Article
Biochemical Research Methods
Yash D. Patel, Adam J. Brown, Jie Zhu, Guglielmo Rosignoli, Suzanne J. Gibson, Diane Hatton, David C. James
Summary: This study found that synthetic promoters can indeed be used in vectors to mediate the expression of multiple genes at predictable relative stoichiometries, but deviations from expected promoter-mediated transcriptional activity were observed. Positional effects and gene copy levels were found to impact the coexpression of genes within a multigene vector.
ACS SYNTHETIC BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Yu Xia, Sierra Duca, Bjorn Perder, Friederike Dundar, Paul Zumbo, Miaoyan Qiu, Jun Yao, Yingxi Cao, Michael R. M. Harrison, Lior Zangi, Doron Betel, Jingli Cao
Summary: This study identified a transiently activated epicardial progenitor cell (aEPC) subpopulation marked by ptx3a and col12a1b expression in adult zebrafish hearts. Upon cardiac injury, aEPCs emerged from the epithelial epicardium, underwent epithelial-mesenchymal transition (EMT), and differentiated into different cell types, crucial for heart regeneration.
NATURE COMMUNICATIONS
(2022)
Article
Horticulture
Chengcai Zhang, Xiaohua Yao, Huadong Ren, Kailiang Wang, Jun Chang
Summary: This study identified and characterized seven CiPALs genes in pecans, with CiPAL4 and CiPAL5 showing higher expression levels during different growth stages and stress responses. These two genes also exhibited genetic polymorphisms, which could be useful for genetic studies in pecan plants.
SCIENTIA HORTICULTURAE
(2022)
Article
Biotechnology & Applied Microbiology
Xianzun Xiao, Liming Ouyang, Jie Qi, Ju Chu
Summary: Aspergillus niger lacks basic genetic elements for dynamic control, with the identification of the first hypoxia-inducible promoters providing new insights into the organism's adaptability to low oxygen conditions. Promoter truncation analysis revealed core regions determining hypoxia response.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Cell Biology
Melissa Shizue de Almeida Yamashita, Luna Nascimento Vargas, Eduardo de Oliveira Melo
Summary: Researchers isolated and characterized the bovine MUC2 promoter region by designing primers, conducting deletions, and performing transient transfection assays in cell culture experiments, demonstrating its ability to induce expression of a reporter gene.
MOLECULAR AND CELLULAR BIOCHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Silvia Da Ros, Giulia Nicoletto, Riccardo Rigo, Silvia Ceschi, Eleonora Zorzan, Mauro Dacasto, Mery Giantin, Claudia Sissi
Summary: The regulation of conformational arrangements of gene promoters is a crucial physiological mechanism for fine control of gene expression. By studying the G-quadruplex forming sites in the KIT promoter, it was found that different G4 sites impact SP1 binding and protein expression levels, with kit2 and kit* serving as an on-off system for KIT expression. Using two G4 binders could potentially target kit2-kit* as a reliable pharmacological intervention.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Chemistry, Multidisciplinary
Hugues Bonnet, Maeva Morel, Alexandre Devaux, Joseph Boissieras, Anton Granzhan, Benjamin Elias, Thomas Lavergne, Jerome Dejeu, Eric Defrancq
Summary: In this study, BLI and CD spectroscopy were used to investigate the interaction between i-motif DNA (i-DNA) ligands and folded or unfolded i-DNA under different acidic and near-neutral conditions. The results showed that although some ligands exhibited good affinity for the i-DNA structure, none of them displayed selective interactions or promoted its formation.
CHEMICAL COMMUNICATIONS
(2022)
Article
Veterinary Sciences
Dawei Wei, Sayed Haidar Abbas Raza, Xingping Wang, Rajwali Khan, Zhaoxiong Lei, Guijie Zhang, Jiupan Zhang, Zhuoma Luoreng, Yun Ma, Muna O. Alamoudi, Bandar Hamad Aloufi, Ahmed Mohajja Alshammari, Ayman Hassan Abd El-Aziz, Majid Alhomrani, Abdulhakeem S. Alamri
Summary: This study investigated the tissue expression patterns and functional promoter of bovine LATS1, and identified the key transcription factors in the core promoter region. It revealed the regulatory mechanisms of bovine LATS1 transcription in mediating skeletal muscle growth. Bovine LATS1 was highly expressed in the longissimus thoracis and upregulated in infancy muscle.
FRONTIERS IN VETERINARY SCIENCE
(2022)
Article
Biotechnology & Applied Microbiology
Chuan Shen, Xia Li
Summary: In this study, the characteristics and functions of the P450 gene family in Camellia sinensis were analyzed using bioinformatics-based methods. A total of 273 putative P450 genes were identified, and they were well-balanced across the genome. Phylogenetic analysis divided the CsP450s into 34 subfamilies, with CYP71 being the most abundant. Subcellular localization analysis showed that P450 was distributed in various organelles. The promoter region of CsP450s contained cis-acting elements related to phytohormones and stress responses. Tissue expression analysis revealed that P450 was highly expressed in roots and stems. Furthermore, qPCR analysis confirmed the expression patterns under drought and cold stress.
Article
Agricultural Engineering
Mei-Li Sun, Tian-Qiong Shi, Lu Lin, Rodrigo Ledesma-Amaro, Xiao-Jun Ji
Summary: This article reviews the endogenous promoters of Yarrowia lipolytica and describes engineering strategies and applications of promoter engineering. It explores the potential of Yarrowia lipolytica as a superior bio-manufacturing platform, providing guidance for further research and development.
BIORESOURCE TECHNOLOGY
(2022)
Article
Mathematical & Computational Biology
Meiling Chen, Tianshou Zhou, Jiajun Zhang
Summary: The transcription of genes in single cells is discussed as a probabilistic process, with emphasis on the relationship between variance and mean expression. It is revealed that the sign of a key parameter beta in this relationship is entirely controlled by external regulation, rather than promoter structure, and is determined by the independence or correlation of regulators as stochastic variables. The findings suggest that external regulation governs the mean-noise relationship more so than promoter sequence.
MATHEMATICAL BIOSCIENCES AND ENGINEERING
(2021)
Article
Medicine, Research & Experimental
Daryl Humes, Stephanie Rainwater, Julie Overbaugh
Summary: The TOP vector is an optimized tool for delivering guide RNAs and transgenes into primary T cells with high transduction efficiency, making it a promising tool for functional screening and immunotherapy applications.
MOLECULAR THERAPY-METHODS & CLINICAL DEVELOPMENT
(2021)
Article
Oncology
Teng Huang, Jiaheng Li, San Ming Wang
Summary: This study characterizes the core promoter mutation in Spanish bladder cancer cases and highlights the role of core promoter mutation in altering gene expression and contributing to bladder cancer development.
Article
Multidisciplinary Sciences
Yiyang Lu, Harpal Singh, Abhyudai Singh, Roy D. Dar
Summary: Reactivation of individual latent cells may be a deterministic outcome of underlying cell states rather than a stochastic process. A transient heritable memory regulates HIV-1 reactivation, with single cells responsive to LRAs for a few weeks before switching back to an unresponsive state.
Article
Entomology
Feng Wang, Yan-Ting Ji, Chi Tian, Yuan-Cheng Wang, Shen Xu, Ri-Yuan Wang, Qian-Qian Yang, Ping Zhao, Qing-You Xia
Summary: The phiC31 integrase-mediated FLIP system allows inducible expression of target genes in silkworm. The successful construction of binary transgenic silkworm lines using FLIP and phiC31-NLS integrase systems resulted in high-level expression of DsRed in silkworm offspring. This provides an effective alternative for manipulating gene expression in silkworms and other lepidopteran species.
Article
Biotechnology & Applied Microbiology
Eri Adams, Koji Mikami, Ryoung Shin
JOURNAL OF APPLIED PHYCOLOGY
(2017)
Article
Biochemistry & Molecular Biology
Takehiko Yokoyama, Masaharu Tokuda, Masafumi Amano, Koji Mikami
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY
(2018)
Article
Biotechnology & Applied Microbiology
Keiji Sasuga, Tomoya Yamanashi, Shigeru Nakayama, Syuetsu Ono, Koji Mikami
MARINE BIOTECHNOLOGY
(2018)
Article
Environmental Sciences
Koji Mikami, Meiko Ito, Kensuke Taya, Ikuya Kishimoto, Takuya Kobayashi, Yutaka Itabashi, Ryusuke Tanaka
MARINE ENVIRONMENTAL RESEARCH
(2018)
Article
Chemistry, Medicinal
Jiro Koizumi, Naoki Takatani, Noritoki Kobayashi, Koji Mikami, Kazuo Miyashita, Yumiko Yamano, Akimori Wada, Takashi Maoka, Masashi Hosokawa
Article
Plant Sciences
Ikuya Kishimoto, Inori Ariga, Yutaka Itabashi, Koji Mikami
JOURNAL OF PHYCOLOGY
(2019)
Article
Plant Sciences
Yoshiki Omuro, Ho Viet Khoa, Koji Mikami
Summary: This study found that 'Bangia' sp. ESS1 seaweeds cultured statically at 15 degrees C acquired freezing tolerance, but did not achieve thermotolerance at 32 degrees C. The static culture enhanced the release of asexual spores after freeze-and-thaw treatment.
Article
Plant Sciences
Ho Viet Khoa, Puja Kumari, Hiroko Uchida, Akio Murakami, Satoshi Shimada, Koji Mikami
Summary: The heat stress responses and thermotolerance of different 'Bangia' species vary, with 'Bangia' sp. ESS1 showing stronger heat resistance compared to 'Bangia' sp. ESS2 and B. atropurpurea, which exhibit higher heat sensitivity. These findings highlight diverse heat-stress response strategies among species within the 'Bangia' clades.
Article
Biotechnology & Applied Microbiology
Megumu Takahashi, Koji Mikami
Summary: Phycobilisomes in cyanobacteria, red algae and glaucophyte algae can absorb various light wavelengths to optimize photosynthesis. Research on the red alga Pyropia yezoensis showed that changes in light wavelength, specifically blue and red light, can modify the composition of phycobilisomes, resulting in reversible color changes in the algae. This blue-red chromatic acclimation in Pyropia yezoensis provides new insights into regulatory mechanisms for adjusting photosynthetic pigment contents in phycobilisomes of photosynthetic organisms.
ALGAL RESEARCH-BIOMASS BIOFUELS AND BIOPRODUCTS
(2021)
Editorial Material
Plant Sciences
Koji Mikami
Article
Cell Biology
Ho Viet Khoa, Koji Mikami
Summary: Heat stress responses in seaweeds involve both membrane-fluidization-dependent and -independent pathways. Heat stress induces the expression of specific genes in the red alga Neopyropia yezoensis, while the membrane fluidizer benzyl alcohol does not. In addition, dark treatment under heat stress promotes the expression of certain genes, while others remain unaffected.
Article
Cell Biology
Kensuke Taya, Shunzei Takeuchi, Megumu Takahashi, Ken-ichiro Hayashi, Koji Mikami
Summary: Auxin plays a crucial role in the polarized tip cell growth and division of the red alga Neopyropia yezoensis. The auxin receptor-like protein in N. yezoensis differs from the auxin receptor of terrestrial plants, Arabidopsis thaliana. These findings shed light on the mechanisms of auxin-induced tip growth in plants.
Article
Plant Sciences
Koji Mikami, Ho Viet Khoa
Summary: Heat shock protein 70 (HSP70) is a conserved protein involved in maintaining protein folding and refolding in both prokaryotic and eukaryotic organisms. In the red alga Neopyropia yezoensis, we identified genes encoding HSP70 proteins in different cellular compartments. We found that membrane fluidization plays a role in the heat-induced expression of HSP70 genes in this alga. Our results suggest a unique regulatory system for heat-induced expression of HSP70 genes in N. yezoensis.
Article
Biology
Koji Mikami, Chengze Li, Ryunosuke Irje, Yoichiro Hama
COMMUNICATIONS BIOLOGY
(2019)
Review
Plant Sciences
Izumi C. Mori, Yoko Ikeda, Takakazu Matsuura, Takashi Hirayama, Koji Mikami