>, <i>trnS-trnG</i>, <i>trnT-trnL</i>). Both species have brown-black trichomes inside the upper corolla lip and nested within the same

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34

Zhao, Yue, Ya-Ping Chen, Rui-Zhu Bai, Colin A. Pendry, Alexander P. Sukhorukov, and Chun-Lei Xiang. "A new species and a new record of Phlomoides (Lamiaceae) from Xizang, China." PhytoKeys 246 (August 27, 2024): 15–26. https://doi.org/10.3897/phytokeys.246.129057.

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<i>Phlomoides bomiensis</i>, a new species in Bomi County, Xizang, China, was described and illustrated. In addition, <i>Phlomoides longidentata</i>, previously only known from Nepal and Bhutan, is newly recorded from Dingri County, Xizang, China. The phylogenetic placement of both species within the genus was analysed using nine plastid DNA markers (<i>atpB-rbcL</i>, <i>psbA-trnH</i>, <i>rpl16</i>, <i>rpl32-trnL</i>, <i>rps16</i>, <i>trnK</i>, <i>trnL-trnF</i>, <i>trnS-trnG</i>, <i>trnT-trnL</i>). Both species have brown-black trichomes inside the upper corolla lip and nested within the same

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35

Zhao, Yue, Ya-Ping Chen, Rui-Zhu Bai, Colin A. Pendry, Alexander P. Sukhorukov, and Chun-Lei Xiang. "A new species and a new record of Phlomoides (Lamiaceae) from Xizang, China." PhytoKeys 246 (August 27, 2024): 15–26. https://doi.org/10.3897/phytokeys.246.129057.

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<i>Phlomoides bomiensis</i>, a new species in Bomi County, Xizang, China, was described and illustrated. In addition, <i>Phlomoides longidentata</i>, previously only known from Nepal and Bhutan, is newly recorded from Dingri County, Xizang, China. The phylogenetic placement of both species within the genus was analysed using nine plastid DNA markers (<i>atpB-rbcL</i>, <i>psbA-trnH</i>, <i>rpl16</i>, <i>rpl32-trnL</i>, <i>rps16</i>, <i>trnK</i>, <i>trnL-trnF</i>, <i>trnS-trnG</i>, <i>trnT-trnL</i>). Both species have brown-black trichomes inside the upper corolla lip and nested within the same

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36

Amundsen, Keenan, and Scott Warnke. "Agrostis Species Relationships Based on trnL-trnF and atpI-atpH Intergenic Spacer Regions." HortScience 47, no. 1 (2012): 18–24. http://dx.doi.org/10.21273/hortsci.47.1.18.

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The bentgrasses (Agrostis spp.) are among the most important species to the turfgrass industry. They have complex genomes resulting from polyploidization and high rates of interspecific hybridization. An understanding of species relationships would improve the efficiency of developing improved bentgrass cultivars. To elucidate the evolutionary relationships among Agrostis species, phylogenetic analyses were performed on sequences of two chloroplast-encoded intergenic spacer regions. A 298-bp region of the trnL-trnF intergenic spacer and a 451-bp region of the atpI-atpH intergenic spacer were i

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Tineo, Daniel, Danilo E. Bustamante, Martha S. Calderon, Jani E. Mendoza, Eyner Huaman, and Manuel Oliva. "An integrative approach reveals five new species of highland papayas (Caricaceae, Vasconcellea) from northern Peru." PLOS ONE 15, no. 12 (2020): e0242469. http://dx.doi.org/10.1371/journal.pone.0242469.

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The assignment of accurate species names is crucial, especially for those with confirmed agronomic potential such as highland papayas. The use of additional methodologies and data sets is recommended to establish well-supported boundaries among species of Vasconcellea. Accordingly, six chloroplast (trnL-trnF, rpl20-rps12, psbA-trnH intergenic spacers, matK and rbcL genes) and nuclear (ITS) markers were used to delimit species in the genus Vasconcellea using phylogeny and four DNA-based methods. Our results demonstrated congruence among different methodologies applied in this integrative study

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38

Perrie, Leon R., Daniel J. Ohlsen, Lara D. Shepherd, Michael Garrett, Patrick J. Brownsey, and Michael J. Bayly. "Tasmanian and Victorian populations of the fern Asplenium hookerianum result from independent dispersals from New Zealand." Australian Systematic Botany 23, no. 6 (2010): 387. http://dx.doi.org/10.1071/sb10028.

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The fern Asplenium hookerianum Colenso (Aspleniaceae) is indigenous to New Zealand and Australia. In New Zealand, it is widespread and genetically diverse, with 26 haplotypes previously identified for the chloroplast trnL–trnF locus. In Australia, A. hookerianum is currently known only from two small populations in Victoria and two in Tasmania. The present study assessed the diversity, relationships and biogeographic history of the Australian populations. A single trnL–trnF haplotype was identified in Tasmanian populations, and it was shared with populations in south-western New Zealand. The s

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39

Knyazev, Michail S., Evgeny G. Philippov, Olga E. Cherepanova, and Denis A. Krivenko. "Investigation of the variability of chloroplast DNA of some Astragalus spp. of sect. Helmia and A. arcanus of sect. Erioceras (Fabaceae)." Turczaninowia 26, no. 4 (2023): 78–87. http://dx.doi.org/10.14258/turczaninowia.26.4.13.

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Analysis of chloroplast DNA sequences revealed a high polymorphism of the length and nucleotide composition of trnF–trnV and the intron trnL for Helmia section species of the genus Astragalus (Fabaceae). Molecular genetic studies of Astragalus species of the Helmia section were previously practically not carried out; sequencing of trnF–trnV and the intron trnL of chloroplast DNA for 7 species of the section, as well as the probable intersection hybrid Astragalus arcanus held for the first time. On the basis of genetic studies, clarified the relationship between species included in the section

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Medvedeva, Svetlana, Olga Cherepanova, Olga Tolkach, Vasiliy Ponomarev, and Galina Malosieva. "TrnL-trnfF cpDNA polymorphism in some representatives of the genus Betula." BIO Web of Conferences 35 (2021): 00017. http://dx.doi.org/10.1051/bioconf/20213500017.

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We present preliminary results of the trnL-trnF cpDNA region analysis for some representatives of the g. Betula, out of which B. procurva can be considered the most interesting. The disjunctive range of this species is confined to the mountain system in southeast Central Asia (Pamir-Alai). The occurrence of the birch is isolated from the main range in the mountainous part of the Urals, in the boreal forests zone and in the Trans-Ural forest-steppe. Due to high interspecific hybridization and population variability of the g. Betula, doubts were raised about the correct identification of the rep

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41

Vaganov, Alexsey V., Tatyana A. Sinitsyna, Maxim G. Kutsev, et al. "DNA barcodes of the vascular flora of the Altai Mountain Country: type material of the Herbarium ALTB." Turczaninowia 25, no. 4 (2022): 5–11. http://dx.doi.org/10.14258/turczaninowia.25.4.1.

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   The article presents first data of the work on DNA barcoding of type specimens of ALTB Herbarium (Barnaul, Russia). Obtained sequences of ITS and trnL-trnF, trnH-psbA markers of DNA were deposited in NCBI GenBank, and corresponding dataset was published in the GBIF (Global Biodiversity Information Facility).  

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Huh, Man-Kyu, Hye-Jeong Yoon, and Joo-Soo Choi. "Phylogenic Study of Genus Citrus and Two Relative Genera in Korea by trnL-trnF Sequence." Journal of Life Science 21, no. 10 (2011): 1452–59. http://dx.doi.org/10.5352/jls.2011.21.10.1452.

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Inglis, Peter, Lorena Mata, Marcos da Silva, et al. "DNA Barcoding for the Identification of Phyllanthus Taxa Used Medicinally in Brazil." Planta Medica 84, no. 17 (2018): 1300–1310. http://dx.doi.org/10.1055/a-0644-2688.

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AbstractPlants of the genus Phyllanthus, principally Phyllanthus amarus, Phyllanthus urinaria, Phyllanthus niruri, and Phyllanthus tenellus, are used in Brazilian folk medicine to treat kidney stones as well as other ailments, where the latter two species are listed in the Brazilian Pharmacopeia as quebra-pedra (stone-breaker). However, only P. niruri has been shown to be effective in a clinical setting. Nuclear ribosomal internal transcribed spacer (ITS1 – 5.8S rRNA-ITS2), internal transcribed spacer 2, and chloroplasts rbcL, matK, psbA-trnH, trnL, and trnL-trnF were screened for their potent

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Yan, Ke-Jian, Yun-Feng Huang, Xiong Li, Ren-Chuan Hu, Wang-Hui Wu, and Ya-Ping Chen. "Paraphlomis caloneura (Lamiaceae), A New Species From Guangxi, China." Systematic Botany 48, no. 2 (2023): 346–53. http://dx.doi.org/10.1600/036364423x16847773873198.

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Abstract— Paraphlomis caloneura, a new species from Guangxi Zhuang Autonomous Region, China, is described and illustrated. Molecular phylogenetic analyses based on two nuclear ribosomal DNA regions (ITS and ETS) and three plastid DNA markers (rpl32-trnL, rps16, and trnL-trnF) revealed that the new species is sister to P. hirsutissima. Both species are found in the limestone forests and are geographically close to each other, but P. caloneura can be easily distinguished from P. hirsutissima by its oblong or ovate-oblong and adaxially densely hispid laminas with broadly cuneate to cordate bases,

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Xu, Yuhan, Zhengcai Wei, Qiang Fu, et al. "Chelonopsis guchengensis, a new species of Lamiaceae from Hubei Province in Central China." PhytoKeys 253 (March 17, 2025): 331–42. https://doi.org/10.3897/phytokeys.253.145834.

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Chelonopsis is a small genus endemic to East Asia. In this study, a new species, C. guchengensis, from Nanhe National Nature Reserve, Gucheng County, Hubei Province is described and illustrated. Molecular phylogenetic analyses based on two nuclear ribosomal DNA regions (ETS and ITS) and five plastid DNA markers (trnL intron, trnL-trnF, trnS-trnG, psbA-trnH, and rps16) were carried out to explore the phylogenetic position of the new species. A close relationship between the new species and C. giraldii is supported by molecular phylogenetic and morphological evidence. However, the two species ca

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YURTSEVA, OLGA V., OXANA I. KUZNETSOVA, and EVGENY V. MAVRODIEV. "A broadly sampled 3-loci plastid phylogeny of Atraphaxis (Polygoneae, Polygonoideae, Polygonaceae) reveals new taxa: I. Atraphaxis kamelinii spec. nov. from Mongolia." Phytotaxa 268, no. 1 (2016): 1. http://dx.doi.org/10.11646/phytotaxa.268.1.1.

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Maximum Likelihood (ML) and Bayesian analyses (BI) applied for 3-plastid loci (cpDNA trnL(UAA) intron, trnL–trnF IGS, and rpl32–trnL(UAG) IGS regions) / 65 tips matrix resulted in preliminary phylogenetic reconstruction of the genus Atraphaxis. In combination with the morphological data the obtained phylogeny appears sufficient for recognition of challenging taxonomic entities. We found that a collection of Atraphaxis from the Dzungarian Gobi, which appears to be phylogenetically related to A. pungens, is morphologically different from the latter by the predominantly dimerous perianth and gyno

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Perret, Mathieu, Alain Chautems, Rodolphe Spichiger, Geoffrey Kite, and Vincent Savolainen. "Systematics and evolution of tribe Sinningieae (Gesneriaceae): evidence from phylogenetic analyses of six plastid DNA regions and nuclear ncpGS." American Journal of Botany 90, no. 3 (2003): 445–60. https://doi.org/10.5281/zenodo.14820365.

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(Uploaded by Plazi for the Bat Literature Project) For nearly all species in the three genera of tribe Sinningieae (Gesneriaceae), Sinningia , Paliavana , and Vanhouttea (mostly in southeastern Brazil) plus 10 outgroups, we have sequenced six non‐coding DNA regions (i.e., plastid intergenic spacers trnT‐trnL, trnL‐trnF, trnS‐trnG, atpB‐rbcL , and introns in the trnL and rpl16 genes) and four introns in nuclear plastid‐expressed glutamine synthetase gene ( ncpGS ). Separate and combined analyses of these data sets using maximum parsimony supported the monophyly of Sinningieae, but the genera Pa

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Lukhanina, Natalia V., Marina G. Sinyavskaya, Inessa M. Goloenko, and Oleg G. Davydenko. "Chloroplast microsatellites in barley: the reduction of variability spectrum in cultivated forms." Ecological genetics 4, no. 1 (2006): 17–21. http://dx.doi.org/10.17816/ecogen4117-21.

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The chloroplast genomes of 67 accessions of Hordeum vulgare L were surveyed for simple sequence repeat polymorphism. Seven SSR loci were investigated, trnL/trnF and psbI-trnS intergenic regions, as well as two regions 3' trnS genes were polymorphic. The rare variants of these loci were revealed and five rare accessions were found. Our results show an extremely low level of cpDNA polymorphism of cultivated barley.

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MAMONTOV, YURIY S., NADEZHDA A. KONSTANTINOVA, and ANNA A. VILNET. "One more species in the genus Jungermannia (Marchantiophyta: Jungermanniaceae)." Bryophyte Diversity and Evolution 40, no. 2 (2018): 79. http://dx.doi.org/10.11646/bde.40.2.6.

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Jungermannia afoninae is described from the mountains of South Siberia based on a complex taxonomical approach exploring critical reinvestigation of morphological features and analyses of newly obtained trnL–trnF and trnG-intron cpDNA sequences from six Jungermannia specimens incorporated into a previously published dataset. Description and illustrations of the new species are provided with notes on its differentiation from allied species, ecology and distribution.

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Xie, Dong Mei, DAI-YIN PENG, CHENG-WU FANG, MIN-JIAN QIN, DE-QUN WANG, and LU-QI HUANG. "Sedum spiralifolium (Crassulaceae): a new species from Anhui Province, China." Phytotaxa 183, no. 3 (2014): 171. http://dx.doi.org/10.11646/phytotaxa.183.3.4.

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A new species of Sedum, S. spiralifolium from Anhui Province, eastern China is described and illustrated. Our molecular systematics results (based on nuclear ITS and plastid trnL-trnF) and morphological analyses indicate that this new species is closest to S. sarmentosum. It differs from S. sarmentosum by having linear-lanceolate leaves, earlier flowering and twisted upper leaves at the top of its sterile shoots.

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