keyword
https://read.qxmd.com/read/37992165/similar-but-different-characterization-of-dddd-gene-mediated-dmsp-metabolism-among-coral-associated-endozoicomonas
#1
JOURNAL ARTICLE
Yu-Jing Chiou, Ya-Fan Chan, Sheng-Ping Yu, Chih-Ying Lu, Silver Sung-Yun Hsiao, Pei-Wen Chiang, Ting-Chang Hsu, Po-Yu Liu, Naohisa Wada, Yu Lee, Wann-Neng Jane, Der-Chuen Lee, Yu-Wen Huang, Sen-Lin Tang
Endozoicomonas are often predominant bacteria and prominently important in coral health. Their role in dimethylsulfoniopropionate (DMSP) degradation has been a subject of discussion for over a decade. A previous study found that Endozoicomonas degraded DMSP through the dddD pathway. This process releases dimethyl sulfide, which is vital for corals coping with thermal stress. However, little is known about the related gene regulation and metabolic abilities of DMSP metabolism in Endozoicomonadaceae . In this study, we isolated a novel Endozoicomonas DMSP degrader and observed a distinct DMSP metabolic trend in two phylogenetically close dddD -harboring Endozoicomonas species, confirmed genetically by comparative transcriptomic profiling and visualization of the change of DMSP stable isotopes in bacterial cells using nanoscale secondary ion spectrometry...
November 24, 2023: Science Advances
https://read.qxmd.com/read/37948335/sar92-clade-bacteria-are-potentially-important-dmsp-degraders-and-sources-of-climate-active-gases-in-marine-environments
#2
JOURNAL ARTICLE
Xiao-Yan He, Ning-Hua Liu, Ji-Qing Liu, Ming Peng, Zhao-Jie Teng, Tie-Ji Gu, Xiu-Lan Chen, Yin Chen, Peng Wang, Chun-Yang Li, Jonathan D Todd, Yu-Zhong Zhang, Xi-Ying Zhang
Dimethylsulfoniopropionate (DMSP) is one of Earth's most abundant organosulfur molecules, which can be catabolized by marine bacteria to release climate-active gases through the cleavage and/or demethylation pathways. The marine SAR92 clade is an abundant oligotrophic group of Gammaproteobacteria in coastal seawater, but their ability to catabolize DMSP is untested. Three SAR92 clade strains isolated from coastal seawater in this study and the SAR92 representative strain HTCC2207 were all shown to catabolize DMSP as a carbon source...
November 10, 2023: MBio
https://read.qxmd.com/read/37700546/chiral-recognition-mechanism-studies-of-tyr-arg-phe-lys-nh-2-tetrapeptide-on-crown-ether-based-chiral-stationary-phase
#3
JOURNAL ARTICLE
Toms Upmanis, Eduards Sevostjanovs, Helena Kažoka
Even though chiral recognition for crown-ether CSPs is generally understood, on a molecular level, exact mechanisms for the resolution are still unclear. Furthermore, short peptide analytes often contain multiple amino moieties capable of binding to the crown ether selector. In order to extend the understanding in chiral recognition mechanisms, polar organic mode separation of Tyr-Arg-Phe-Lys-NH2 tetrapeptide llll/dddd enantiomers on S- and R-(3,3'-diphenyl-1,1'-binaphthyl)-20-crown-6 stationary phases was studied with 50-mM perchloric acid in methanol as mobile phase...
September 12, 2023: Chirality
https://read.qxmd.com/read/35883169/oceanospirillales-containing-the-dmsp-lyase-dddd-are-key-utilisers-of-carbon-from-dmsp-in-coastal-seawater
#4
JOURNAL ARTICLE
Jingli Liu, Chun-Xu Xue, Jinyan Wang, Andrew T Crombie, Ornella Carrión, Andrew W B Johnston, J Colin Murrell, Ji Liu, Yanfen Zheng, Xiao-Hua Zhang, Jonathan D Todd
BACKGROUND: Ubiquitous and diverse marine microorganisms utilise the abundant organosulfur molecule dimethylsulfoniopropionate (DMSP), the main precursor of the climate-active gas dimethylsulfide (DMS), as a source of carbon, sulfur and/or signalling molecules. However, it is currently difficult to discern which microbes actively catabolise DMSP in the environment, why they do so and the pathways used. RESULTS: Here, a novel DNA-stable isotope probing (SIP) approach, where only the propionate and not the DMS moiety of DMSP was 13 C-labelled, was strategically applied to identify key microorganisms actively using DMSP and also likely DMS as a carbon source, and their catabolic enzymes, in North Sea water...
July 27, 2022: Microbiome
https://read.qxmd.com/read/34654476/biogeographic-traits-of-dimethyl-sulfide-and-dimethylsulfoniopropionate-cycling-in-polar-oceans
#5
JOURNAL ARTICLE
Zhao-Jie Teng, Qi-Long Qin, Weipeng Zhang, Jian Li, Hui-Hui Fu, Peng Wang, Musheng Lan, Guangfu Luo, Jianfeng He, Andrew McMinn, Min Wang, Xiu-Lan Chen, Yu-Zhong Zhang, Yin Chen, Chun-Yang Li
BACKGROUND: Dimethyl sulfide (DMS) is the dominant volatile organic sulfur in global oceans. The predominant source of oceanic DMS is the cleavage of dimethylsulfoniopropionate (DMSP), which can be produced by marine bacteria and phytoplankton. Polar oceans, which represent about one fifth of Earth's surface, contribute significantly to the global oceanic DMS sea-air flux. However, a global overview of DMS and DMSP cycling in polar oceans is still lacking and the key genes and the microbial assemblages involved in DMSP/DMS transformation remain to be fully unveiled...
October 16, 2021: Microbiome
https://read.qxmd.com/read/34494431/glycopeptide-conjugated-aggregation-induced-emission-luminogen-a-ph-responsive-fluorescence-probe-with-tunable-self-assembly-morphologies-for-cell-imaging
#6
JOURNAL ARTICLE
Fangling Zhang, Yangqing He, Xin Jin, Song Xiang, Hai-Tao Feng, Li-Li Li
pH values play an important role in various cell biological processes. Abnormal pH values in living systems are frequently associated with the development of diseases such as cancers, infection, and other diseases. Real-time monitoring of the changes of pH values in vivo will give us the significant indication for these diseases' progression. Within those pH-sensitive imaging probes, aggregation-induced emission (AIE) molecules exhibit great potential in aqueous imaging environment due to their high fluorescence quantum yield and stability...
September 16, 2021: Journal of Physical Chemistry. B
https://read.qxmd.com/read/33184344/production-of-synthetic-wheat-lines-to-exploit-the-genetic-diversity-of-emmer-wheat-and-d-genome-containing-aegilops-species-in-wheat-breeding
#7
JOURNAL ARTICLE
Ghader Mirzaghaderi, Zinat Abdolmalaki, Rahman Ebrahimzadegan, Farshid Bahmani, Fatemeh Orooji, Mohammad Majdi, Ali-Akbar Mozafari
Due to the accumulation of various useful traits over evolutionary time, emmer wheat (Triticum turgidum subsp. dicoccum and dicoccoides, 2n = 4x = 28; AABB), durum wheat (T. turgidum subsp. durum, 2n = 4x = 28; AABB), T. timopheevii (2n = 4x = 28; AAGG) and D genome containing Aegilops species offer excellent sources of novel variation for the improvement of bread wheat (T. aestivum L., AABBDD). Here, we made 192 different cross combinations between diverse genotypes of wheat and Aegilops species including emmer wheat × Ae...
November 12, 2020: Scientific Reports
https://read.qxmd.com/read/32754122/distribution-of-dimethylsulfoniopropionate-degradation-genes-reflects-strong-water-current-dependencies-in-the-sanriku-coastal-region-in-japan-from-mesocosm-to-field-study
#8
JOURNAL ARTICLE
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
Dimethyl sulfide (DMS) is an important component of the global sulfur cycle as it is the most abundant sulfur compound that is emitted via the ocean surface to the atmosphere. Dimethylsulfoniopropionate (DMSP), the precursor of DMS, is mainly produced by phytoplankton and is degraded by marine bacteria. To reveal the role of bacteria in the regulation of DMSP degradation and DMS production, mesocosm and field studies were performed in the Sanriku Coast on the Pacific Ocean in northeast Japan. The responsible bacteria for the transformation of DMSP to DMS and the assimilation of DMSP were monitored, and the genes encoding DMSP lyase ( dddD and dddP ) and DMSP demethylase ( dmdA ) were analyzed...
2020: Frontiers in Microbiology
https://read.qxmd.com/read/32428730/ca-v-3-1-channel-pore-pseudo-symmetry-revealed-by-selectivity-filter-mutations-in-its-domains-i-ii
#9
JOURNAL ARTICLE
Edgar Garza-López, Andrés Aldana, Alberto Darszon, Takuya Nishigaki, Ignacio López-González
There is growing evidence indicating that the pore structure of voltage-gated ion channels (VGICs) influences gating besides their conductance. Regarding low voltage-activated (LVA) Ca2+ channels, it has been demonstrated that substitutions of the pore aspartate (D) by a glutamate (D-to-E substitution) in domains III and IV alter channel gating properties such as a positive shift in the channel activation voltage dependence. In the present report, we evaluated the effects of E-to-D substitution in domains I and II on the CaV 3...
July 2020: Cell Calcium
https://read.qxmd.com/read/32378236/identification-of-a-functional-dddd-rh-for-dimethyl-sulfide-production-in-the-antarctic-rhodococcus-sp-nj-530
#10
JOURNAL ARTICLE
Wenyu Wang, Changfeng Qu, Xixi Wang, Xuxu Gao, Honghai Zhang, Jinlai Miao
Dimethylsulfoniopropionate (DMSP) is widespread in the oceans, and its biological metabolite, dimethyl sulfide (DMS), plays an important role in the atmosphere. The Antarctic region has become a hotspot in DMS studies due to the high spatial and temporal variability in DMS(P) concentration, but the level of bacterial DMS production remains unclear. In this study, a bacterium isolated from Antarctic floating ice, Rhodococcus sp. NJ-530, was found to metabolize DMSP into DMS, and the rate of DMS production was measured as 3...
May 6, 2020: Journal of Basic Microbiology
https://read.qxmd.com/read/32055028/comparative-genomics-dominant-coral-bacterium-endozoicomonas-acroporae-metabolizes-dimethylsulfoniopropionate-dmsp
#11
JOURNAL ARTICLE
Kshitij Tandon, Chih-Ying Lu, Pei-Wen Chiang, Naohisa Wada, Shan-Hua Yang, Ya-Fan Chan, Ping-Yun Chen, Hsiao-Yu Chang, Yu-Jing Chiou, Ming-Shean Chou, Wen-Ming Chen, Sen-Lin Tang
Dominant coral-associated Endozoicomonas bacteria species are hypothesized to play a role in the coral sulfur cycle by metabolizing dimethylsulfoniopropionate (DMSP) into dimethylsulfide (DMS); however, no sequenced genome to date harbors genes for this process. In this study, we assembled high-quality (>95% complete) draft genomes of strains of the recently added species Endozoicomonas acroporae (Acr-14T , Acr-1, and Acr-5) isolated from the coral Acropora sp. and performed a comparative genomic analysis on the genus Endozoicomonas...
May 2020: ISME Journal
https://read.qxmd.com/read/31789022/aaaa-dddd-quadruple-h-bond-assisted-ionic-interactions-robust-bis-guanidinium-dicarboxylate-heteroduplexes-in-water
#12
JOURNAL ARTICLE
Yuren Sun, Jun Gu, Hongyu Wang, Jonathan L Sessler, Pall Thordarson, Yue-Jian Lin, Hegui Gong
The use of geminal di(guanidinium) and acridin-9(10H)-one-derived di(carboxylate) derivatives (1a-c and 2a-e, respectively) allows stabi-lization of heterodimers characterized by high binding affinities in water (maximum ΔG < -7 kcal mol-1 , Ka >105 M-1 ) as inferred from UV-Vis spectroscopic titrations and ITC measurements, therefore rivalling or surpassing the interaction energy between the strongest DNA or RNA triplet pairs. These duplexes are readily accessible and are structurally modifiable, rendering them attractive as building blocks for creating heteroduplex constructs...
November 30, 2019: Journal of the American Chemical Society
https://read.qxmd.com/read/31576282/complete-genome-sequence-of-rhodococcus-sp-nj-530-a-dmsp-degrading-actinobacterium-isolated-from-antarctic-sea-ice
#13
Changfeng Qu, Wenyu Wang, Jianjun Dong, Xixi Wang, Xuxu Gao, Honghai Zhang, Zhou Zheng, Hua Yin, Jinlai Miao
Dimethylsulfide (DMS), a climatically important gas generated by dimethylsulfoniopropionate (DMSP) degradation, plays an important role in the global sulfur cycle and affects the global climate. Marine bacteria are the primary mediators of DMSP degradation and DMS production. Here, we present the complete genome sequence of Rhodococcus sp. NJ-530, isolated from Antarctic sea ice, which utilizes DMSP as a sole carbon and energy source, degrading DMSP into DMS. The genome of strain NJ-530 consists of 7371 protein-coding sequences (CDSs) with 54 tRNA genes and 15 rRNA operons as 5S-16S-23S rRNA...
October 2019: 3 Biotech
https://read.qxmd.com/read/31459901/spontaneous-formation-of-nanoparticles-from-peptide-vinyl-polymer-diblock-hybrids-prepared-by-raft-polymerization-and-their-interactions-with-cells
#14
JOURNAL ARTICLE
Nobuyuki Higashi, Kiyoshiro Narimatsu, Minori Okumura, Shin-Nosuke Nishimura, Tomoyuki Koga
Novel polymeric nanoparticles (NPs) with uniform sizes were prepared from peptide-vinyl polymer diblock hybrids by the self-organized precipitation method. Hybrid polymers of polystyrene (PSt) and tetrapeptide (cell-binding epitope RGDS, reverse SDGR, cationic KKKK, and anionic DDDD) were successfully synthesized by combining solid-phase peptide synthesis and reversible addition fragmentation chain transfer polymerization methods. Narrowly dispersed hybrid polymers (polydispersity index < 1.25, M n 14 000-17 000) were obtained...
May 31, 2019: ACS Omega
https://read.qxmd.com/read/31134298/diversity-of-dimethylsulfoniopropionate-degradation-genes-reveals-the-significance-of-marine-roseobacter-clade-in-sulfur-metabolism-in-coastal-areas-of-antarctic-maxwell-bay
#15
JOURNAL ARTICLE
Yin-Xin Zeng, Zong-Yun Qiao
Dimethylsulfoniopropionate (DMSP) is an organic sulfur compound that occurs in large amounts in oceans around the world, and it plays an important role in the global sulfur cycle. DMSP released into seawater can be rapidly catabolized by bacteria via two pathways, namely, demethylation or cleavage pathway. Members of the Roseobacter clade frequently possess enzymes involved in the DMSP demethylation or cleavage pathway. We tried to measure the diversity of genes encoding DMSP demethylase (dmdA) and DMSP lyases (dddD, dddL, and dddP) in bacteria in the surface seawater of Ardley Cove and Great Wall Cove in Antarctic Maxwell Bay using DMSP degradation gene clone library analysis...
September 2019: Current Microbiology
https://read.qxmd.com/read/30564885/complete-genome-sequence-of-saccharospirillum-mangrovi-hk-33-t-sheds-light-on-the-ecological-role-of-a-bacterium-in-mangrove-sediment-environment
#16
JOURNAL ARTICLE
Weiyan Zhang, Xuezhen Zhou, Ye Yuan, Biyin Liu, Slava S Epstein, Shan He
We present the genome sequence of Saccharospirillum mangrovi HK-33T , isolated from a mangrove sediment sample in Haikou, China. The complete genome of S. mangrovi HK-33T consisted of a single-circular chromosome with the size of 3,686,911 bp as well as an average G + C content of 57.37%, and contained 3,383 protein-coding genes, 4 operons of 16S-23S-5S rRNA genes, and 52 tRNA genes. Genomic annotation indicated that the genome of S. mangrovi HK-33T had many genes related to oligosaccharide and polysaccharide degradation and utilization of polyhydroxyalkanoate...
December 18, 2018: Current Microbiology
https://read.qxmd.com/read/29065873/high-variability-of-tb-hiv-hepatitis-c-treatment-and-opioid-substitution-therapy-among-prisoners-in-germany
#17
JOURNAL ARTICLE
Jana Müller, Daniel Schmidt, Christian Kollan, Marc Lehmann, Viviane Bremer, Ruth Zimmermann
BACKGROUND: In Germany, medical care of prisoners is completely separated from extramural health care. The extent and quality of medical care among prisoners in Germany are therefore largely unknown. We performed a secondary data analysis of pharmacy sales data for tuberculosis (TB), HIV, hepatitis C (HCV) and opioid substitution treatment (OST) delivered to prisons in 11 federal states (FS) in Germany between 01/2012 and 03/2013. The aims of this study were to assess (i) the treatment availability for the selected diseases and OST in German prisons, (ii) the proportion of prisoners treated per FS and overall for TB, HIV, HCV and OST during the study period...
October 25, 2017: BMC Public Health
https://read.qxmd.com/read/28451167/homochiral-oligomers-with-highly-flexible-backbones-form-stable-h-bonded-duplexes
#18
JOURNAL ARTICLE
Diego Núñez-Villanueva, Christopher A Hunter
Two homochiral building blocks featuring a protected thiol, an alkene and a H-bond recognition unit (phenol or phosphine oxide) have been prepared. Iterative photochemical thiol-ene coupling reactions were used to synthesize oligomers containing 1-4 phosphine oxide and 1-4 phenol recognition sites. Length-complementary H-bond donor and H-bond acceptor oligomers were found to form stable duplexes in toluene. NMR titrations and thermal denaturation experiments show that the association constant and the enthalpy of duplex formation increase significantly for every additional H-bonding unit added to the chain...
January 1, 2017: Chemical Science
https://read.qxmd.com/read/27134080/cd-2-sensitivity-and-permeability-of-a-low-voltage-activated-ca-2-channel-with-catsper-like-selectivity-filter
#19
JOURNAL ARTICLE
Edgar Garza-López, Julio César Chávez, Carmen Santana-Calvo, Ignacio López-González, Takuya Nishigaki
CatSper is a sperm-specific Ca(2+) channel that plays an essential role in the male fertility. However, its biophysical properties have been poorly characterized mainly due to its deficient heterologous expression. As other voltage-gated Ca(2+) channels (CaVs), CatSper possesses a conserved Ca(2+)-selective filter motif ([T/S]x[D/E]xW) in the pore region. Interestingly, CatSper conserves four aspartic acids (DDDD) as the negatively charged residues in this motif while high voltage-activated CaVs have four glutamic acids (EEEE) and low voltage-activated CaVs possess two glutamic acids and two aspartic acids (EEDD)...
July 2016: Cell Calcium
https://read.qxmd.com/read/25656605/impact-of-phosphomimetic-and-non-phosphorylatable-mutations-of-phospholemman-on-l-type-calcium-channels-gating-in-hek-293t-cells
#20
JOURNAL ARTICLE
Kai Guo, Yue-Peng Wang, Zhi-Wen Zhou, Yi-Bo Jiang, Wei Li, Xiao-Meng Chen, Yi-Gang Li
BACKGROUND: Phospholemman (PLM) is an important phosphorylation substrate for protein kinases A and C in the heart. Until now, the association between PLM phosphorylation status and L-type calcium channels (LTCCs) gating has not been fully understood. We investigated the kinetics of LTCCs in HEK 293T cells expressing phosphomimetic or nonphosphorylatable PLM mutants. METHODS: The LTCCs gating was measured in HEK 293T cells transfected with LTCC and wild-type (WT) PLM, phosphomimetic or nonphosphorylatable PLM mutants: 6263AA, 6869AA, AAAA, 6263DD, 6869DD or DDDD...
March 2015: Journal of Cellular and Molecular Medicine
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