Article
Chemistry, Multidisciplinary
Odelia Tepper, Hongchao Zheng, Daniel H. Appella, Eylon Yavin
Summary: The cpFIT-PNA probes are highly emissive RNA sensors with improved mismatch discrimination compared to FIT-PNAs.
CHEMICAL COMMUNICATIONS
(2021)
Article
Multidisciplinary Sciences
Yazhe Wang, Shipra Malik, Hee-Won Suh, Yong Xiao, Yanxiang Deng, Rong Fan, Anita Huttner, Ranjit S. Bindra, Vijender Singh, W. Mark Saltzman, Raman Bahal
Summary: In this study, we developed functionalized nanoparticles loaded with anti-seed s gamma PNAs to target oncomiRs 10b and 21 in tumor cells. Combined with temozolomide, these nanoparticles significantly improved the survival of orthotopic mouse models of GBM. This study provides a promising approach to personalized treatment of GBM based on tumor-specific oncomiRs.
Article
Acoustics
Alessandra Del Bene, Antonia D'Aniello, Stefano Tomassi, Francesco Merlino, Vincenzo Mazzarella, Rosita Russo, Angela Chambery, Sandro Cosconati, Salvatore Di Maro, Anna Messere
Summary: We developed an innovative and easily accessible solid-phase synthetic protocol for PNA oligomers by investigating the ultrasonication effects. This approach improved the crude product purities and the isolated yields of different types of PNA.
ULTRASONICS SONOCHEMISTRY
(2023)
Article
Pharmacology & Pharmacy
Jessica Gasparello, Chiara Papi, Matteo Zurlo, Stefano Volpi, Roberto Gambari, Roberto Corradini, Alessandro Casnati, Francesco Sansone, Alessia Finotti
Summary: One of the most promising approaches for gene regulation is the microRNA therapeutic method, which focuses on controlling the activity of microRNAs (miRNAs) that are dysregulated in diseases such as cancer. This can be achieved by inhibiting overexpressed miRNAs or restoring downregulated miRNAs using miRNA-mimics. The development of efficient and targeted vectors for delivering these molecules is a crucial topic in pharmacological modulation of miRNAs.
Article
Biochemistry & Molecular Biology
Takahito Tomori, Koya Uekusa, Aya Koyama, Takayuki Kanagawa, Yoshiaki Masaki, Kohji Seio
Summary: A synthetic scheme was developed for the synthesis of a modified ribothymidine with a 3-(N-methylsulfamoyl)propyl group. The modification can be used to modulate the properties of oligonucleotides by changing the substituents on the nitrogen, enabling them to possess suitable properties for antisense oligonucleotides.
BIOORGANIC & MEDICINAL CHEMISTRY
(2022)
Article
Chemistry, Multidisciplinary
Iranna Todkari, Manoj Kumar Gupta, Krishna N. Ganesh
Summary: In this study, it was found that DNA and bm-PNA duplexes with specific structures can be stabilized through interaction with silver ions, forming triple duplex complexes with synergistic stability effects on both duplexes and the complex.
CHEMICAL COMMUNICATIONS
(2022)
Review
Biology
Gleb S. S. Ivanov, Vyacheslav G. G. Tribulovich, Nikolay B. B. Pestov, Temitope I. I. David, Abdul-Saleem Amoah, Tatyana V. V. Korneenko, Nikolai A. A. Barlev
Summary: Peptide nucleic acids and other artificial genetic polymers have garnered significant interest from the scientific community since their discovery by Nielsen in 1991. Due to their unique biophysical properties, these artificial hybrid polymers are now widely used in various areas of therapy and diagnostics. This review provides an overview of their structure, rational design principles, and biophysical features, highlighting successful implementation in biology and biomedicine. The review also discusses areas of improvement for their future use as a new class of therapeutics.
Article
Chemistry, Multidisciplinary
Nitin A. Patil, Varsha J. Thombare, Rong Li, Xiaoji He, Jing Lu, Heidi H. Yu, Hasini Wickremasinghe, Kavya Pamulapati, Mohammad A. K. Azad, Tony Velkov, Kade D. Roberts, Jian Li
Summary: Peptide-Peptide Nucleic Acid (PNA) conjugates have shown potential in developing novel antisense antimicrobials. The efficiency of Cys-CINA conjugation was investigated for synthesizing peptide-PNA conjugates, which demonstrated improved antimicrobial activity against multidrug-resistant Gram-negative bacteria.
FRONTIERS IN CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Shiqin Miao, Debmalya Bhunia, Shekaraiah Devari, Yufeng Liang, Oliver Munyaradzi, Sarah Rundell, Dennis Bong
Summary: The development of bifacial peptide nucleic acids (bPNAs) as synthetic reagents for targeting the cis-element of MALAT1 shows promise in reducing the expression of this long noncoding RNA in cancer cells, with potential applications in investigating other transcripts stabilized by cis-acting poly(A) binding RNA elements.
ACS CHEMICAL BIOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Chengxi Li, Alex J. Callahan, Kruttika S. Phadke, Bryan Bellaire, Charlotte E. Farquhar, Genwei Zhang, Carly K. Schissel, Alexander J. Mijalis, Nina Hartrampf, Andrei Loas, David E. Verhoeven, Bradley L. Pentelute
Summary: This study reports an efficient technology that utilizes a fully automated fast-flow instrument to manufacture cell-penetrating peptide-conjugated peptide nucleic acids (PPNAs), which improves cellular uptake. The synthesized PPNAs showed improved activity in splice-correction and antiviral assays. This technology has the potential to be used for further investigation of PPNA candidates as antiviral agents.
ACS CENTRAL SCIENCE
(2022)
Article
Chemistry, Organic
Jan-Erik Hornung, Timo Weinrich, Michael W. Goebel
Summary: Quinone methide precursors protected with alkyldithiomethyl groups have been synthesized and converted into PNA conjugates. These conjugates remain stable without reducing agents, but release electrophilic quinone methide in the presence of glutathione, typical of cytosolic concentrations. Self-alkylation or crosslinking of RNA occurs when hybridized with complementary strands, with the fastest reactions observed for the least hindered compound.
EUROPEAN JOURNAL OF ORGANIC CHEMISTRY
(2022)
Article
Biotechnology & Applied Microbiology
Tetsuya Nagata, Chrissa A. Dwyer, Kie Yoshida-Tanaka, Kensuke Ihara, Masaki Ohyagi, Hidetoshi Kaburagi, Haruka Miyata, Satoe Ebihara, Kotaro Yoshioka, Takashi Ishii, Kanjiro Miyata, Kenichi Miyata, Berit Powers, Tomoko Igari, Syunsuke Yamamoto, Naoto Arimura, Hideki Hirabayashi, Toshiki Uchihara, Rintaro Iwata Hara, Takeshi Wada, C. Frank Bennett, Punit P. Seth, Frank Rigo, Takanori Yokota
Summary: This study demonstrates that DNA/RNA heteroduplex oligonucleotides (HDOs) conjugated to cholesterol or alpha-tocopherol can regulate endogenous gene expression in the central nervous system when administered systemically, with limited side effects. The HDOs effectively distribute throughout the CNS and suppress the expression of target genes by up to 90%, showing potential for ASO-based therapies for neurological diseases.
NATURE BIOTECHNOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Nikita Brodyagin, Aubrey L. Maryniak, Ilze Kumpina, John M. Talbott, Martins Katkevics, Eriks Rozners, James A. MacKay
Summary: Peptide nucleic acids (PNA) with extended isoorotamides containing nucleobases (I-o) were designed to bind A-U base pairs in double-stranded RNA. Isothermal titration calorimetry and UV thermal melting experiments showed improved affinity for A-U using the Io scaffold in PNA, with PNAs having four sequential Io extended nucleobases maintaining high binding affinity.
CHEMISTRY-A EUROPEAN JOURNAL
(2021)
Article
Chemistry, Organic
Ashwani Sharma, Shahaji H. More, Krishna N. Ganesh
Summary: The study introduces a novel cationic PNA, dapPNA, which demonstrates that the electrostatic attraction between cationic dapPNA and negatively charged DNA can enhance the stability of PNA : DNA complexes, overcoming unfavorable stereochemical effects. Additionally, the synthesis of two different PNA backbones derived from a single PNA monomer expands the repertoire of pyrrolidine-based PNA analogues.
EUROPEAN JOURNAL OF ORGANIC CHEMISTRY
(2021)
Article
Chemistry, Multidisciplinary
Ruth Aizen, Zohar A. Arnon, Or Berger, Antonella Ruggiero, Dor Zaguri, Noam Brown, Evgeny Shirshin, Inna Slutsky, Ehud Gazit
Summary: Nucleobase crystals have unique fluorescence properties in the visible spectrum, unlike their monomeric counterparts. Additionally, some nucleobases exhibit a red edge excitation shift, which is uncommon in the field of organic supramolecular materials and may have implications in therapeutic and materials science.
NANOSCALE ADVANCES
(2023)
Article
Microbiology
Younho Choi, Su-Jin Park, Yinyan Sun, Ji-Seung Yoo, Raghavendra Sumanth Pudupakam, Suan-Sin Foo, Woo-Jin Shin, Sally B. Chen, Philip N. Tsichlis, Won-Ja Lee, Jong-Soo Lee, Wenhui Li, Benjamin Brennan, Young-Ki Choi, Jae U. Jung
NATURE MICROBIOLOGY
(2019)
Article
Cell Biology
Jianxiong Zeng, Yaoming Wang, Zhifei Luo, Lin-Chun Chang, Ji Seung Yoo, Huan Yang, Younho Choi, Xiaochun Xie, Benjamin E. Deverman, Viviana Gradinaru, Stephanie L. Gupton, Berislav Zlokovic, Zhen Zhao, Jae U. Jung
Article
Microbiology
Huan Yan, Suan-Sin Foo, Weiqiang Chen, Ji-Seung Yoo, Woo-Jin Shin, Christine Wu, Jae U. Jung
Article
Cell Biology
Wenjie Wang, Woo-Jin Shin, Bojie Zhang, Younho Choi, Ji-Seung Yoo, Maxwell I. Zimmerman, Thomas E. Frederick, Gregory R. Bowman, Michael L. Gross, Daisy W. Leung, Jae U. Jung, Gaya K. Amarasinghe
Article
Cell Biology
Nipin Sp, Dong Young Kang, Eun Seong Jo, Alexis Rugamba, Wan Seop Kim, Yeong-Min Park, Dae-Yong Hwang, Ji-Seung Yoo, Qing Liu, Kyoung-Jin Jang, Young Mok Yang
Article
Multidisciplinary Sciences
Un Yung Choi, Jae Jin Lee, Angela Park, Wei Zhu, Hye-Ra Lee, Youn Jung Choi, Ji-Seung Yoo, Claire Yu, Pinghui Feng, Shou-Jiang Gao, Shaochen Chen, Hyungjin Eoh, Jae U. Jung
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2020)
Article
Oncology
Dong Young Kang, Nipin Sp, Eun Seong Jo, Alexis Rugamba, Dae Young Hong, Hong Ghi Lee, Ji-Seung Yoo, Qing Liu, Kyoung-Jin Jang, Young Mok Yang
Article
Oncology
Nipin Sp, Dong Young Kang, Doh Hoon Kim, Ji-Seung Yoo, Eun Seong Jo, Alexis Rugamba, Kyoung-Jin Jang, Young Mok Yang
ANTICANCER RESEARCH
(2020)
Review
Immunology
Steven X. Cho, Saptha Vijayan, Ji-Seung Yoo, Toshiyuki Watanabe, Ryota Ouda, Ning An, Koichi S. Kobayashi
Summary: The presentation of antigenic peptides by MHC class I and class II molecules is crucial for activating the adaptive immune system, with CIITA and NLRC5 serving as the major transcriptional activators of MHC class II and class I gene expression. Recent advances in understanding the role of NLRC5 in infectious diseases and cancer have shed light on its biological significance and mechanism in MHC class I expression.
Review
Biochemistry & Molecular Biology
Yusuke Kasuga, Baohui Zhu, Kyoung-Jin Jang, Ji-Seung Yoo
Summary: Understanding how the innate immune system detects coronaviruses and how the viruses evade detection is crucial for developing novel strategies to combat infections. Constant evolution of coronaviruses to evade host immune responses underscores the need for in-depth research into specific viral proteins and mechanisms that suppress immunity. Targeting key receptors like TLR7 in the host immune system could be a promising therapeutic approach against coronavirus infections.
EXPERIMENTAL AND MOLECULAR MEDICINE
(2021)
Article
Multidisciplinary Sciences
Ji-Seung Yoo, Michihito Sasaki, Steven X. Cho, Yusuke Kasuga, Baohui Zhu, Ryota Ouda, Yasuko Orba, Paul de Figueiredo, Hirofumi Sawa, Koichi S. Kobayashi
Summary: The authors show that SARS-CoV-2 targets key transcriptional regulators of the MHC class I pathway to hinder antigen presentation, revealing an immune evasion mechanism that suppresses host immune response.
NATURE COMMUNICATIONS
(2021)
Article
Pharmacology & Pharmacy
Eun-Ha Kim, Ba Wool Lee, Byeol Ryu, Hyo Moon Cho, Se-Mi Kim, Seung-Gyu Jang, Mark Anthony B. Casel, Rare Rollon, Ji-Seung Yoo, Haryoung Poo, Won Keun Oh, Young Ki Choi
Summary: The study suggests that phytochemicals extracted from Chlorella spp. and Psidium guajava have broad-spectrum antiviral activity against multiple SARS-CoV-2 variants and demonstrate potential anti-inflammatory activity.
ANTIVIRAL RESEARCH
(2022)
Article
Cell Biology
Shin-Ae Lee, Lin-Chun Chang, WooRam Jung, James W. Bowman, Dokyun Kim, Weiqiang Chen, Suan-Sin Foo, Youn Jung Choi, Un Yung Choi, Anna Bowling, Ji-Seung Yoo, Jae U. Jung
Summary: Virus-induced OASL protein promotes the assembly of RIPK3-ZBP1 non-canonical necrosome through liquid-like phase separation, activating RIPK3 and MLKL-mediated necroptosis, enhancing antiviral immune response.
NATURE CELL BIOLOGY
(2023)
Article
Cell Biology
Se-Mi Kim, Eun-Ha Kim, Mark Anthony B. Casel, Young-Il Kim, Rong Sun, Mi-Jeong Kwak, Ji-Seung Yoo, Mina Yu, Kwang-Min Yu, Seung-Gyu Jang, Rare Rollon, Jeong Ho Choi, Juryeon Gil, Kiyoung Eun, Hyunggee Kim, Armin Ensser, Jungwon Hwang, Min-Suk Song, Myung Hee Kim, Jae U. Jung, Young Ki
Summary: This study demonstrates that natural temperature differences between upper and lower respiratory tracts impact the replication and transmission of SARS-CoV-2. Mutations P323L or P323L/G671S enhance the activity of RNA-dependent RNA polymerase (RdRp) at lower temperatures and increase transmissibility. The stability of the NSP12-NSP7-NSP8 complex is increased by these mutations, leading to efficient viral replication and transmission.
Article
Cell Biology
Hye Won Jeong, Se-Mi Kim, Min Kyung Jung, Ji Yun Noh, Ji-Seung Yoo, Eun-Ha Kim, Young-Il Kim, Kwangmin Yu, Seung-Gyu Jang, Juryeon Gil, Mark Anthony Casel, Rollon Rare, Jeong Ho Choi, Hee-Sung Kim, Jun Hyoung Kim, Jihye Um, Chaeyoon Kim, Yeonjae Kim, Bum Sik Chin, Sungmin Jung, Jun Yong Choi, Kyoung-Ho Song, Yong-Dae Kim, Jun-Sun Park, Joon Young Song, Eui-Cheol Shin, Young Ki Choi
Summary: Omicron has become the dominant variant of SARS-CoV-2 globally and poses challenges due to its ability to evade neutralization. This study shows that neutralizing antibodies against Omicron are not detected in individuals previously infected with ancestral or past SARS-CoV-2 variants or after two-dose mRNA vaccination. However, a three-dose vaccination course induces broad neutralizing antibody responses with improved durability against different SARS-CoV-2 variants, although neutralizing antibody titers against Omicron remain low. Interestingly, among individuals with three-dose vaccination, Omicron breakthrough infection significantly enhances serum neutralizing activity against a broad spectrum of SARS-CoV-2 variants, including Omicron variants BA.1, BA.2, and BA.5. Additionally, memory T cells respond to both ancestral and Omicron spike proteins by producing cytokines, suggesting that Omicron breakthrough infection following three-dose mRNA vaccination induces pan-SARS-CoV-2 immunity that may protect against emerging SARS-CoV-2 variants of concern.
CELL REPORTS MEDICINE
(2022)