Article
Food Science & Technology
Shruti, Ayushi Tripathi, Susmita Shukla
Summary: Advancements in gene transfer technology have opened up exciting possibilities for manipulating the genetic makeup of organisms. Different methods, such as biolistic transformation, microinjection, and chemical techniques, can be used to transfer genes between cells. However, progress is still hindered by low transformability in some plant species and agricultural genotypes.
JOURNAL OF MICROBIOLOGY BIOTECHNOLOGY AND FOOD SCIENCES
(2023)
Article
Chemistry, Analytical
Qiongyao Mou, Yaqi Bai, Mengli Xu, Dan Lv, Jinan Deng, Ning Hu, Jun Yang
Summary: This study proposes a microfluidic chip for cell electroporation based on a microtrap array, which optimizes the microtrap structure for single-cell capture and electric field focusing. Compared with a uniform electric field, a lower threshold electric field is required to induce electroporation and produces a higher transmembrane voltage on the cell in the microchip, showing an improvement in cell viability and electroporation efficiency. Furthermore, the larger perforation area produced on the cells in the microchip under a specific electric field allows a higher substance transfer efficiency and is less affected by the cell size, benefiting the consistency of substance transfer.
ANALYTICAL CHEMISTRY
(2023)
Article
Biotechnology & Applied Microbiology
Joshua G. Philips, Elena Martin-Avila, Andrea V. Robold
Summary: This review provides updated evidence on the likelihood, factors, and barriers for horizontal gene transfer in genetically modified plants, and presents the legislation and frameworks followed by the Australian Gene Technology Regulator in considering the risks posed by horizontal gene transfer.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Article
Instruments & Instrumentation
Lucas Prado Osco, Danielle Elis Garcia Furuya, Michelle Tafs Garcia Furuya, Daniel Veras Correa, Wesley Nunes Goncalvez, Jose Marcato Junior, Miguel Borges, Maria Carolina Blassioli-Moraes, Mirian Fernandes Furtado Michereff, Michely Ferreira Santos Aquino, Raul Alberto Laumann, Veraldo Lisenberg, Ana Paula Marques Ramos, Lucio Andre de Castro Jorge
Summary: Spectroscopy is crucial for understanding phenomena in various fields of study, particularly in vegetation analysis. This study investigates the impact of pre-processing techniques on machine learning algorithms' performance in modeling insect damage in plants. The Extra-Tree algorithm performed the best when using first-order derivative data, and the near-infrared spectral region was identified as the most important. This research provides insights for future studies in applying pre-processing techniques and machine learning methods to spectral data.
INFRARED PHYSICS & TECHNOLOGY
(2022)
Article
Thermodynamics
S. Y. Misyura, R. I. Egorov, V. S. Morozov, A. S. Zaitsev
Summary: This study compares the heat transfer efficiency using different heating methods and finds that single laser beam heating results in lower interface temperature but more intense evaporation. Two laser beams achieve the maximum heat transfer and evaporation rate. Homogeneous heating is significantly inferior to local non-stationary heating in all key criteria.
INTERNATIONAL COMMUNICATIONS IN HEAT AND MASS TRANSFER
(2023)
Article
Plant Sciences
Xue-Mei Yan, Shan-Shan Zhou, Hui Liu, Shi-Wei Zhao, Xue-Chan Tian, Tian-Le Shi, Yu-Tao Bao, Zhi-Chao Li, Kai-Hua Jia, Shuai Nie, Jing-Fang Guo, Lei Kong, Ilga M. Porth, Jian-Feng Mao
Summary: Terpenes and terpenoids play a crucial role in plant defense, development, and oil composition. Understanding the differentiation of terpene synthase (TPS) genes provides valuable insights for genetic improvement of oil-producing plants. This study investigates the origin and evolution of TPS genes, revealing potential gene fusion events in the ancestor of land plants and mutual transfer between microbes and plants.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Computer Science, Interdisciplinary Applications
Zhang Chengquan, Hamidreza Aghajanirefah, Kseniya I. Zykova, Hossein Moayedi, Binh Nguyen Le
Summary: This paper employed three artificial intelligence methods to determine the compressive strength of concrete. The results showed that the artificial neural network model using the stochastic fractal search algorithm outperformed the other methods in evaluating the compressive strength of concrete.
COMPUTERS AND CONCRETE
(2023)
Article
Ecology
Tsai-Fu Chuang, Yuan-Hsiou Chang
Summary: Amphibians are facing increasing threats due to loss of natural habitats caused by human activities, particularly in the development of solid banks along water bodies in Taiwan. Existing design solutions do not meet the needs of amphibians, emphasizing the urgent need for relevant design specifications.
ECOLOGICAL ENGINEERING
(2021)
Article
Engineering, Environmental
Ziyan Wei, Kai Feng, Zhujun Wang, Yu Zhang, Min Yang, Yong-Guan Zhu, Marko P. J. Virta, Ye Deng
Summary: The study improved the high-throughput single-cell technology to track the hosts of the ARG sul1 gene in urban wastewater treatment plants. They found that the host bacteria were highly diverse and exhibited clear seasonal differences, and identified the important roles of HGT and VGT in the dissemination of ARGs.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Ambra S. Parmagnani, Stefano D'Alessandro, Massimo E. Maffei
Summary: Iron-sulfur (Fe-S) clusters play a crucial role in biological reactions and their assembly involves complex protein-protein interactions in mitochondria, cytosol, and nucleus. ISCA scaffold proteins are essential for Fe-S cluster biosynthesis and metabolism. Recent studies suggest that a mechanism similar to pigeon magnetoperception might exist in plants, with ISCA proteins potentially playing a role in plant magnetic induction. Further research is needed to uncover the molecular mechanisms of MagR/Cry mediated magnetic induction and the possible coupling between light and magnetic induction in plants.
Article
Biochemistry & Molecular Biology
Yan Wang, Hang Zhang, Haolin Zhong, Zhidong Xue
Summary: Protein domains are crucial units for protein classification, function understanding, and design, with various prediction methods and databases available in the past two decades. These methods are categorized into sequence-based and structure-based approaches, each with its own advantages and limitations. Popular online protein domain databases are overviewed, with discussions on potential improvements of prediction methods.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2021)
Article
Biotechnology & Applied Microbiology
Sachin Teotia, Xiaoran Wang, Na Zhou, Mengmeng Wang, Haiping Liu, Jun Qin, Dianwei Han, Chingwen Li, Christine E. Li, Shangjin Pan, Haifeng Tang, Wenjun Kang, Zhanhui Zhang, Xiaoqing Tang, Ting Peng, Guiliang Tang
Summary: In this study, the researchers improved the efficiency of gene silencing by modifying miR168a structure in Arabidopsis thaliana and using tandem two-hit amiRNAs. They demonstrated the effectiveness of this approach in silencing genes involved in miRNA, tasiRNA, and hormone signalling pathways. The authors also compared two-hit amiRNA technology with CRISPR/Cas9 and provided a web-based amiRNA designer for easy design and wide application.
PLANT BIOTECHNOLOGY JOURNAL
(2023)
Article
Obstetrics & Gynecology
Frauke von Versen-Hoeynck, Georg Griesinger
Summary: The use of frozen-thawed embryo transfer (FET) treatment has increased significantly over the past decade. While the artificial cycle regimen provides convenience in aligning thawing and transferring embryos, recent data suggest that it may pose risks to maternal and fetal health. Therefore, the use of artificial cycle regimens in ovulatory women should be discouraged based on existing evidence.
HUMAN REPRODUCTION
(2022)
Article
Construction & Building Technology
Amir Ali Shahmansouri, Maziar Yazdani, Mehdi Hosseini, Habib Akbarzadeh Bengar, Hamid Farrokh Ghatte
Summary: The study demonstrates the potential of using artificial neural networks to predict the compressive strength and electrical resistivity of natural zeolitic concrete, significantly speeding up the process and improving accuracy. Experimental results from 324 different designs of natural zeolitic concrete specimens validate the accuracy and reliability of the model. This has important implications for cost reduction and time saving.
CONSTRUCTION AND BUILDING MATERIALS
(2022)
Article
Plant Sciences
A. Anwar, I. Zafar, M. Muzaffar, B. Mirza, I. Murtaza
Summary: Transgenic technologies are a valuable source of genetic and epigenetic variations in plants. In this study, the rolB gene in transgenic tobacco plants was found to cause an increase in global methylation levels. The expression levels of genes involved in epigenetic processes and the interaction between RolB protein and methylation-related proteins were investigated. The results showed that the rolB gene induces epigenetic modifications in plants. These findings provide new insights into epigenetic variations in transgenic plants and can contribute to understanding the biomedical activities of the rolB gene in plants.
RUSSIAN JOURNAL OF PLANT PHYSIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Hasan Can, Ibrahim Ilker Ozyigit, Merve Can, Asli Hocaoglu-Ozyigit, Ibrahim Ertugrul Yalcin
Summary: This study examined the concentrations of trace/heavy metals in various leafy vegetables from Kyrgyzstan and evaluated the associated health risks. The findings showed that airborne pollution has impacted the mineral contents of vegetables, potentially affecting human health. Further research and international comparisons will be important for global data on this topic.
BIOLOGICAL TRACE ELEMENT RESEARCH
(2021)
Article
Materials Science, Textiles
Asli Hocaoglu-Ozyigit, Bihter Ucar, Volkan Altay, Ibrahim Ilker Ozyigit
Summary: This study investigated the genetic diversity and phylogenetic relationships of 22 widely cultivated cotton lines in Turkey. The study found a moderate level of genetic diversity among the genotypes. Sequence comparison revealed the most similar sequences to known species, and a phylogenetic tree was constructed to display the genetic similarities between different families.
JOURNAL OF NATURAL FIBERS
(2022)
Review
Chemistry, Multidisciplinary
Ibrahim Ilker Ozyigit, Hasan Can, Ilhan Dogan
Summary: Contamination by heavy metals in agricultural fields is a global safety issue, and phytoremediation using genetically engineered plants is a potential solution for removing metals. However, the uptake of metals in common plants is low, hence the development of genetically engineered plants to enhance metal accumulation efficiency.
ENVIRONMENTAL CHEMISTRY LETTERS
(2021)
Article
Environmental Sciences
Ibrahim Ilker Ozyigit, Lutfi Arda, Bestenur Yalcin, Ibrahim Ertugrul Yalcin, Bihter Ucar, Asli Hocaoglu-Ozyigit
Summary: The study found that Lemna minor has high accumulation capability for Cd and Ni, with changes in mineral nutrient status during Cd-Ni treatments. Low genetic polymorphism and high genomic template stability suggest that Lemna minor is a versatile hyperaccumulator.
INTERNATIONAL JOURNAL OF PHYTOREMEDIATION
(2021)
Article
Materials Science, Textiles
Dilek Tokel, Bedriye Nazli Genc, Ibrahim Ilker Ozyigit
Summary: The widespread adoption of Bt-cotton technology globally has brought economic and environmental benefits to farmers while increasing cotton yield. Although there are debates about sustainability and long-term benefits, several countries have already implemented this technology, with more expected to follow suit in the future.
JOURNAL OF NATURAL FIBERS
(2022)
Article
Biochemistry & Molecular Biology
Hasan Can, Ibrahim Ilker Ozyigit, Merve Can, Asli Hocaoglu-Ozyigit, Ibrahim Ertugrul Yalcin
Summary: Intensive production of fruits and vegetables leads to heavy metal accumulation, raising concerns about food safety and supply. This research in Kyrgyzstan analyzed mineral nutrient and heavy metal concentrations in commonly consumed fruity vegetables, finding red capia pepper to have the highest daily nutritional value. Despite variations in elemental content, all vegetables were within safe limits for consumption.
BIOLOGICAL TRACE ELEMENT RESEARCH
(2022)
Article
Computer Science, Artificial Intelligence
Murat Sari, Tahir Cosgun, Ibrahim Ertugrul Yalcin, Mahmut Taner, Ibrahim Ilker Ozyigit
Summary: This study employs artificial intelligence technique ANNs to determine heavy metal levels in soil samples, achieving low relative errors. Altitude is considered as a parameter for predicting nutrient heavy metals for the first time in the study.
APPLIED ARTIFICIAL INTELLIGENCE
(2022)
Review
Materials Science, Textiles
Dilek Tokel, Ilhan Dogan, Asli Hocaoglu-Ozyigit, Ibrahim Ilker Ozyigit
Summary: Cotton is a vital product that contributes to the wealth and employment opportunities of humanity. Turkey is one of the major cotton-producing countries in the world and is known for its high yield and production of non-GMO cotton. The Turkish textile industry serves as a driving force for the country, generating foreign exchange and creating numerous job opportunities.
JOURNAL OF NATURAL FIBERS
(2022)
Review
Materials Science, Textiles
Ibrahim Ilker Ozyigit, Ilhan Dogan, Yilmaz Kaya, Kasim Bajrovic, Nermin Gozukirmizi
Summary: Cotton, a crop of great economic value, is grown in over 70 countries and supports the livelihoods of 250 million people. The development of cotton varieties with enhanced stress tolerance, improved fiber quality, higher nutritional content, and increased yield is the main objective in cotton biotechnology. Tissue culture and gene transfer techniques, such as Agrobacterium-mediated transformation, have been successfully used to achieve this goal. In this study, a highly reproducible protocol for the production of transgenic cotton plants expressing desired traits was reported using Agrobacterium tumefaciens-mediated transformation.
JOURNAL OF NATURAL FIBERS
(2022)
Article
Environmental Sciences
Murat Sari, Ibrahim Ertugrul Yalcin, Mahmut Taner, Tahir Cosgun, Ibrahim Ilker Ozyigit
Summary: This research predicts heavy metal levels in plants and soils using artificial intelligence, specifically the artificial neural network (ANN), in order to overcome the high cost and time-consuming nature of laboratory procedures. The ANN model estimates the concentrations of heavy metals based on the concentrations of copper and zinc in plant and soil samples. The study shows that considering additional factors such as copper, zinc, location, and plant parts can significantly reduce relative errors.
INTERNATIONAL JOURNAL OF PHYTOREMEDIATION
(2023)
Article
Environmental Sciences
Murat Sari, Ibrahim Ertugrul Yalcin, Mahmut Taner, Tahir Cosgun, Ibrahim Ilker Ozyigit
Summary: This paper introduces a new approach using artificial neural networks (ANNs) to predict heavy metal pollution based on ecological factors, removing obstacles like time-consuming laboratory procedures and high implementation costs. Pollution prediction is crucial for safety, sustainable development, and effective decision-making. By applying ANNs to the collected data of 800 plant and soil materials, this study accurately predicts pollution, offering a promising and pioneering method for scientists, conservationists, and governments to develop effective work programs for a functioning ecosystem. The relative errors for each polluting heavy metal in training, testing, and holdout data are found to be significantly low.
ENVIRONMENTAL MONITORING AND ASSESSMENT
(2023)
Article
Spectroscopy
Faruk Karahan, Ibrahim Ilker Ozyigit, Ibrahim Ertugrul Yalcin, Asli Hocaoglu-Ozyigit, Bedriye Nazli Erkencioglu, Ahmet Ilcim
Summary: This study analyzed mineral nutrient and potentially toxic element levels in 38 plant species belonging to medicinally important families. The results showed that some potentially toxic elements accumulated slightly above the permissible limits set by the World Health Organization. This highlights the importance of collecting medicinal plants from protected areas far from mining and close to clean rivers, and conducting regular control analyses for potentially toxic elements for human health.
SPECTROSCOPY LETTERS
(2023)
Article
Chemistry, Multidisciplinary
B. Yalcin, L. Arda, I. E. Yalcin, K. Senturk, M. C. Alphan, D. Akcan, I. I. Ozyigit
Summary: ZnO and Cd-doped ZnO nanoparticles were synthesized by sol-gel method, and their structural, morphological, photocatalytic, and blood compatibility properties were studied. The nanoparticles exhibited a hexagonal wurtzite structure for Cd concentration below 0.03, and a mixture of ZnO and CdO phases for Cd concentration above 0.03. Among the Cd-doped nanoparticles, Zn0.90Cd0.10O and Zn0.80Cd0.80O showed the highest photocatalytic performance with degradation percentages of 69.9% and 72.8% respectively. Zn0.40Cd0.60O exhibited the highest blood compatibility but the weakest photocatalytic performance (degradation percentage of 32.2%).
JOURNAL OF NANOPARTICLE RESEARCH
(2023)
Article
Engineering, Chemical
Nese Yilmaz, Ibrahim Ilker Ozyigit, Ilhan Dogan, Goksel Demir, Ibrahim Ertugrul Yalcin
Summary: This study conducted experiments on phytoplankton composition, heavy metal contamination, and water quality parameters in the waterway connecting Lake Kucukcekmece and the Sea of Marmara in Istanbul, Turkey. Results showed that the area exhibited eutrophic characteristics, with variations in phytoplankton densities, chlorophyll-a contents, and concentrations of heavy metals and nutrient elements within certain ranges.
DESALINATION AND WATER TREATMENT
(2021)
Article
Agriculture, Multidisciplinary
Ibrahim Ilker Ozyigit, Ilhan Dogan, Sedat Karadeniz, Zeki Severoglu, Goksel Demir, Ibrahim Ertugrul Yalcin, Celal Yarci
Summary: This study focused on the mineral nutrient uptake competition between maize and common weeds in agricultural fields, revealing that different plant species have varying abilities to accumulate different mineral elements.
PAKISTAN JOURNAL OF AGRICULTURAL SCIENCES
(2021)