Article
Biology
Rory Vu Mather, Tyler J. J. Larsen, Debra A. A. Brock, David C. C. Queller, Joan E. E. Strassmann
Summary: This study explores the ability of three Paraburkholderia species to infect and induce bacterial carriage in other dictyostelid hosts. The results show that all three Paraburkholderia species can successfully infect and induce carriage in seven species of Dictyostelium hosts. However, they are unable to maintain a stable association with the more distantly related host Polysphondylium violaceum. These findings suggest that the mechanisms and evolutionary history of Paraburkholderia's symbiotic relationships may be general within Dictyostelium hosts, but not so general that it can associate with hosts of other genera. This work further develops an emerging model system for the study of symbiosis in microbes.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2023)
Article
Microbiology
Demosthenes P. Morales, Aaron J. Robinson, Andrew C. Pawlowski, Caitlyn Ark, Julia M. Kelliher, Pilar Junier, James H. Werner, Patrick S. G. Chain
Summary: This study evaluates the challenges in resolving bacterial-fungal interactions and proposes the use of fluorescence in situ hybridization (FISH) for microscopy imaging to obtain more conclusive evidence on the nature of specific relationships between bacteria and fungi.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Chemistry, Physical
Min Seok Lee, Hwi Hyun, Inwon Park, Sungho Kim, Dong-Hyun Jang, Seonghye Kim, Jae-Kyeong Im, Hajin Kim, Jae Hyuk Lee, Taejoon Kwon, Joo H. Kang
Summary: This study developed a novel technology called mu FISH, which uses mu FISH probes based on 16S rRNA sequences to quantitatively identify and detect bacteria in blood samples. It is a more sensitive method compared to traditional bacterial detection methods.
Review
Biochemistry & Molecular Biology
Yu-Sheng Wang, Jia Guo
Summary: The ability to quantify a large number of varied transcripts in single cells in their native spatial context is crucial for understanding health and disease, and recent advances in multiplexed FISH methods have enabled comprehensive RNA profiling in individual cells.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2021)
Article
Multidisciplinary Sciences
Gerrit G. Tamminga, Gijsbert J. Jansen, Marit Wiersma
Summary: This study evaluated a non-invasive fluorescence in situ hybridization (FISH) method for the detection of SARS-CoV-2 in saliva and found it to have high sensitivity and specificity, making it suitable for general population testing.
Article
Cell Biology
Lu Xiao, Joshua Labaer, Jia Guo
Summary: A high sensitivity and specificity multiplexed in situ RNA profiling approach was developed, allowing for successful analysis of multiple RNA species in various types of tissues through cycles of RNA staining, signal amplification, and probe stripping.
Article
Multidisciplinary Sciences
Irfan Akhtar, Fiona A. Stewart, Anna Haerle, Andrea Droste, Mathias Beller
Summary: The researchers optimized a FISH protocol to detect major bacteria genera in the Drosophila gut microbiome, aiming to investigate their spatial localization. This study contributes to answering questions about regionalization and establishment of the gut microbiome.
Article
Marine & Freshwater Biology
Zeyu Jia, Yijing Dong, Heng Xu, Fengping Wang
Summary: The study optimized the HCR-FISH protocol to address the issues of low signal intensity and false-positive signals, successfully identifying HCR initiator/amplifier pairs with high efficiency and specificity. Through the optimization of sample pretreatment methods, HCR-FISH protocol combinations, and image processing, false positive signals were reduced.
MARINE LIFE SCIENCE & TECHNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Yanan Sun, Jin Sun, Yi Yang, Yi Lan, Jack Chi-Ho Ip, Wai Chuen Wong, Yick Hang Kwan, Yanjie Zhang, Zhuang Han, Jian-Wen Qiu, Pei-Yuan Qian
Summary: Vestimentiferan tubeworms are gutless, habitat-forming animals in deep-sea chemosynthetic ecosystems that depend on endosymbiotic bacteria for nutrition. The genome of Paraescarpia echinospica has been remodeled to support symbiosis and includes mechanisms for nutrient transfer, immune response, and stress resistance. The study provides insights into the tubeworms' unique adaptations for survival in deep-sea environments and the formation of chitinous tubes.
MOLECULAR BIOLOGY AND EVOLUTION
(2021)
Article
Parasitology
Jack Pilgrim, Stefanos Siozios, Matthew Baylis, Gert Venter, Claire Garros, Gregory D. D. Hurst
Summary: The study reveals a linkage disequilibrium between the endosymbiont Cardinium and mitochondria in Culicoides imicola populations, indicating potential gene flow of the endosymbiont within the Mediterranean basin. Mitotype variations between Eastern and Western Mediterranean basins mirror Cardinium-infection heterogeneity, cautioning against the sole use of the COI marker for determining population structure and movement in C. imicola. Additional molecular markers are suggested for complementing the assessment of population structure and gene flow.
PARASITES & VECTORS
(2021)
Article
Fisheries
Hao Chen, Minxiao Wang, Huan Zhang, Hao Wang, Li Zhou, Zhaoshan Zhong, Lei Cao, Chao Lian, Yan Sun, Chaolun Li
Summary: The study found that multiple immune-related genes and miRNAs in Gigantidas platifrons were differentially expressed during bacterial challenges, suggesting that immune recognition, lysosome activity, and bacteria engulfment processes may be dynamically modulated by these gene and miRNA expressions.
FISH & SHELLFISH IMMUNOLOGY
(2021)
Article
Biology
Jack Pilgrim, Panupong Thongprem, Helen R. Davison, Stefanos Siozios, Matthew Baylis, Evgeny Zakharov, Sujeevan Ratnasingham, Jeremy R. DeWaard, Craig R. Macadam, M. Alex Smith, Gregory D. D. Hurst
Summary: This study discovered an unexpected presence of Rickettsia in the Barcode of Life Data System, with Torix group Rickettsia accounting for a majority of unintended amplifications. Further analysis supported the hypothesis of aquatic hot spots for Torix infection, with significant proportions of Torix symbioses found in arthropod genome projects. The study highlights the importance of understanding the host effects and transmission strategies of these newly discovered associations involving Torix Rickettsia.
Article
Chemistry, Analytical
Jong-Tar Kuo, Li-Li Chang, Chia-Yuan Yen, Teh-Hua Tsai, Yu-Chi Chang, Yu-Tang Huang, Ying-Chien Chung
Summary: In this study, a FISH method was developed for simultaneous detection of four types of coliform bacteria in water samples, showing the shortest detection time and highest accuracy compared to traditional detection methods.
Review
Immunology
Ana Barbosa, Sonia Miranda, Nuno F. Azevedo, Laura Cerqueira, Andreia S. Azevedo
Summary: Biofilms are complex structures with intricate relationships between microorganisms, matrix, and environment. There is growing interest in biofilms due to their presence in diverse fields. Molecular techniques have been used to study biofilms but disrupt the spatial structure. Fluorescence in situ hybridization (FISH) is a widely used method to analyze the spatial distribution, and different FISH variants have been explored. These variants, combined with confocal microscopy, provide a powerful approach to visualize, quantify, and locate biofilm components. Future research directions focus on developing robust and accurate FISH-based methods for deeper understanding of biofilm structure and function.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Hao Chen, Minxiao Wang, Mengna Li, Chao Lian, Li Zhou, Xin Zhang, Huan Zhang, Zhaoshan Zhong, Hao Wang, Lei Cao, Chaolun Li
Summary: This study investigated the potential influence of depressurization on Bathymodiolinae hosts and their methanotrophic symbionts, revealing massive DNA fragmentation in symbionts but certain tolerance in host cells. The study highlights the distinct stress responses of Bathymodiolinae holobionts against depressurization and emphasizes the necessity of using isobaric sampling methods in deep-sea research.
Article
Oceanography
Yu Mizuno, Jun Nishioka, Takahiro Tanaka, Yuya Tada, Koji Suzuki, Yuta Tsuzuki, Atsuko Sugimoto, Youhei Yamashita
JOURNAL OF OCEANOGRAPHY
(2018)
Article
Multidisciplinary Sciences
Shu-Kuan Wong, Minoru Ijichi, Ryo Kaneko, Kazuhiro Kogure, Koji Hamasaki
Article
Microbiology
Yuki Sato-Takabe, Koji Hamasaki, Satoru Suzuki
Article
Oceanography
Koji Hamasaki, Ryuki Shishikura, Shotaro Suzuki, Takuhei Shiozaki, Hiroshi Ogawa, Tomotaka Nakamura, Yuichi Suwa
DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY
(2018)
Article
Microbiology
Jaeho Song, Ilnam Kang, Yochan Joung, Susumu Yoshizawa, Ryo Kaneko, Kenshiro Oshima, Masahira Hattori, Koji Hamasaki, Kazuhiro Kogure, Soochan Kim, Kangseok Lee, Jang-Cheon Cho
JOURNAL OF MICROBIOLOGY
(2019)
Article
Oceanography
Fuminori Hashihama, Shuhei Suwa, Jota Kanda, Makoto Ehama, Ryousuke Sakuraba, Shinko Kinouchi, Mitsuhide Sato, Tamaha Yamaguchi, Hiroaki Saito, Yoshitoshi Ogura, Tetsuya Hayashi, Hiroshi Mori, Ken Kurokawa, Shotaro Suzuki, Koji Hamasaki
PROGRESS IN OCEANOGRAPHY
(2019)
Article
Microbiology
Minoru Ijichi, Hajime Itoh, Koji Hamasaki
ARCHIVES OF MICROBIOLOGY
(2019)
Article
Oceanography
Yuya Tada, Kohji Marumoto
JOURNAL OF OCEANOGRAPHY
(2020)
Article
Microbiology
Takuhei Shiozaki, Yuu Hirose, Koji Hamasaki, Ryo Kaneko, Kazuo Ishikawa, Naomi Harada
FRONTIERS IN MICROBIOLOGY
(2019)
Article
Oceanography
Takuhei Shiozaki, Yuya Tada, Hideki Fukuda, Ken Furuya, Toshi Nagata
DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS
(2020)
Article
Microbiology
Yingshun Cui, Shu-Kuan Wong, Ryo Kaneko, Ayako Mouri, Yuya Tada, Ippei Nagao, Seong-Jun Chun, Hyung-Gwan Lee, Chi-Yong Ahn, Hee-Mock Oh, Yuki Sato-Takabe, Koji Suzuki, Hideki Fukuda, Toshi Nagata, Kazuhiro Kogure, Koji Hamasaki
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Microbiology
Yuya Tada, Kohji Marumoto, Akinori Takeuchi
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Microbiology
Shuji Goto, Yuya Tada, Koji Suzuki, Youhei Yamashita
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Pharmacology & Pharmacy
Masaaki Nagano, Masatake Fujimura, Yuya Tada, Yoshiyuki Seko
Summary: The study found that intake of non-digestible saccharides can increase fecal excretion of methylmercury and reduce tissue levels of mercury.
BIOLOGICAL & PHARMACEUTICAL BULLETIN
(2021)
Article
Microbiology
Yuya Tada, Kohji Marumoto, Akinori Takeuchi
Summary: Studies have shown that microorganisms carrying hgcAB genes, particularly belonging to the Nitrospina lineage, are dominant in the MeHg-rich mesopelagic layers of two hydrologically distinct oceanic regions in the western North Pacific, indicating their crucial role in Hg methylation in seawater.
MICROBIOLOGY SPECTRUM
(2021)