scholarly journals Identification of species and materia medica withinSaussureasubg.Amphilaenabased on DNA barcodes

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e6357 ◽  
Author(s):  
Jie Chen ◽  
Yong-Bao Zhao ◽  
Yu-Jin Wang ◽  
Xiao-Gang Li
Keyword(s):  
Internal Transcribed Spacer ◽  
Evolutionary History ◽  
Dna Barcode ◽  
Dna Barcodes ◽  
Additional Species ◽  
Plant Materials ◽  
Materia Medica ◽  
The Family ◽  
Identification Of Species ◽  
Medical Plants

Saussureais one of the most species-rich genera in the family Asteraceae, where some have a complex evolutionary history, including radiation and convergent evolution, and the identification of these species is notoriously difficult. This genus contains many plants with medical uses, and thus an objective identification method is urgently needed.Saussureasubg.Amphilaenais one of the four subgenera ofSaussureaand it is particularly rich in medical resources, where 15/39 species are used in medicine. To test the application of DNA barcodes in this subgenus, five candidates were sequenced and analyzed using 131 individuals representing 15 medical plants and four additional species from this subgenus. Our results suggested that internal transcribed spacer (ITS) +rbcL or ITS +rbcL +psbA-trnH could distinguish all of the species, while the ITS alone could identify all of the 15 medical plants. However, the species identification rates based on plastid barcodes were low, i.e., 0% to 36% when analyzed individually, and 63% when all four loci were combined. Thus, we recommend using ITS +rbcL as the DNA barcode forS.subg.Amphilaenaor the ITS alone for medical plants. Possible taxonomic problems and substitutes for medicinal plant materials are also discussed.

scholarly journals Current limitations and future prospects of detection and biomonitoring of NIS in the Mediterranean Sea through environmental DNA

NeoBiota ◽  
2021 ◽  
Vol 70 ◽  
pp. 151-165
Author(s):  
Francesco Zangaro ◽  
Benedetta Saccomanno ◽  
Eftychia Tzafesta ◽  
Fabio Bozzeda ◽  
Valeria Specchia ◽  
...  
Keyword(s):  
Mediterranean Sea ◽  
Dna Barcode ◽  
Environmental Dna ◽  
Special Focus ◽  
Indigenous Species ◽  
Dna Barcodes ◽  
Identification Of Species ◽  
The Mediterranean ◽  
Taxonomic Groups ◽  
Non Indigenous Species

The biodiversity of the Mediterranean Sea is currently threatened by the introduction of Non-Indigenous Species (NIS). Therefore, monitoring the distribution of NIS is of utmost importance to preserve the ecosystems. A promising approach for the identification of species and the assessment of biodiversity is the use of DNA barcoding, as well as DNA and eDNA metabarcoding. Currently, the main limitation in the use of genomic data for species identification is the incompleteness of the DNA barcode databases. In this research, we assessed the availability of DNA barcodes in the main reference libraries for the most updated inventory of 665 confirmed NIS in the Mediterranean Sea, with a special focus on the cytochrome oxidase I (COI) barcode and primers. The results of this study show that there are no barcodes for 33.18% of the species in question, and that 45.30% of the 382 species with COI barcode, have no primers publicly available. This highlights the importance of directing scientific efforts to fill the barcode gap of specific taxonomic groups in order to help in the effective application of the eDNA technique for investigating the occurrence and the distribution of NIS in the Mediterranean Sea.

scholarly journals A new species of Litarachna Walter, 1925 (Acari: Hydrachnidia: Pontarachnidae) from Corozal Bay (Belize), described based upon morphology and DNA barcodes

Acarologia ◽  
2021 ◽  
Vol 61 (3) ◽  
pp. 602-613
Author(s):  
Lucia Montes-Ortiz ◽  
Tom Goldschmidt ◽  
Lourdes Vásquez-Yeomans ◽  
Manuel Elías-Gutiérrez
Keyword(s):  
Dna Barcode ◽  
Morphological Description ◽  
Estuarine System ◽  
Dna Barcodes ◽  
Sem Images ◽  
The Family ◽  
Coi Sequences ◽  
First Time ◽  
A New Species ◽  
Electronic Microscope

A new planktonic species of the marine water mites of the family Pontarachnidae Koenike, 1910 is described from Corozal Bay, an estuarine system in Belize. The morphological description includes Scanning Electronic Microscope (SEM) images and is augmented by an analysis of DNA cytochrome c oxidase I (COI) sequences, the DNA barcode, used for the first time for a species description in this group.

scholarly journals Description of three new species of Automeris Hübner, 1819 from Colombia and Brazil (Lepidoptera, Saturniidae, Hemileucinae)

ZooKeys ◽  
2021 ◽  
Vol 1031 ◽  
pp. 183-204
Author(s):  
Thibaud Decaëns ◽  
Frédéric Bénéluz ◽  
Liliana Ballesteros-Mejia ◽  
Diego Bonilla ◽  
Rodolphe Rougerie
Keyword(s):  
New Species ◽  
Dna Barcode ◽  
Comparative Morphology ◽  
Dna Barcodes ◽  
Eastern Cordillera ◽  
Brazilian Amazonia ◽  
Number Of Species ◽  
The Family ◽  
Wing Patterns ◽  
Three New Species

The Saturniidae is one of the most emblematic families of moths, comprising nearly 3000 species distributed globally. In this study, DNA barcode analysis and comparative morphology were combined to describe three new species within the genus Automeris, which is the most diverse genus in the family. Automeris llaneros Decaëns, Rougerie & Bonilla, sp. nov., Automeris mineros Decaëns, Rougerie & Bonilla, sp. nov., and Automeris belemensis Decaëns, Rougerie & Bénéluz, sp. nov. are described from the Colombian Orinoco watershed, the Colombian Eastern Cordillera, and the area of endemism of Belém in the Brazilian Amazonia, respectively. They all belong to the Automeris bilinea (Walker, 1855) species subgroup, which comprises a number of species that are sometimes difficult to distinguish from each other using morphology alone. Here, the description of these three new species is based on significant differences from their closest relatives, either in terms of wing patterns, genitalia, DNA barcodes or a combination of these features.

scholarly journals The molecular identification of Zanthoxylum armatum DC of Pakistan based on DNA barcoding

2020 ◽  
Vol 27 (2) ◽  
pp. 323-333
Author(s):  
Shakila Umer ◽  
Nayab Safdar ◽  
Khushi Muhammad
Keyword(s):  
Dna Barcoding ◽  
Molecular Identification ◽  
Sequence Similarity ◽  
Pcr Analysis ◽  
Dna Barcodes ◽  
Zanthoxylum Armatum ◽  
The Family ◽  
Plant Taxon ◽  
Identification Of Species ◽  
Zanthoxylum Bungeanum

Zanthoxylum armatum DC., belonged to the family Ruteacea, is a medicinal plant used to cure many diseases. DNA barcoding was used as a tool for molecular identification of Zanthoxylum armatum DC. species from Balakot Pakistan. In the present study four DNA barcodes including matk, rbcl, ITS and trnH-psbA were used. The sequenced data were analyzed by using BLASTn at NCBI, FASTA and Mega 7.0 software. During PCR analysis, 3 DNA barcodes ITS, rbcl and trnh-psbA were successfully amplified and showed the 100% sequencing success. Furthermore, these barcode markers showed 99-100% sequence similarity with the reference sequences at the BLASTn. The further analysis revealed the sequence similarity of investigating marker with Zanthoxylum armatum (MH016484.1), Zanthoxylum nitidum (FN599471.1) and Zanthoxylum bungeanum (MF097123.1) respectively. The current finding provides the basis for sequenced data of Z. armatum to be used in future for molecular discrimination among the plant species from Pakistan and it is concluded that combination of diverse kind of barcoding markers could be helpful in proper identification of species at lower taxonomic level. Bangladesh J. Plant Taxon. 27(2): 323-333, 2020 (December)

Exploring DNA Barcode Information of Selected Thai Medicinal Plants

2014 ◽  
Vol 1060 ◽  
pp. 219-222
Author(s):  
Suang Rungpragayphan ◽  
Perayot Pamonsinlapatham ◽  
Busaba Powthongchin ◽  
Wikanda Prommanee ◽  
Piyaporn Wongakson
Keyword(s):  
Quality Control ◽  
Herbal Medicine ◽  
Medicinal Plants ◽  
Medicinal Plant ◽  
Internal Transcribed Spacer ◽  
Dna Barcode ◽  
Dna Barcodes ◽  
Plant Dna ◽  
Thai Medicinal Plants ◽  
Plant Families

DNA barcode is referred to specific ranges, sequences or fragments of DNA used for identification organisms at genus or species levels. There are several plant DNA barcodes which are currently studied, such as ITS (Internal Transcribed Spacer), ITS2 (Internal Transcribed Spacer 2), matK, psbA-trnH, rbcL, trnL-trnF. In this work, ITS, ITS2 and psbA-trnH sequences of many medicinal plants in the “Thai Medicinal Plant DNA Barcode Database” were studied. Total of 163 DNA barcodes from 75 plant families were processed and analysed. ATCG contents, %GC or %CG found, ATG patterns, and alignment patterns were investigated. Also, sequences relationships among families were discussed. This information will be useful for authentication and quality control of herbal medicine.

scholarly journals Designation of a new family group name, Tonzidae fam. nov., for the genus Tonza (Lepidoptera, Yponomeutoidea), based on immature stages of Tonza citrorrhoa

2018 ◽  
Author(s):  
Shigeki Kobayashi ◽  
Haruka Matsuoka ◽  
Masaaki Kimura ◽  
Jae-Cheon Sohn ◽  
Yutaka Yoshiyasu ◽  
...  
Keyword(s):  
Dna Barcode ◽  
Molecular Data ◽  
Systematic Position ◽  
Family Group ◽  
Immature Stages ◽  
Dna Barcodes ◽  
New Family ◽  
The Family ◽  
Family Level ◽  
First Time

The systematic position of Tonza Walker, 1864 is re-evaluated, based on the characteristics of immature stages and DNA barcodes. Larvae and pupae of Tonza citrorrhoa Meyrick, 1905 are described and illustrated for the first time. Larvae of this species form a loose web among the leaves and branches of the host plant, Putranjiva matsumurae Koidz. (Putranjivaceae Endl.). The immature stages of Tonza exhibit four unique apomorphies including: in the larva, the prolegs on A5 and A6 absent, and the seta L2 on the A1–A8 very small; in the pupa, four minute knobs are positioned in the middle portion on abdominal segments V and VI; while its caudal processes possess a W-shaped spine with numerous minute spines. These characteristics clearly distinguish Tonza from other yponomeutoid families and hence, we propose a new family group name, Tonzidae Kobayashi & Sohn fam. nov., for the genus Tonza. Existing DNA barcode data suggest a relationship with Glyphipterigidae Stainton, 1854. The family level status of Tonzidae fam. nov. provides a hypothesis that needs to be tested with larger molecular data.

DNA barcoding as an aid for species identification in austral black flies (Insecta: Diptera: Simuliidae)

Genome ◽  
2017 ◽  
Vol 60 (4) ◽  
pp. 348-357 ◽  
Author(s):  
Luis M. Hernández-Triana ◽  
Fernanda Montes De Oca ◽  
Sean W.J. Prosser ◽  
Paul D.N. Hebert ◽  
T. Ryan Gregory ◽  
...  
Keyword(s):  
Dna Barcoding ◽  
Species Identification ◽  
Dna Barcode ◽  
Distinct Species ◽  
Coi Gene ◽  
Black Flies ◽  
Cryptic Diversity ◽  
Dna Barcodes ◽  
Identification Of Species ◽  
Species Groups

In this paper, the utility of a partial sequence of the COI gene, the DNA barcoding region, for the identification of species of black flies in the austral region was assessed. Twenty-eight morphospecies were analyzed: eight of the genus Austrosimulium (four species in the subgenus Austrosimulium s. str., three species in the subgenus Novaustrosimulium, and one species unassigned to subgenus), two of the genus Cnesia, eight of Gigantodax, three of Paracnephia, one of Paraustrosimulium, and six of Simulium (subgenera Morops, Nevermannia, and Pternaspatha). The neighbour-joining tree derived from the DNA barcode sequences grouped most specimens according to species or species groups recognized by morphotaxonomic studies. Intraspecific sequence divergences within morphologically distinct species ranged from 0% to 1.8%, while higher divergences (2%–4.2%) in certain species suggested the presence of cryptic diversity. The existence of well-defined groups within S. simile revealed the likely inclusion of cryptic diversity. DNA barcodes also showed that specimens identified as C. dissimilis, C. nr. pussilla, and C. ornata might be conspecific, suggesting possible synonymy. DNA barcoding combined with a sound morphotaxonomic framework would provide an effective approach for the identification of black flies in the region.

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