Article
Agronomy
M. Alp Furan
Summary: This study proposes a DNA-based method to accurately identify the numerous species within the diverse Origanum genus. The analysis of chloroplast genes and a non-coding sequence showed that rbcL and psbA-trnH were most effective in identifying the genus, species, and subspecies. Combining multiple sequences improved accuracy.
GENETIC RESOURCES AND CROP EVOLUTION
(2023)
Article
Plant Sciences
Shuai Jiang, Fenglin Chen, Pai Qin, Hai Xie, Guo Peng, Yongliang Li, Xinhong Guo
Summary: The study focuses on the accurate identification of Theaceae plants using DNA barcoding technology. The researchers identified the optimal combination of gene sequences for DNA barcodes and conducted phylogenetic analysis and species-specific barcode design. The results improve species identification accuracy and have important implications for the identification and protection of Theaceae species and germplasm resources.
PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS
(2022)
Article
Multidisciplinary Sciences
Chayapol Tungphatthong, Santhosh Kumar J. Urumarudappa, Supita Awachai, Thongchai Sooksawate, Suchada Sukrong
Summary: This study reveals that DNA barcoding coupled with HRM is an efficient tool with which to identify M. speciosa and M. speciosa-containing samples and ensure the safety and quality of traditional Thai herbal medicines.
SCIENTIFIC REPORTS
(2021)
Article
Plant Sciences
Wyclif Ochieng Odago, Emmanuel Nyongesa Waswa, Consolata Nanjala, Elizabeth Syowai Mutinda, Vincent Okelo Wanga, Elijah Mbandi Mkala, Millicent Akinyi Oulo, Yan Wang, Cai-Fei Zhang, Guang-Wan Hu, Qing-Feng Wang
Summary: This study used genome skimming data to sequence and analyze the plastomes of Hoya species, resolving the phylogenetic positions of some Chinese endemic species. It also identified potential molecular markers for DNA barcoding and species identification, and provided insights into the advantages of using plastome genome data for studying phylogenetic relationships.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Fahimeh Koohdar, Masoud Sheidai
Summary: Medicinal plants are crucial for disease treatment in many countries, however, fraud and misconduct in sales centers can pose a threat to customer health. This study found that using internal transcribed spacer and chloroplast DNA sequences can effectively differentiate Melissa officinalis from other species.
Article
Ecology
Roni Tadmor-Levi, David Cummings, Tomer Borovski, Rachel Shapira, Evgeniya Marcos-Hadad, Lior David
Summary: Freshwater bodies play a crucial role in supporting both aquatic and terrestrial life. However, these habitats are highly vulnerable and often disrupted by climate change and human activities. This study developed a molecular method using high resolution melting analysis to identify the species of lake cichlids in the Sea of Galilee, which is the largest surface freshwater body in the Middle East. The method successfully identified the species of small cichlid fry, allowing for a better understanding of their distribution and abundance. This method can be valuable in further ecological studies and conservation efforts.
FRONTIERS IN ECOLOGY AND EVOLUTION
(2022)
Article
Environmental Sciences
Maslin Osathanunkul, Nipitpong Sawongta, Nuankanya Sathirapongsasuti, Thunyaporn Poonsawat, Usawadee Detsri, Charatsee Aungtonya, Chatmongkon Suwannapoom
Summary: Accurate species identification is crucial for studying the distribution of highly venomous jellyfish. This study developed a molecular method called high resolution melting (HRM) to differentiate various jellyfish species, providing a more practical and effective approach compared to traditional methods.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Microbiology
Soumitra Paloi, Wuttichai Mhuantong, Janet Jennifer Luangsa-ard, Noppol Kobmoo
Summary: The study used high-throughput amplicon sequencing via PacBio SEQUEL I to evaluate intragenomic variation in Cordyceps species, finding that C. blackwelliae showed the highest level of variation. The challenge lies in selecting consensus sequences for accurate species identification, with those with the highest number of reads providing the best results.
Article
Environmental Sciences
Xinyu Fang, Shen Lin, Yuting Zhang, Zonghua Wang, Konglin Zhou, Jianming Chen
Summary: A new species of Cladonema, named Cladonema digitatum sp. nov., was identified in a laboratory aquarium in Fuzhou, China, based on its morphological characteristics and DNA barcoding. It has distinct features that differentiate it from other Cladonema medusae. However, species identification based solely on morphology is difficult due to the phenotypic plasticity displayed by C. digitatum. Therefore, updating information on the life cycle and DNA barcoding is necessary to improve the taxonomy of the genus Cladonema.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Food Science & Technology
Marianela Quintrel, Felipe Jilberto, Matias Sepulveda, Maria Elisa Marin, David Veliz, Cristian Araneda, Maria Angelica Larrain
Summary: The study developed a DNA-based method for species identification using SNP markers, which can be widely applied in the seafood industry with high accuracy and consistency.
Article
Biotechnology & Applied Microbiology
Ding-Kun Liu, Cheng-Yuan Zhou, Xiong-De Tu, Zhuang Zhao, Jin-Liao Chen, Xu-Yong Gao, Shao-Wei Xu, Meng-Yao Zeng, Liang Ma, Sagheer Ahmad, Ming-He Li, Siren Lan, Zhong-Jian Liu
Summary: This study analyzed the plastome characteristics of the Chiloschista genus in the Orchidaceae family for the first time. The results showed that Chiloschista plastomes have conserved plastome structures. Several genes and noncoding regions were identified as potential barcodes for phylogenetic and population studies. Chiloschista may serve as an ideal system for investigating plastome evolution dynamics and DNA barcoding in orchid studies.
Article
Forestry
Liliana E. Garcia-Valencia, Jocelyn Perez-Garcia, Miguel Angel Vallejo-Reyna, Roberto Reynoso-Santos, Jesus Vargas-Hernandez, Florencia Garcia-Campusano
Summary: The study evaluated the utility of real-time PCR coupled with high-resolution melting (HRM) for identifying different varieties within the Pseudostrobus complex. The results showed that specific gene loci could successfully discriminate among different varieties, and also revealed the impact of geography on allele distribution and species hybridization.
Article
Plant Sciences
Dong-Pil Jin, Sunhee Sim, Jong-Won Park, Ji-Eun Choi, Jiwon Yoon, Chae Eun Lim, Min-Ha Kim
Summary: This study used DNA barcoding to accurately identify Korean Caryophyllaceae and found that ITS sequences were more accurate for identification than chloroplast sequences. Among the genera, five genera (Eremogone, Minuartia, Pseudostellaria, Sagina, and Stellaria) were successfully identified, while the identification of species in Cerastium, Gypsophila, Dianthus, Silene, and Spergularia showed relatively low resolutions.
Article
Multidisciplinary Sciences
Anna Vaupel, Bernd Hommel, Lukas Beule
Summary: Earthworm communities play a crucial role in soil biodiversity and ecosystem functions. However, the traditional method of morphological identification is time-consuming and costly. In this study, we developed a fast and cost-efficient method called HRM curve analysis to identify earthworm species. We also developed a rapid and inexpensive DNA extraction method, which helps to reduce the costs of molecular analyses.
Article
Microbiology
Simone Scherrer, Fenja Rademacher, Roger Stephan, Sophie Peterhans
Summary: A new high-resolution melting (HRM) method was designed and developed for the identification of Glaesserella parasuis, with high sensitivity and 100% accuracy in recognizing different serovars. The method was applied to clinical isolates obtained in Switzerland between 2014 and 2022, revealing heterogenous distribution of serovars. The combination with a virulence marker allows for the prediction of potentially virulent strains. The method is simple, reliable, and cost-effective.
Article
Food Science & Technology
Irini Bosmali, Georgios Lagiotis, Evangelia Stavridou, Nadia Haider, Maslin Osathanunkul, Kostas Pasentsis, Panagiotis Madesis
Summary: Coffee, a popular and heavily traded commodity, is often targeted by fraudulent practices. However, through the use of an ITS2-based marker and HRM analysis, coffee authenticity can be effectively determined, even from brewed beverages.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2021)
Article
Plant Sciences
Aliki Xanthopoulou, Theodoros Moysiadis, Christos Bazakos, Evangelos Karagiannis, Ioanna Karamichali, George Stamatakis, Martina Samiotaki, Maria Manioudaki, Michail Michailidis, Panagiotis Madesis, Ioannis Ganopoulos, Athanassios Molassiotis, Georgia Tanou
Summary: The study provides new insights into plant biology through the integration of genomics and proteomics, identifying a large number of genes and proteins in sweet cherries. Analysis reveals differences between gene and protein quantities, key regulators of fruit development, and novel cherry proteins. Additionally, a new protein-level annotation and database were developed for further research in Prunus species.
Article
Biodiversity Conservation
Susanne Masters, Bastien Anthoons, Panagiotis Madesis, Seethapathy G. Saroja, Maarten Schermer, Wilfred Gerritsen, Arzu Karahan, Rick Verdoes, Rachel Schwallier, Tinde van Andel, Hugo de Boer, Barbara Gravendeel
Summary: This study reveals the illegal trade of legally protected orchids through online platforms, with salep being a prominent product. Despite being restricted by national and international legislation, the sale and collection of salep still pose a significant threat to the survival of certain orchid species.
BIODIVERSITY AND CONSERVATION
(2022)
Article
Multidisciplinary Sciences
Maslin Osathanunkul, Panagiotis Madesis
Summary: Capture-based aquaculture in Southeast Asia is receiving attention, but the abundance and distribution of wild stock are crucial for management. Detection of target organisms using eDNA can be an effective monitoring method, but conventional approaches have limitations.
Article
Agronomy
Aristeides P. Papapanagiotou, Christos A. Damalas, Irene Bosmali, Panagiotis Madesis, Georgios Menexes, Ilias Eleftherohorinos
Summary: Field and pot experiments in Greece revealed resistance in silky windgrass to certain herbicides. The resistance to chlorsulfuron was confirmed in most populations, while other ALS inhibitors provided adequate control. The gene sequencing showed mutations causing resistance. It is crucial to adopt integrated management practices to delay the evolution of resistant populations due to limited chemistries/modes of action for grass weed control in cereals.
Article
Plant Sciences
Irene Bosmali, Georgios Lagiotis, Nadia Haider, Maslin Osathanunkul, Costas Biliaderis, Panagiotis Madesis
Summary: By analyzing DNA barcoding regions, this study identified 71 Vicia specimens of Eurasian descent. The trnL and ITS2 regions were effective in discriminating the analyzed species, while the rpoC1 region could not identify all selected species due to sequence conservation or missing sequences in GenBank. The combination of DNA barcoding regions is essential for accurate species discrimination within the Vicia genus.
Article
Food Science & Technology
Bastien Anthoons, Georgios Lagiotis, Andreas D. Drouzas, Hugo de Boer, Panagiotis Madesis
Summary: This study developed a high-resolution melting DNA-based protocol for discriminating between phenotypically similar toxic and edible plant species in mixtures, even in simulated gastric acid, which has important implications for application in medicine, forensics, and the agricultural industry.
JOURNAL OF FOOD SCIENCE
(2022)
Article
Chemistry, Analytical
Xanthoula Eirini Pantazi, Anastasia L. Lagopodi, Afroditi Alexandra Tamouridou, Nathalie Nephelie Kamou, Ioannis Giannakis, Georgios Lagiotis, Evangelia Stavridou, Panagiotis Madesis, Georgios Tziotzios, Konstantinos Dolaptsis, Dimitrios Moshou
Summary: The aim of this study was to develop supervised self-organizing map (SOM) models for automatic recognition of systemic resistance state in plants after resistance inducer application. The models were validated using fluorescence kinetics data obtained from a handheld fluorometer. The best performing model achieved 97.22% to 100% accuracy and was confirmed using gene expression data.
Article
Forestry
Maslin Osathanunkul, Nipitpong Sawongta, Panagiotis Madesis, Wittaya Pheera
Summary: This study investigated the application of a hybrid method of DNA barcoding and high-resolution melting analysis (Bar-HRM) for native plant species confirmation. The nuclear ribosomal internal transcribed spacer (ITS) region was identified as a primer set that can clearly discriminate native plant species. The study demonstrated the usefulness of Bar-HRM in native plant species confirmation, even without molecular data.
Article
Biology
Evangelia Stavridou, Ioanna Karamichali, Georgios Lagiotis, Elena Patsea, Maslin Osathanunkul, Panagiotis Madesis
Summary: This study investigated the effects of seasonal changes on the soil microbiome associated with runner bean cultivation. The presence of the runner bean differentially shaped the soil microbial community structure, which is important for understanding the role of soil microbiomes in agriculture.
Article
Plant Sciences
Lefkothea Karapetsi, Emmanouil Pratsinakis, Fotis Xirakias, Maslin Osathanunkul, Ioannis Vagelas, Panagiotis Madesis
Summary: The destructive effects of Fusarium wilts on crop production have been mitigated through soil fumigation and the use of fungicides. However, due to restrictions on residue tolerances and environmental impacts, alternative methods using natural compounds like essential oils are being investigated. Oregano essential oil has been found to inhibit the growth of several fungal species, including Fusarium oxysporum. This study aims to utilize metabarcoding to evaluate the impact of oregano essential oil on F. oxysporum and other fungal species present in soil samples.
Article
Plant Sciences
Eleni Avramidou, Efi Sarri, Ioannis Ganopoulos, Panagiotis Madesis, Leonidas Kougiteas, Evgenia-Anna Papadopoulou, Konstantinos A. Aliferis, Eleni M. Abraham, Eleni Tani
Summary: This study compared the genetic diversity and seed metabolite profiles of five genetic materials of faba bean. Genetic diversity was assessed by SCoT markers and genetic distances were estimated by UPGMA dendrogram. The advanced line KK18 displayed the best nutritional profile and showed the highest potential for further exploration in breeding programs.
Article
Agronomy
Pavlina Drogoudi, Georgios Pantelidis, Lefkothea Karapetsi, Konstantina Ziakou, Konstantinos Kazantzis, Panagiotis Madesis, Thomas Thomidis
Summary: This study conducted a prospection of local traditional and underutilized peach genetic resources in Greece and investigated their genetic and morphological variations and susceptibility to shoot blight. A total of 32 peach cultivars/accessions were collected, and leaf and fruit morphological characterization was performed. The results showed that the local peach genotypes were different from foreign cultivars in several leaf and fruit phenotypic traits. Local cultivars exhibited greater resistance to Cylindrocarpon destructans, with certain cultivars showing the highest resistance. Genetic characterization revealed moderate to low genetic diversity among the peach cultivars, and several markers were found to be significantly correlated with fruit traits. These findings are valuable for breeding programs and future research on peach.
Article
Biochemistry & Molecular Biology
Nikolaos D. Georgakis, Elisavet Ioannou, Marianna Chatzikonstantinou, Marian Merino, Evangelia G. Chronopoulou, Jose Luis Mullor, Panagiotis Madesis, Nikolaos E. Labrou
Summary: In this study, the cosmeceutical properties of aqueous extracts from the microalgae strain Trachydiscus minutus were evaluated and compared with three widely used Chlorella strains. The T. minutus extracts showed the highest total antioxidant capacity and inhibitory potency towards elastase, indicating potential in controlling skin aging. The extracts also exhibited anti-inflammatory activity and protection against UVA-induced cell damage. The results suggest that T. minutus extract has promising cosmeceutical properties and potential for skincare use.
Review
Biochemistry & Molecular Biology
Alexandros Mavrommatis, Eleni Tsiplakou, Anastasia Zerva, Panagiota D. Pantiora, Nikolaos D. Georgakis, Georgia P. Tsintzou, Panagiotis Madesis, Nikolaos E. Labrou
Summary: Microalgae are a renewable source with beneficial effects on nutrition and health. They have been explored as feed additives in livestock animals, improving their health, product quality, and environmental impact. However, the cost-effective production and use of microalgae remains a challenge.