Article
Oceanography
Chenguang Feng, Ruoyu Liu, Wenjie Xu, Yang Zhou, Chenglong Zhu, Jun Liu, Baosheng Wu, Yongxin Li, Qiang Qiu, Shunping He, Wen Wang, Haibin Zhang, Kun Wang
Summary: The high-quality genome assembly of a new deep-sea anemone species living at a depth of 3230 m in the Xisha Trough revealed molecular signatures of adaptation to the deep-sea environment. The genomic analyses showed rapid evolution of genes and amino acid substitutions to cope with high hydrostatic pressure or low temperature, while demographic events of the deep-sea anemone coincided with post-Pliocene climate transformations, suggesting the impact of global climate changes on deep-sea creatures.
DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS
(2021)
Article
Engineering, Marine
Zhier Chen, Wenkang Jiao, Kai Ren, Jiancheng Yu, Yu Tian, Kuo Chen, Xingjian Zhang
Summary: This paper discusses the current status and future development directions of adaptability in marine robots. It provides an overview of how marine robots adapt to pressure and buoyancy at different depths, and analyzes the limitations and potential solutions of pressure and buoyancy adaptation technologies. Improvement measures for active buoyancy control are proposed, and promising areas for future development are identified. The challenges and prospects for adaptive technologies in marine robots are also outlined.
Article
Biochemistry & Molecular Biology
Jared Goldstone, David C. Lamb, Steven L. Kelly, Galina I. Lepesheva, John J. Stegeman
Summary: This study investigates the molecular adaptation of deep-sea proteins to high hydrostatic pressure using cytochrome P450 enzymes from Coryphaenoides armatus. The results reveal the ability of Coryphaenoides armatus CYP51 enzyme to bind and catalyze the metabolism of its substrate, as well as amino acid substitutions and novel internal cavities that may be related to deep-sea adaptation. This research contributes to our understanding of protein functional adaptation in extreme environments.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2023)
Article
Microbiology
Na Liu, Ting Jiang, Wen-Peng Cui, Xiao-Qing Qi, Xue-Gong Li, Yuan Lu, Long-Fei Wu, Wei-Jia Zhang
Summary: In this study, we investigated the molecular mechanism of high hydrostatic pressure (HHP)-responsive regulation of TMAO reductase TorA. We demonstrated that the induction of TMAO reductase by HHP is mediated through the TorRS system. Unlike known regulatory systems, the abundance of torR and torS was not affected by HHP.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biology
Jacob R. Winnikoff, Steven H. D. Haddock, Itay Budin
Summary: The study investigated the effects of temperature and pressure on lipid metabolism in marine organisms, specifically ctenophores. They found distinct biochemical adaptive responses to depth and cold, suggesting that polar marine invertebrates may not find refuge from climate change in the deep sea.
JOURNAL OF EXPERIMENTAL BIOLOGY
(2021)
Article
Microbiology
Romain Fenouil, Nathalie Pradel, Hassiba Belahbib, Marie Roumagnac, Manon Bartoli, Wajdi Ben Hania, Yann Denis, Marc Garel, Christian Tamburini, Bernard Ollivier, Zarath Summers, Fabrice Armougom, Alain Dolla
Summary: This study analyzed the genomic and transcriptomic changes of two hyperthermophilic bacteria, Pseudothermotoga elfii DSM9442 and P. elfii subsp. lettingae DSM14385, in response to pressure increases. The transcriptomic analyses revealed common traits of adaptation to increasing hydrostatic pressure, such as variations in transport membrane and carbohydrate metabolism, as well as species-specific adaptations in amino acid metabolism and transport. A key role of the amino acid aspartate in the pressure adaptation mechanisms of the deep strain P. elfii DSM9442 was highlighted. Additionally, a gene cluster involved in lipid metabolism that was specific to the deep strain and differentially expressed at high hydrostatic pressures was identified as a potential piezophilic gene marker in Pseudothermotogales.
Article
Microbiology
Sicong Li, Jiahua Wang, Jie Liu, Hongcai Zhang, Tianqiang Bao, Chengwen Sun, Jiasong Fang, Junwei Cao
Summary: In this study, a novel bacterium, Shewanella sp. MTB7, was isolated from the Mariana Trench at a depth of 5900 m. It has a large genome size with high coding density and exhibits versatile metabolic capabilities. MTB7 utilizes various carbon and nitrogen sources, and has adaptation strategies for survival in deep-sea environments, including anaerobic respiration and low-temperature adaptation.
Article
Zoology
Xiaojun Xie, Bo Lu, Jie Pang, Dongsheng Zhang
Summary: Five specimens of Ophiuroidea from deep-sea seamounts in the West Pacific were collected and identified as two species, Astrodia duospina sp. nov. and Astrodia abyssicola. The new species, Astrodia duospina sp. nov., can be distinguished from its congeners by specific characteristics. The study also revised the tabular key of Astrodia and analyzed the phylogenetic relationship between Astrodia and Asteronyx based on genetic sequences. These findings expand the geographical distribution of the genus Astrodia.
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
Zoology
Yuru Han, Yadong Zhou, Chong Chen, Yueyun Wang
Summary: This study examines the morphological and genetic characteristics of Lepidonotopodinae worms from Indian Ocean vents, revealing new species and providing insights into their phylogeny and biogeography. The findings suggest that Indian Ocean vents have experienced three separate historical invasions. The study contributes to our understanding of the biodiversity, distribution, and biogeography of Lepidonotopodinae in the Indian Ocean.
ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY
(2023)
Article
Materials Science, Multidisciplinary
Yushan Song, Rui Liu, Yu Cui, Fandi Meng, Li Liu, Fuhui Wang
Summary: The rust development on Ni-Cr-Mo-V high strength steel under hydrostatic pressure and tensile stress was investigated. The deposition influenced by hydrostatic pressure and tensile stress showed two periods: during the first stage of immersion, both hydrostatic pressure and tensile stress controlled the deposition of corrosion products, such as Cr3+; during the later stage of immersion, only hydrostatic pressure contributed to the growth of rust, leading to the formation of an inner rust layer with numerous cracks; thus, the rust layer formed under the simulated deep-sea environment offered worse protection, containing a significant amount of beta-FeOOH and Fe3O4.
Article
Biochemistry & Molecular Biology
Maeva Perez, Oluchi Aroh, Yanan Sun, Yi Lan, Stanley Kim Juniper, Curtis Robert Young, Bernard Angers, Pei-Yuan Qian
Summary: We conducted the first genome-wide survey of DNA methylation in polychaetes dominant in deep-sea vents and seeps, and found that these animals possess a mosaic methylome similar to other invertebrates. The transcriptomic data supported the hypotheses that gene body methylation strengthens gene expression and promoter methylation acts as a silencing mechanism, but not the hypothesis that DNA methylation suppresses transposable element activity. The conserved epigenetic profiles of genes responsible for maintaining homeostasis under extreme hydrostatic pressure suggest an important adaptive role of DNA methylation in these worms.
MOLECULAR BIOLOGY AND EVOLUTION
(2023)
Article
Materials Science, Multidisciplinary
Rui Liu, Yushan Song, Yu Cui, Fandi Meng, Li Liu, Fuhui Wang
Summary: Early corrosion of Ni-Cr-Mo-V high strength steel under hydrostatic pressure and tensile stress was investigated. The results show that plastic deformation has a double effect: increasing anodic current and damaging the corrosion film. This synergism between plastic deformation and hydrostatic pressure further promotes the corrosion of Ni-Cr-Mo-V alloy.
Article
Chemistry, Physical
Siyu Wang, Shichuan Xi, Ruhao Pan, Yang Yang, Zhendong Luan, Jun Yan, Xin Zhang
Summary: The surface morphology of metal particles can be adjusted by the annealing process to enhance Raman activity. A SERS substrate with silver nanospheres coated with a silver nanoisland structure was prepared in this study. The substrate showed high enhancement for Rh B and sensitivity to PETA.
SURFACES AND INTERFACES
(2022)
Article
Zoology
Chong Chen, Yadong Zhou, Hiromi Kayama Watanabe, Ruiyan Zhang, Chunsheng Wang
Summary: Neolepetopsidae is a small and understudied family of true limpets restricted to deep-sea chemosynthesis-based ecosystems, with newly discovered species from Indian Ocean vents. The molecular phylogeny confirms genetic distinctiveness among the three genera, while the discovery of new species sheds new light on this enigmatic family and underscores the importance of surveying the vent periphery.
ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY
(2022)
Article
Biophysics
Sunilkumar Puthenpurackal Narayanan, Akihiro Maeno, Yuji Wada, Shin-ichi Tate, Kazuyuki Akasaka
BIOMOLECULAR NMR ASSIGNMENTS
(2016)
Meeting Abstract
Biophysics
Shin-ichi Tate
BIOPHYSICAL JOURNAL
(2016)
Article
Biochemistry & Molecular Biology
Jing Wang, Ryosuke Kawasaki, Jun-ichi Uewaki, Arif U. R. Rashid, Naoya Tochio, Shin-ichi Tate
Article
Electrochemistry
Mikako Saito, Shoya Hiratoko, Ikuko Fukuba, Shin-ichi Tate, Hideaki Matsuoka
Article
Biochemistry & Molecular Biology
Kohei Umehara, Miho Hoshikawa, Naoya Tochio, Shin-ichi Tate
Article
Biochemistry & Molecular Biology
Teikichi Ikura, Naoya Tochio, Ryosuke Kawasaki, Mizuki Matsuzaki, Akihiro Narita, Mahito Kikumoto, Naoko Utsunomiya-Tate, Shin-ichi Tate, Nobutoshi Ito
Article
Multidisciplinary Sciences
Naoya Tochio, Kohei Umehara, Jun-ichi Uewaki, Holger Flechsig, Masaharu Kondo, Takehisa Dewa, Tetsushi Sakuma, Takashi Yamamoto, Takashi Saitoh, Yuichi Togashi, Shin-ichi Tate
SCIENTIFIC REPORTS
(2016)
Article
Biophysics
Alexandra Born, Parker J. Nichols, Morkos A. Henen, Celestine N. Chi, Dean Strotz, Peter Bayer, Shin-Ichi Tate, Jeffrey W. Peng, Beat Vogeli
BIOMOLECULAR NMR ASSIGNMENTS
(2019)
Article
Biochemistry & Molecular Biology
Hiroaki Ito, Takeshi Sugawara, Soya Shinkai, Satoshi Mizukawa, Ayaka Kondo, Hisamichi Senda, Kengo Sawai, Koki Ito, Sayaka Suzuki, Masakatsu Takaine, Satoshi Yoshida, Hiromi Imamura, Kenji Kitamura, Toshinori Namba, Shin-ichi Tate, Masaru Ueno
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2019)
Meeting Abstract
Biophysics
Shin-ichi Tate
BIOPHYSICAL JOURNAL
(2019)
Article
Pharmacology & Pharmacy
Tetsuya Ohta, Risato Yamada, Satoshi Fujita, Taketoshi Takahata, Kohei Shiba, Sachiko Machida, Shin-ichi Tate
JOURNAL OF DRUG DELIVERY SCIENCE AND TECHNOLOGY
(2019)
Article
Biochemistry & Molecular Biology
Ryosuke Kawasaki, Shin-ichi Tate
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2020)
Article
Biochemistry & Molecular Biology
Kyota Yasuda, Tomonobu M. Watanabe, Myeong-Gyun Kang, Jeong Kon Seo, Hyun-Woo Rhee, Shin-ichi Tate
Summary: The presence of valosin-containing protein (VCP) in FUS granules plays a role in regulating their stability, with VCP consuming ATP to reduce ATP concentrations in the granules. Initial colocalization of VCP stabilizes the granules, while prolonged colocalization destabilizes the granules.
Meeting Abstract
Biophysics
S-I. Tate
EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS
(2017)
Meeting Abstract
Biophysics
Hiroshi Fujisaki, Yasushige Yonezawa, Motoyuki Shiga, Luca Maragliano, Shin-ichi Tate
BIOPHYSICAL JOURNAL
(2017)