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Jiang XL, Yan X, Su HN, Liu YH, Han RX, Song ZY, Sun XW, Su DH, Yang X. [Analysis of management efficacy in patients with heavy menstrual bleeding associated with antithrombotic therapy]. Zhonghua Fu Chan Ke Za Zhi 2023; 58:286-292. [PMID: 37072297 DOI: 10.3760/cma.j.cn112141-20221130-00725] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Subscribe] [Scholar Register] [Indexed: 04/20/2023]
Abstract
Objective: To evaluate different methods' efficacy of controlling acute bleeding and managing long-term menstruation in patients with heavy menstrual bleeding (HMB) associated with antithrombotic therapy. Methods: The clinical data of 22 cases with HMB associated with antithrombotic therapy admitted to Peking University People's Hospital from January 2010 to August 2022 were analyzed, aged 39 years old (26-46 years). Changes in menstrual volume, hemoglobin (Hb), and quality of life were collected after control of acute bleeding and long-term menstrual management. Menstrual volume was assessed by pictorial blood assessment chart (PBAC), and quality of life was assessed by menorrhagia multi-attribute scale (MMAS). Results: (1) Treatment of acute bleeding: of the 22 cases with HMB associated with antithrombotic therapy, 16 cases were treated in our hospital and 6 in other hospital for emergency bleeding; of the 16 cases treated in our hospital, 3 underwent emergency intrauterine Foley catheter balloon compression due to severe bleeding (Hb decreased by 20 to 40 g/L within 12 hours). Of the 22 cases with antithrombotic therapy-related HMB, 15 (including 2 cases with severe bleeding) underwent emergency aspiration or endometrial resection, and intraoperative placement of levonorgestrel-releasing intrauterine system (LNG-IUS) followed by a significant reduction in bleeding volume; 3 cases had controlled acute bleeding after rivaroxaban dose reduction and continued observation; 2 cases were given gonadotropin-releasing hormone agonists to control acute bleeding in other hospital, of which 1 case was temporarily treated with periodic blood transfusion, and the other one patient underwent total hysterectomy; and 2 cases had temporary amenorrhea with oral mifepristone after intrauterine balloon compression or oral norethindrone. (2) Long-term menstrual management: of the 22 cases with antithrombotic therapy-related HMB, 15 had LNG-IUS placement and 12 had LNG-IUS placement for 6 months, and menstrual volume was significantly reduced [PBAC scores were 365.0 (272.5-460.0) vs 25.0 (12.5-37.5), respectively; Z=4.593, P<0.001], Hb was significantly increased [91.5 g/L (71.8-108.2 g/L) vs 128.5 g/L (121.2-142.5 g/L); Z=4.695, P<0.001], and quality of life was significantly improved [MMAS scores were 415.0 (327.5-472.5) vs 580.0 (570.0-580.0), respectively; Z=-3.062, P=0.002] before placement compared with 6 months after placement. Three rivaroxaban dose reduction patients' PBAC scores decreased by 20 to 35 but remained >100, and perceived quality of life did not change significantly. Two cases with temporary amenorrhea treated with oral mifepristone felt significantly improved quality of life, and the MMAS scores increased by 220 and 180, respectively. Conclusion: Intrauterine Foley catheter balloon compression, aspiration or endometrial ablation could be used to control acute bleeding in patients with antithrombotic therapy-related HMB, and LNG-IUS for long-term management could reduce menstrual volume, increase hemoglobin, and improve the quality of life of patients.
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Affiliation(s)
- X L Jiang
- Department of Obstetrics and Gynecology, Peking University People's Hospital, Beijing 100044, China
| | - X Yan
- Department of Obstetrics and Gynecology, Taiyuan Eighth People's Hospital, Taiyuan 030012, China
| | - H N Su
- Department of Obstetrics and Gynecology, Peking University People's Hospital, Beijing 100044, China
| | - Y H Liu
- Department of Obstetrics and Gynecology, Peking University People's Hospital, Beijing 100044, China
| | - R X Han
- Department of Obstetrics and Gynecology, Peking University People's Hospital, Beijing 100044, China
| | - Z Y Song
- Department of Obstetrics and Gynecology, Peking University People's Hospital, Beijing 100044, China
| | - X W Sun
- Department of Obstetrics and Gynecology, Peking University People's Hospital, Beijing 100044, China
| | - D H Su
- Department of Obstetrics and Gynecology, Peking University People's Hospital, Beijing 100044, China
| | - X Yang
- Department of Obstetrics and Gynecology, Peking University People's Hospital, Beijing 100044, China
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Zhao LS, Wang P, Li K, Zhang QB, He FY, Li CY, Su HN, Chen XL, Liu LN, Zhang YZ. Structural basis and evolution of the photosystem I-light-harvesting supercomplex of cryptophyte algae. Plant Cell 2023:koad087. [PMID: 36943796 DOI: 10.1093/plcell/koad087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2022] [Revised: 02/27/2023] [Accepted: 02/27/2023] [Indexed: 06/18/2023]
Abstract
Cryptophyte plastids originated from a red algal ancestor through secondary endosymbiosis. Cryptophyte photosystem I (PSI) associates with transmembrane alloxanthin-chlorophyll a/c proteins (ACPIs) as light-harvesting complexes (LHCs). Here we report the structure of the photosynthetic PSI-ACPI supercomplex from the cryptophyte Chroomonas placoidea at 2.7-Å resolution obtained by cryo-electron microscopy. Cryptophyte PSI-ACPI represents a unique PSI-LHCI intermediate in the evolution from red algal to diatom PSI-LHCI. The PSI-ACPI supercomplex is composed of a monomeric PSI core containing 14 subunits, 12 of which originated in red algae, one diatom PsaR homolog, and an additional peptide. The PSI core is surrounded by 14 ACPI subunits that form two antenna layers: an inner layer with 11 ACPIs surrounding the PSI core, and an outer layer containing 3 ACPIs. A pigment-binding subunit that is not present in any other previously characterized PSI-LHCI complexes, ACPI-S, mediates the association and energy transfer between the outer and inner ACPIs. The extensive pigment network of PSI-ACPI ensures efficient light harvesting, energy transfer, and dissipation. Overall, the PSI-LHCI structure identified in this study provides a framework for delineating the mechanisms of energy transfer in cryptophyte PSI-LHCI and for understanding the evolution of photosynthesis in the red lineage, which occurred via secondary endosymbiosis.
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Affiliation(s)
- Long-Sheng Zhao
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- College of Marine Life Sciences & Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
| | - Peng Wang
- College of Marine Life Sciences & Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
| | - Kang Li
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
| | - Quan-Bao Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Fei-Yu He
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Chun-Yang Li
- College of Marine Life Sciences & Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
| | - Lu-Ning Liu
- College of Marine Life Sciences & Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
- Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool L69 7ZB, United Kingdom
| | - Yu-Zhong Zhang
- College of Marine Life Sciences & Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
- Marine Biotechnology Research Center, State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
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Sheng Q, Zhang MY, Liu SM, Chen ZW, Yang PL, Zhang HS, Liu MY, Li K, Zhao LS, Liu NH, Liu LN, Chen XL, Hobbs JK, Foster SJ, Zhang YZ, Su HN. In situ visualization of Braun's lipoprotein on E. coli sacculi. Sci Adv 2023; 9:eadd8659. [PMID: 36662863 PMCID: PMC9858504 DOI: 10.1126/sciadv.add8659] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/09/2022] [Accepted: 12/20/2022] [Indexed: 06/17/2023]
Abstract
Braun's lipoprotein (Lpp) plays a major role in stabilizing the integrity of the cell envelope in Escherichia coli, as it provides a covalent cross-link between the outer membrane and the peptidoglycan layer. An important challenge in elucidating the physiological role of Lpp lies in attaining a detailed understanding of its distribution on the peptidoglycan layer. Here, using atomic force microscopy, we visualized Lpp directly on peptidoglycan sacculi. Lpp is homogeneously distributed over the outer surface of the sacculus at a high density. However, it is absent at the constriction site during cell division, revealing its role in the cell division process with Pal, another cell envelope-associated protein. Collectively, we have established a framework to elucidate the distribution of Lpp and other peptidoglycan-bound proteins via a direct imaging modality.
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Affiliation(s)
- Qi Sheng
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
- College of Marine Life Sciences and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao 266003, China
| | - Meng-Yao Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Si-Min Liu
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Zhuo-Wei Chen
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Pei-Ling Yang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Hong-Su Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Meng-Yun Liu
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Kang Li
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Long-Sheng Zhao
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Ning-Hua Liu
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Lu-Ning Liu
- College of Marine Life Sciences and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao 266003, China
- Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool, UK
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Jamie K. Hobbs
- The Florey Institute for Host-Pathogen Interactions, University of Sheffield, Sheffield, UK
- Department of Physics and Astronomy, University of Sheffield, Sheffield, UK
| | - Simon J. Foster
- The Florey Institute for Host-Pathogen Interactions, University of Sheffield, Sheffield, UK
- School of Biosciences, University of Sheffield, Sheffield, UK
| | - Yu-Zhong Zhang
- College of Marine Life Sciences and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao 266003, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
- Marine Biotechnology Research Center, State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao 266237, China
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Zhang YQ, Zhang S, Sun ML, Su HN, Li HY, Kun-Liu, Zhang YZ, Chen XL, Cao HY, Song XY. Antibacterial activity of peptaibols from Trichoderma longibrachiatum SMF2 against gram-negative Xanthomonas oryzae pv. oryzae, the causal agent of bacterial leaf blight on rice. Front Microbiol 2022; 13:1034779. [PMID: 36304956 PMCID: PMC9595671 DOI: 10.3389/fmicb.2022.1034779] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Accepted: 09/23/2022] [Indexed: 11/19/2022] Open
Abstract
Bacterial leaf blight caused by Gram-negative pathogen Xanthomonas oryzae pv. oryzae (Xoo) is one of the most destructive bacterial diseases on rice. Due to the resistance, toxicity and environmental issues of chemical bactericides, new biological strategies are still in need. Although peptaibols produced by Trichoderma spp. can inhibit the growth of several Gram-positive bacteria and plant fungal pathogens, it still remains unclear whether peptaibols have anti-Xoo activity to control bacterial leaf blight on rice. In this study, we evaluated the antibacterial effects of Trichokonins A (TKA), peptaibols produced by Trichoderma longibrachiatum SMF2, against Xoo. The in vitro antibacterial activity analysis showed that the growth of Xoo was significantly inhibited by TKA, with a minimum inhibitory concentration of 54 μg/mL and that the three TKs in TKA all had remarkable anti-Xoo activity. Further inhibitory mechanism analyses revealed that TKA treatments resulted in the damage of Xoo cell morphology and the release of intracellular substances, such as proteins and nucleic acids, from Xoo cells, suggesting the damage of the permeability of Xoo cell membrane by TKA. Pathogenicity analyses showed that the lesion length on rice leaf was significantly reduced by 82.2% when treated with 27 μg/mL TKA. This study represents the first report of the antibacterial activity of peptaibols against a Gram-negative bacterium. Thus, TKA can be of a promising agent in controlling bacterial leaf blight on rice.
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Zhang N, Li K, Xie BB, Chen XL, Zhou BC, Su HN, Zhang YZ. Correction to: Fluorescence recovery after photobleaching: analyses of cyanobacterial phycobilisomes reveal intrinsic fluorescence recovery. Mar Life Sci Technol 2021; 3:552. [PMID: 37075163 PMCID: PMC10077232 DOI: 10.1007/s42995-021-00111-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
[This corrects the article DOI: 10.1007/s42995-021-00104-z.].
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Affiliation(s)
- Nan Zhang
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
- College of Bioengineering, Qilu University of Technology (Shandong Academy of Sciences), Jinan, 250353 China
| | - Kang Li
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237 China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
| | - Bai-Cheng Zhou
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
- College of Marine Life Sciences, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003 China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237 China
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Zhang N, Li K, Xie BB, Chen XL, Zhou BC, Su HN, Zhang YZ. Fluorescence recovery after photobleaching: analyses of cyanobacterial phycobilisomes reveal intrinsic fluorescence recovery. Mar Life Sci Technol 2021; 3:427-433. [PMID: 37073268 PMCID: PMC10077209 DOI: 10.1007/s42995-021-00104-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2020] [Accepted: 04/08/2021] [Indexed: 05/03/2023]
Abstract
Fluorescence recovery after photobleaching (FRAP) has been used to study the dynamics of the cyanobacterial photosynthesis apparatus since 1997. Fluorescence recovery of cyanobacteria during FRAP was conventionally interpreted as a result of phycobilisome (PBS) diffusion on the surface of the thylakoid membrane. The mechanism of state transition in cyanobacteria has been widely attributed to PBS diffusion. However, in red algae, another PBS-containing group, the intrinsic photoprocess was found to contribute greatly to the fluorescence recovery of PBS, which raises questions concerning the role of FRAP in red algal PBS. Therefore, it is important to re-evaluate the nature of PBS fluorescence recovery in cyanobacteria. In the present study, four cyanobacterial strains with different phenotypes and PBS compositions were used to investigate their FRAP characteristics. Fluorescence recovery of PBS was observed in wholly photobleached cells in all four cyanobacterial strains, in which the contribution of PBS diffusion to the fluorescence recovery was not possible. Moreover, the fluorescence recovered in isolated PBSs and PBS-thylakoid membranes after photobleaching further demonstrated the intrinsic photoprocess nature of fluorescence recovery. These findings suggest that the intrinsic photoprocess contributed to the fluorescence recovery following photobleaching when measured by the FRAP method.
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Affiliation(s)
- Nan Zhang
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
- College of Bioengineering, Qilu University of Technology (Shandong Academy of Sciences), Jinan, 250353 China
| | - Kang Li
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237 China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
| | - Bai-Cheng Zhou
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237 China
- College of Marine Life Sciences, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003 China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237 China
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Li K, Zhang PP, Chen XL, Zhang YZ, Su HN. Internal pressure-induced formation of hemispherical poles in Bacillus subtilis. Antonie Van Leeuwenhoek 2021; 114:1205-1212. [PMID: 33973093 DOI: 10.1007/s10482-021-01590-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2020] [Accepted: 04/30/2021] [Indexed: 11/29/2022]
Abstract
The cell of a rod-shaped bacterium is composed of a cylinder and two hemispherical poles. In recent decades, the molecular mechanism of morphogenesis in rod-shaped bacteria has received extensive research. However, most works have focused on the morphogenesis of cylinders, and the morphogenesis of the hemispherical poles remains unclear. In the past, the pole of bacterial cell wall was considered as a rigid hemispherical structure. However, our work indicated that the pole in the isolated sacculi from Bacillus subtilis was a flat structure instead of a hemisphere form. Further works showed that internal pressure was responsible for shaping the hemispherical poles, indicating an elastic nature of the cell wall in poles. In addition, we found that the internal pressure was able to transform septa into hemispherical shape which is similar to normal poles. Based on our work, we proposed a model for the internal pressure-induced formation of hemispherical poles in B. subtilis, and this work may provide new clues into basic knowledge of the morphogenesis of rod-shaped bacteria.
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Affiliation(s)
- Kang Li
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China
| | - Pan-Pan Zhang
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China.,College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, and Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China.
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Qin QL, Wang ZB, Su HN, Chen XL, Miao J, Wang XJ, Li CY, Zhang XY, Li PY, Wang M, Fang J, Lidbury I, Zhang W, Zhang XH, Yang GP, Chen Y, Zhang YZ. Oxidation of trimethylamine to trimethylamine N-oxide facilitates high hydrostatic pressure tolerance in a generalist bacterial lineage. Sci Adv 2021; 7:7/13/eabf9941. [PMID: 33771875 PMCID: PMC7997507 DOI: 10.1126/sciadv.abf9941] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2020] [Accepted: 02/05/2021] [Indexed: 06/01/2023]
Abstract
High hydrostatic pressure (HHP) is a characteristic environmental factor of the deep ocean. However, it remains unclear how piezotolerant bacteria adapt to HHP. Here, we identify a two-step metabolic pathway to cope with HHP stress in a piezotolerant bacterium. Myroides profundi D25T, obtained from a deep-sea sediment, can take up trimethylamine (TMA) through a previously unidentified TMA transporter, TmaT, and oxidize intracellular TMA into trimethylamine N-oxide (TMAO) by a TMA monooxygenase, MpTmm. The produced TMAO is accumulated in the cell, functioning as a piezolyte, improving both growth and survival at HHP. The function of the TmaT-MpTmm pathway was further confirmed by introducing it into Escherichia coli and Bacillus subtilis Encoded TmaT-like and MpTmm-like sequences extensively exist in marine metagenomes, and other marine Bacteroidetes bacteria containing genes encoding TmaT-like and MpTmm-like proteins also have improved HHP tolerance in the presence of TMA, implying the universality of this HHP tolerance strategy in marine Bacteroidetes.
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Affiliation(s)
- Qi-Long Qin
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
| | - Zhi-Bin Wang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- School of Environmental Science and Engineering, Shandong University, Qingdao, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Jie Miao
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Xiu-Juan Wang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Chun-Yang Li
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Ping-Yi Li
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
| | - Min Wang
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
| | - Jiasong Fang
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai, China
| | - Ian Lidbury
- School of Life Sciences, University of Warwick, Coventry CV4 7AL, UK
| | - Weipeng Zhang
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
| | - Xiao-Hua Zhang
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
| | - Gui-Peng Yang
- Frontiers Science Center for Deep Ocean Multispheres and Earth System, Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, China
| | - Yin Chen
- School of Life Sciences, University of Warwick, Coventry CV4 7AL, UK
| | - Yu-Zhong Zhang
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China.
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- Marine Biotechnology Research Center, State Key Laboratory of Microbial Technology, Shandong University, Qingdao, China
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Su HN, Zhang YZ. Lifestyle of bacteria in deep sea. Environ Microbiol Rep 2021; 13:15-17. [PMID: 33006410 DOI: 10.1111/1758-2229.12891] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Accepted: 09/30/2020] [Indexed: 06/11/2023]
Affiliation(s)
- Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
- College of Marine Life Sciences and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003, China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, 266237, China
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10
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Ren XB, Cha QQ, Guo XH, He XY, Su HN, Qin QL, Song XY, Chen XL, Zhang YZ, Xu F, Zhang XY. Pelagovum pacificum gen. nov., sp. nov., a novel member of the family Rhodobacteraceae isolated from surface seawater of the Mariana Trench. Int J Syst Evol Microbiol 2020; 70:6155-6162. [PMID: 33052807 DOI: 10.1099/ijsem.0.004512] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, aerobic, ovoid-rod-shaped bacterium, designated strain SM1903T, was isolated from surface seawater of the Mariana Trench. The strain grew at 15-37 °C (optimum, 35 °C) and with 1-15 % (optimum, 4 %) NaCl. It hydrolysed aesculin but did not reduce nitrate to nitrite and hydrolyse Tween 80. Phylogenetic analysis based on the 16S rRNA gene sequences revealed that strain SM1903T formed a separate lineage within the family Rhodobacteraceae, sharing the highest 16S rRNA gene sequence similarity with type strains of Pseudooceanicola antarcticus (95.7 %) and Roseisalinus antarcticus (95.7 %). In phylogenetic trees based on single-copy OCs and whole proteins sequences, strain SM1903T fell within a sub-cluster encompassed by Oceanicola granulosus, Roseisalinus antarcticus and Histidinibacterium lentulum and formed a branch adjacent to Oceanicola granulosus. The major cellular fatty acids were summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c), C16 : 0 and 11-methyl-C18 : 1 ω7c. The polar lipids mainly comprised phosphatidylglycerol, phosphatidylcholine, one unidentified lipid, one unidentified aminolipid, and one unidentified glycolipid. The solo respiratory quinone was ubiquinone-10. The genomic DNA G+C content of strain SM1903T was 66.0 mol%. Based on the results of phenotypic, chemotaxonomic, and phylogenetic characterization for strain SM1903T, it is considered to represent a novel species of a novel genus in the family Rhodobacteraceae, for which the name Pelagovum pacificum gen. nov., sp. nov. is proposed. The type strain is SM1903T (=MCCC 1K03608T=KCTC 72046T).
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Affiliation(s)
- Xue-Bing Ren
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Qian-Qian Cha
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xiao-Han Guo
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xiao-Yan He
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Qi-Long Qin
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xiu-Lan Chen
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Yu-Zhong Zhang
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao 266003, PR China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Fei Xu
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xi-Ying Zhang
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
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11
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Li Y, Sun XM, Li J, Song XY, Qin QL, Su HN, Chen XL, Zhang YZ, Fan SJ, Zhang XY. Marinomonas profundi sp. nov., isolated from deep seawater of the Mariana Trench. Int J Syst Evol Microbiol 2020; 70:5747-5752. [PMID: 32945763 DOI: 10.1099/ijsem.0.004472] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, aerobic, polarly flagellated, straight or curved rod-shaped bacterium, designated strain M1K-6T, was isolated from deep seawater samples collected from the Mariana Trench. The strain grew at -4 to 37 °C (optimum, 25-30 °C), at pH 5.5-10.0 (optimum, pH 7.0) and with 0.5-14.0 % (w/v) NaCl (optimum, 2.0 %). It did not reduce nitrate to nitrite nor hydrolyse gelatin or starch. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain M1K-6T was affiliated with the genus Marinomonas, sharing 93.1-97.0 % sequence similarity with the type strains of recognized Marinomonas species. The major cellular fatty acids were summed feature 3 (C16 : 1 ω6c/C16 : 1 ω7c), summed feature 8 (C18 : 1 ω7c/C18 : 1 ω6c), C16 : 0, C10 : 0 3-OH and C18 : 0. The predominant respiratory quinone was ubiquinone-8. Polar lipids of strain M1K-6T included phosphatidylethanolamine, phosphatidylglycerol and two unidentified lipids. The genomic G+C content of strain M1K-6T was 46.0 mol%. Based on data from the present polyphasic study, strain M1K-6T was considered to represent a novel species within the genus Marinomonas, for which the name Marinomonas profundi sp. nov. is proposed. The type strain is M1K-6T (=KCTC 72501T=MCCC 1K03890T).
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Affiliation(s)
- Yi Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,College of Life Sciences, Shanxi Agricultural University, Taigu 030801, PR China
| | - Xiao-Meng Sun
- College of Life Science, Shandong Normal University, Jinan 250014, PR China.,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Jian Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Qi-Long Qin
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Xiu-Lan Chen
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Yu-Zhong Zhang
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao 266003, PR China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Shou-Jin Fan
- College of Life Science, Shandong Normal University, Jinan 250014, PR China
| | - Xi-Ying Zhang
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
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12
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Su HN, Li K, Zhao LS, Yuan XX, Zhang MY, Liu SM, Chen XL, Liu LN, Zhang YZ. Structural Visualization of Septum Formation in Staphylococcus warneri Using Atomic Force Microscopy. J Bacteriol 2020; 202:e00294-20. [PMID: 32900866 PMCID: PMC7484183 DOI: 10.1128/jb.00294-20] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2020] [Accepted: 07/17/2020] [Indexed: 12/16/2022] Open
Abstract
Cell division of Staphylococcus adopts a "popping" mechanism that mediates extremely rapid separation of the septum. Elucidating the structure of the septum is crucial for understanding this exceptional bacterial cell division mechanism. Here, the septum structure of Staphylococcus warneri was extensively characterized using high-speed time-lapse confocal microscopy, atomic force microscopy, and electron microscopy. The cells of S. warneri divide in a fast popping manner on a millisecond timescale. Our results show that the septum is composed of two separable layers, providing a structural basis for the ultrafast daughter cell separation. The septum is formed progressively toward the center with nonuniform thickness of the septal disk in radial directions. The peptidoglycan on the inner surface of double-layered septa is organized into concentric rings, which are generated along with septum formation. Moreover, this study signifies the importance of new septum formation in initiating new cell cycles. This work unravels the structural basis underlying the popping mechanism that drives S. warneri cell division and reveals a generic structure of the bacterial cell.IMPORTANCE This work shows that the septum of Staphylococcus warneri is composed of two layers and that the peptidoglycan on the inner surface of the double-layered septum is organized into concentric rings. Moreover, new cell cycles of S. warneri can be initiated before the previous cell cycle is complete. This work advances our knowledge about a basic structure of bacterial cell and provides information on the double-layered structure of the septum for bacteria that divide with the "popping" mechanism.
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Affiliation(s)
- Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Kang Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Long-Sheng Zhao
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Xiao-Xue Yuan
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Meng-Yao Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Si-Min Liu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Lu-Ning Liu
- College of Marine Life Sciences and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
- Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool, United Kingdom
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
- College of Marine Life Sciences and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
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13
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Wang Y, Liu BX, Cheng JH, Su HN, Sun HM, Li CY, Yang L, Shen QT, Zhang YZ, Zhang X, Chen XL. Characterization of a New M4 Metalloprotease With Collagen-Swelling Ability From Marine Vibrio pomeroyi Strain 12613. Front Microbiol 2020; 11:1868. [PMID: 32849455 PMCID: PMC7426729 DOI: 10.3389/fmicb.2020.01868] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Accepted: 07/16/2020] [Indexed: 01/22/2023] Open
Abstract
The ocean harbors a variety of bacteria that contain huge protease resources and offer a great potential for industrial and biotechnological applications. Here, we isolated a protease-secreting bacterium Vibrio pomeroyi strain 12613 from Atlantic seawater and purified a protease VP9 from strain 12613. VP9 was identified as a metalloprotease of the M4 family. VP9 could hydrolyze casein and gelatin but not elastin and collagen. With gelatin as the substrate, VP9 showed the highest activity at 40°C and pH 6.0–8.0. It was stable at temperatures of 50°C and less and in the range of pH 5.0–11.0. VP9 also had good tolerance to NaCl, non-ionic detergents, and organic solvent methanol. Unlike other M4 metalloproteases, VP9 has distinct collagen-swelling ability, and its collagen-swelling effect was concentration dependent. The relative expansion volume of collagen increased by approximately eightfold after treatment with 10 μM VP9 at 37°C for 12 h. The collagen-swelling mechanism of VP9 on bovine-insoluble type I collagen was further studied. Atomic force microscopy observation and biochemical analyses showed that VP9 can degrade proteoglycans in collagen fibers, resulting in the release of collagen fibrils from collagen fibers and the swelling of the latter. In addition, VP9 can degrade glycoproteins, a non-collagenous constituent interacting with collagen in the skin. The characteristics of VP9, such as sufficient specificity toward proteoglycans and glycoproteins but no activity toward collagen, suggest its promising potential in the unhairing and fiber-opening processing in leather industry.
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Affiliation(s)
- Yan Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Bai-Xue Liu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Jun-Hui Cheng
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - He-Min Sun
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China
| | - Chun-Yang Li
- College of Marine Life Sciences, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Liuyan Yang
- School of Life Science and Technology, iHuman Institute, ShanghaiTech University, Shanghai, China.,Shanghai Institute of Biochemistry and Cell Biology, University of Chinese Academy of Sciences, Shanghai, China
| | - Qing-Tao Shen
- School of Life Science and Technology, iHuman Institute, ShanghaiTech University, Shanghai, China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China.,College of Marine Life Sciences, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Xia Zhang
- Department of Molecular Biology, Qingdao Vland Biotech Inc., Qingdao, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
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14
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Zhang S, Liu WX, Liu NH, He XY, Su HN, Li CY, Zhang YZ, Song XY, Zhang XY. Antarcticimicrobium sediminis gen. nov., sp. nov. , isolated from Antarctic intertidal sediment, transfer of Ruegeria lutea to Antarcticimicrobium gen. nov. as Antarcticimicrobium luteum comb. nov. Int J Syst Evol Microbiol 2020; 70:2624-2631. [PMID: 32134379 DOI: 10.1099/ijsem.0.004083] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
Abstract
A Gram-stain-negative, aerobic, non-flagellated and rod- or ovoid-shaped bacterium, designated as strain S4J41T, was isolated from Antarctic intertidal sediment. The isolate grew at 0-37 °C and with 0.5-10 % (w/v) NaCl. It reduced nitrate to nitrite and hydrolysed Tween 80 and gelatin. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain S4J41T constituted a distinct phylogenetic line within the family Rhodobacteraceae and was closely related with some species in the genera Ruegeria, Phaeobacter, Pseudopuniceibacterium, Sulfitobacter, Puniceibacterium and Poseidonocella with 98.6-95.7 % 16S rRNA gene sequence similarities. The major cellular fatty acids were C16 : 0, summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c) and C18 : 0 and the major polar lipids were phosphatidylglycerol, phosphatidylcholine, diphosphatidylglycerol, phosphatidylethanolamine and one unidentified aminolipid. The sole respiratory quinone was Q-10. The genomic DNA G+C content of strain S4J41T was 60.3 mol%. Based on the phylogenetic, chemotaxonomic and phenotypic data obtained in this study, strain S4J41T is considered to represent a novel species in a new genus within the family Rhodobacteraceae, for which the name Antarcticimicrobium sediminis gen. nov., sp. nov. is proposed. The type strain is S4J41T (=MCCC 1K03508T=KCTC 62793T). Moreover, the transfer of Ruegeria lutea Kim et al. 2019 to Antarcticimicrobium gen. nov. as Antarcticimicrobium luteum comb. nov. (type strain 318-1T=JCM 30927T=KCTC 72105T) is also proposed.
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Affiliation(s)
- Shan Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Wei-Xiong Liu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Ning-Hua Liu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Xiao-Yan He
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Chun-Yang Li
- College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao 266003, PR China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Yu-Zhong Zhang
- College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao 266003, PR China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China.,State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China
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15
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Cha QQ, Ren XB, Sun YY, He XY, Su HN, Chen XL, Zhang YZ, Xie BB, Zhao LS, Song XY, Zhang XY. Shewanella polaris sp. nov., a psychrotolerant bacterium isolated from Arctic brown algae. Int J Syst Evol Microbiol 2020; 70:2096-2102. [PMID: 31999242 DOI: 10.1099/ijsem.0.004022] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, facultatively anaerobic, flagellated and rod-shaped bacterium, designated strain SM1901T, was isolated from a brown algal sample collected from Kings Bay, Svalbard, Arctic. Strain SM1901T grew at -4‒30 °C and with 0-7.0 % (w/v) NaCl. It reduced nitrate to nitrite and hydrolysed DNA and Tween 80. Results of phylogenetic analyses based on 16S rRNA gene sequences indicated that strain SM1901T was affiliated with the genus Shewanella, showing the highest sequence similarity to the type strain of Shewanella litoralis (97.5%), followed by those of Shewanella vesiculosa, Shewanella livingstonensis and Shewanella saliphila (97.3 % for all three). The major cellular fatty acids were summed feature 3 (C16 : 1 ω7с and/or C16 : 1 ω6с), C16 : 0, C18 : 0, iso-C15 : 0 and C17 : 1 ω8с and the major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. The respiratory quinones were ubiquinones Q-7, Q-8, menaquinones MK-7(H) and MK-8. The genome of strain SM1901T was 4648537 nucleotides long and encoded a variety of cold adaptation related genes, providing clues for better understanding the ecological adaptation mechanisms of polar bacteria. The genomic DNA G+C content of strain SM1901T was 40.5 mol%. Based on the polyphasic evidence presented in this paper, strain SM1901T was considered to represent a novel species, constituting a novel psychrotolerant lineage out of the known SF clade encompassed by polar Shewanella species, within the genus Shewanella, for which the name Shewanella polaris sp. nov. is proposed. The type strain is SM1901T (=KCTC 72047T=MCCC 1K03585T).
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Affiliation(s)
- Qian-Qian Cha
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xue-Bing Ren
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Yuan-Yuan Sun
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xiao-Yan He
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xiu-Lan Chen
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Yu-Zhong Zhang
- College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao 266003, PR China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Long-Sheng Zhao
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology/Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
- Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, PR China
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16
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Wang Y, Li PY, Zhang Y, Cao HY, Wang YJ, Li CY, Wang P, Su HN, Chen Y, Chen XL, Zhang YZ. 3,6-Anhydro-L-Galactose Dehydrogenase VvAHGD is a Member of a New Aldehyde Dehydrogenase Family and Catalyzes by a Novel Mechanism with Conformational Switch of Two Catalytic Residues Cysteine 282 and Glutamate 248. J Mol Biol 2020; 432:2186-2203. [PMID: 32087198 DOI: 10.1016/j.jmb.2020.02.008] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2019] [Revised: 02/05/2020] [Accepted: 02/06/2020] [Indexed: 12/26/2022]
Abstract
3,6-anhydro-α-L-galactose (L-AHG) is one of the main monosaccharide constituents of red macroalgae. In the recently discovered bacterial L-AHG catabolic pathway, L-AHG is first oxidized by a NAD(P)+-dependent dehydrogenase (AHGD), which is a key step of this pathway. However, the catalytic mechanism(s) of AHGDs is still unclear. Here, we identified and characterized an AHGD from marine bacterium Vibrio variabilis JCM 19239 (VvAHGD). The NADP+-dependent VvAHGD could efficiently oxidize L-AHG. Phylogenetic analysis suggested that VvAHGD and its homologs represent a new aldehyde dehydrogenase (ALDH) family with different substrate preferences from reported ALDH families, named the L-AHGDH family. To explain the catalytic mechanism of VvAHGD, we solved the structures of VvAHGD in the apo form and complex with NADP+ and modeled its structure with L-AHG. Based on structural, mutational, and biochemical analyses, the cofactor channel and the substrate channel of VvAHGD are identified, and the key residues involved in the binding of NADP+ and L-AHG and the catalysis are revealed. VvAHGD performs catalysis by controlling the consecutive connection and interruption of the cofactor channel and the substrate channel via the conformational changes of its two catalytic residues Cys282 and Glu248. Comparative analyses of structures and enzyme kinetics revealed that differences in the substrate channels (in shape, size, electrostatic surface, and residue composition) lead to the different substrate preferences of VvAHGD from other ALDHs. This study on VvAHGD sheds light on the diversified catalytic mechanisms and evolution of NAD(P)+-dependent ALDHs.
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Affiliation(s)
- Yue Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Ping-Yi Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Yi Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Hai-Yan Cao
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Yan-Jun Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Chun-Yang Li
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003, China; Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China
| | - Peng Wang
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Yin Chen
- College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003, China; School of Life Sciences, University of Warwick, Coventry, CV4 7AL, United Kingdom
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China; Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China.
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China; College of Marine Life Sciences, and Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 266003, China; Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China.
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17
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Tang BL, Yang J, Chen XL, Wang P, Zhao HL, Su HN, Li CY, Yu Y, Zhong S, Wang L, Lidbury I, Ding H, Wang M, McMinn A, Zhang XY, Chen Y, Zhang YZ. A predator-prey interaction between a marine Pseudoalteromonas sp. and Gram-positive bacteria. Nat Commun 2020; 11:285. [PMID: 31941905 PMCID: PMC6962226 DOI: 10.1038/s41467-019-14133-x] [Citation(s) in RCA: 41] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2019] [Accepted: 12/13/2019] [Indexed: 12/23/2022] Open
Abstract
Predator-prey interactions play important roles in the cycling of marine organic matter. Here we show that a Gram-negative bacterium isolated from marine sediments (Pseudoalteromonas sp. strain CF6-2) can kill Gram-positive bacteria of diverse peptidoglycan (PG) chemotypes by secreting the metalloprotease pseudoalterin. Secretion of the enzyme requires a Type II secretion system. Pseudoalterin binds to the glycan strands of Gram positive bacterial PG and degrades the PG peptide chains, leading to cell death. The released nutrients, including PG-derived D-amino acids, can then be utilized by strain CF6-2 for growth. Pseudoalterin synthesis is induced by PG degradation products such as glycine and glycine-rich oligopeptides. Genes encoding putative pseudoalterin-like proteins are found in many other marine bacteria. This study reveals a new microbial interaction in the ocean. Predator-prey interactions play important roles in the cycling of marine organic matter. Here the authors show that a Gram-negative bacterium isolated from marine sediments can kill and feed on Gram-positive bacteria by secreting a peptidoglycan-degrading enzyme.
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Affiliation(s)
- Bai-Lu Tang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Jie Yang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Peng Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China.,College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao, 266003, China
| | - Hui-Lin Zhao
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Chun-Yang Li
- College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao, 266003, China.,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao, 266373, China
| | - Yang Yu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Shuai Zhong
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Lei Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Ian Lidbury
- School of Life Sciences, University of Warwick, Coventry, UK
| | - Haitao Ding
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, Shanghai, 200136, China
| | - Min Wang
- College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao, 266003, China
| | - Andrew McMinn
- College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao, 266003, China.,Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, TAS, Australia
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China
| | - Yin Chen
- College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao, 266003, China.,School of Life Sciences, University of Warwick, Coventry, UK
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao, 266237, China. .,College of Marine Life Sciences, Institute for Advanced Ocean Study, Ocean University of China, Qingdao, 266003, China. .,Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao, 266373, China.
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18
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Sun LL, Dang YR, Li Y, Qin QL, Su HN, Li PY, Chen XL, Zhang YZ, Zhang XY. Parvularcula marina sp. nov., isolated from surface water of the South China Sea, and emended description of the genus Parvularcula. Int J Syst Evol Microbiol 2019; 69:2571-2576. [DOI: 10.1099/ijsem.0.003543] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Lin-Lin Sun
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Yan-Ru Dang
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Yi Li
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Qi-Long Qin
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Hai-Nan Su
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Ping-Yi Li
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Xiu-Lan Chen
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
| | - Yu-Zhong Zhang
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
- 3Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266235, PR China
| | - Xi-Ying Zhang
- 1State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, PR China
- 2Marine Biotechnology Research Center, Shandong University, Qingdao 266237, PR China
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19
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Li K, Yuan XX, Sun HM, Zhao LS, Tang R, Chen ZH, Qin QL, Chen XL, Zhang YZ, Su HN. Atomic Force Microscopy of Side Wall and Septa Peptidoglycan From Bacillus subtilis Reveals an Architectural Remodeling During Growth. Front Microbiol 2018; 9:620. [PMID: 29651285 PMCID: PMC5884923 DOI: 10.3389/fmicb.2018.00620] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2017] [Accepted: 03/16/2018] [Indexed: 02/02/2023] Open
Abstract
Peptidoglycan is the fundamental structural constituent of the bacterial cell wall. Despite many years of research, the architecture of peptidoglycan is still largely elusive. Here, we report the high-resolution architecture of peptidoglycan from the model Gram-positive bacterium Bacillus subtilis. We provide high-resolution evidence of peptidoglycan architecture remodeling at different growth stages. Side wall peptidoglycan from B. subtilis strain AS1.398 changed from an irregular architecture in exponential growth phase to an ordered cable-like architecture in stationary phase. Thickness of side wall peptidoglycan was found to be related with growth stages, with a slight increase after transition to stationary phase. Septal disks were synthesized progressively toward the center, while the surface features were less clear than those imaged with side walls. Compared with previous studies, our results revealed slight differences in architecture of peptidoglycan from different B. subtilis strains, expanding our knowledge about the architectural features of B. subtilis peptidoglycan.
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Affiliation(s)
- Kang Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Xiao-Xue Yuan
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - He-Min Sun
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Long-Sheng Zhao
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Ruocong Tang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Zhi-Hua Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Qi-Long Qin
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China.,College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan, China.,College of Marine Life Sciences, Ocean University of China, Qingdao, China
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20
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Guo ZY, Sun WY, Michele Y, Zhang JL, Hu D, Su HN, Yang WM, Mao W. [Loss of BRCA associated protein 1 expression in malignant mesothelioma and its diagnostic application]. Zhonghua Bing Li Xue Za Zhi 2017; 46:699-703. [PMID: 29050072 DOI: 10.3760/cma.j.issn.0529-5807.2017.10.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Abstract
Objective: To investigate the expression of BRCA-associated protein 1 (BAP1) in malignant mesothelioma, non-small cell lung cancer and carcinosarcoma, and its application in the differential diagnosis. Methods: Twenty-two cases of malignant mesothelioma including 17 epithelioid type, 2 sarcomatoid type and 3 biphasic type were collected.As the study control, 80 non-small cell lung cancers infringement pleural membrane(including 40 lung adenocarcinomas and 40 lung squamous cell carcinomas) and 15 carcinosarcomas were included. BAP1 expression was detected using immunohistochemical method. A differential diagnosis antibody panel, including calretinin, WT1, CK5/6, D2-40, CAM5.2, CEA, TTF1, Napsin A, p63 and p40 was tested in all cases. Results: All 80 cases of non-small cell lung cancer and 15 cases of carcinosarcoma were BAP1 positive. In contrast, 64% (14/22) of malignant mesotheliomas lost BAP1 expression (P<0.01). Addition of BAP1 to the mesothelioma marker panel, the diagnostic accuracy of malignant mesothelioma was enhanced to 93%. Focal expression of BAP1 in tumors suggested multiclonal evolution of mesothelioma. Conclusions: Loss of BAP1 expression helps to confirm the diagnosis of malignant mesothelioma whereas all non-small cell lung cancer expresses BAP1. It is therefore recommended that BAP1 can be used in conjunction with other immunohistochemical markers to improve the diagnostic accuracy of malignant mesothelioma.
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Affiliation(s)
- Z Y Guo
- Department of Pathology, Zhejiang Cancer Hospital, Hangzhou 310022, China
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21
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Li DD, Peng M, Wang N, Wang XJ, Zhang XY, Chen XL, Su HN, Zhang YZ, Shi M. Arcticibacterium luteifluviistationis gen. nov., sp. nov., isolated from Arctic seawater. Int J Syst Evol Microbiol 2017; 67:664-669. [PMID: 27902275 DOI: 10.1099/ijsem.0.001690] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-staining-negative, aerobic, non-motile and yellow-pigmented bacterium, designated strain SM1504T, was isolated from Arctic seawater. It hydrolysed aesculin and gelatin but did not reduce nitrate to nitrite. Phylogenetic analysis of 16S rRNA gene sequences revealed that strain SM1504T constituted a distinct phylogenetic line within the family Cytophagaceae and was closely related to species of the genera Lacihabitans, Emticicia, Fluviimonas and Leadbetterella, with respect to which low sequence similarities between 88.9 and 91.6 % were observed. The major fatty acids of strain SM1504T were summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH) and iso-C15 : 0. The predominant polar lipids of strain SM1504T were phosphatidylethanolamine and one unidentified lipid. The only respiratory quinone detected in strain SM1504T was MK7. The DNA G+C content of strain SM1504T was 40.8 mol%. On the basis of the phylogenetic, chemotaxonomic and phenotypic characterization in this study, strain SM1504T is considered to represent a novel species in a new genus of the family Cytophagaceae, for which the name Arcticibacterium luteifluviistationis gen. nov., sp. nov. is proposed. The type strain is SM1504T (=KCTC 42716T=CCTCC AB 2015348T).
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Affiliation(s)
- Dan-Dan Li
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Ming Peng
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Ning Wang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiu-Juan Wang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Mei Shi
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China.,State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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22
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Su HN, Wang QM, Li CY, Li K, Luo W, Chen B, Zhang XY, Qin QL, Zhou BC, Chen XL, Zhang YZ, Xie BB. Structural insights into the cold adaptation of the photosynthetic pigment-protein C-phycocyanin from an Arctic cyanobacterium. Biochimica et Biophysica Acta (BBA) - Bioenergetics 2017; 1858:325-335. [DOI: 10.1016/j.bbabio.2017.02.004] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2016] [Revised: 01/26/2017] [Accepted: 02/06/2017] [Indexed: 10/20/2022]
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23
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Li DD, Liu C, Zhang YQ, Wang XJ, Wang N, Peng M, Song XY, Su HN, Zhang XY, Zhang YZ, Shi M. Flavobacterium arcticum sp. nov., isolated from Arctic seawater. Int J Syst Evol Microbiol 2017; 67:1070-1074. [DOI: 10.1099/ijsem.0.001804] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Dan-Dan Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Chang Liu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Yan-Qi Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiu-Juan Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Ning Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Ming Peng
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- Institute of Marine Science and Technology, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- Institute of Marine Science and Technology, Shandong University, Jinan 250100, PR China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- Institute of Marine Science and Technology, Shandong University, Jinan 250100, PR China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- Institute of Marine Science and Technology, Shandong University, Jinan 250100, PR China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266235, PR China
| | - Mei Shi
- Institute of Marine Science and Technology, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
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24
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Li CY, Chen XL, Zhang D, Wang P, Sheng Q, Peng M, Xie BB, Qin QL, Li PY, Zhang XY, Su HN, Song XY, Shi M, Zhou BC, Xun LY, Chen Y, Zhang YZ. Structural mechanism for bacterial oxidation of oceanic trimethylamine into trimethylamine N-oxide. Mol Microbiol 2017; 103:992-1003. [PMID: 27997715 DOI: 10.1111/mmi.13605] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/06/2016] [Indexed: 11/28/2022]
Abstract
Trimethylamine (TMA) and trimethylamine N-oxide (TMAO) are widespread in the ocean and are important nitrogen source for bacteria. TMA monooxygenase (Tmm), a bacterial flavin-containing monooxygenase (FMO), is found widespread in marine bacteria and is responsible for converting TMA to TMAO. However, the molecular mechanism of TMA oxygenation by Tmm has not been explained. Here, we determined the crystal structures of two reaction intermediates of a marine bacterial Tmm (RnTmm) and elucidated the catalytic mechanism of TMA oxidation by RnTmm. The catalytic process of Tmm consists of a reductive half-reaction and an oxidative half-reaction. In the reductive half-reaction, FAD is reduced and a C4a-hydroperoxyflavin intermediate forms. In the oxidative half-reaction, this intermediate attracts TMA through electronic interactions. After TMA binding, NADP+ bends and interacts with D317, shutting off the entrance to create a protected micro-environment for catalysis and exposing C4a-hydroperoxyflavin to TMA for oxidation. Sequence analysis suggests that the proposed catalytic mechanism is common for bacterial Tmms. These findings reveal the catalytic process of TMA oxidation by marine bacterial Tmm and first show that NADP+ undergoes a conformational change in the oxidative half-reaction of FMOs.
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Affiliation(s)
- Chun-Yang Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Dian Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Peng Wang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Qi Sheng
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Ming Peng
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Qi-Long Qin
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Ping-Yi Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Mei Shi
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Bai-Cheng Zhou
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Lu-Ying Xun
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China
| | - Yin Chen
- School of Life Sciences, University of Warwick, Coventry, CV4 7AL, UK
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan, 250100, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
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25
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Su HN, Xu YY, Wang X, Zhang KQ, Li GH. Induction of trap formation in nematode-trapping fungi by bacteria-released ammonia. Lett Appl Microbiol 2016; 62:349-53. [PMID: 26928264 DOI: 10.1111/lam.12557] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2015] [Revised: 02/16/2016] [Accepted: 02/17/2016] [Indexed: 11/30/2022]
Abstract
A total of 11 bacterial strains were assayed for bacteria-induced trap formation in the nematode-trapping fungus Arthrobotrys oligospora YMF1·01883 with two-compartmented Petri dish. These strains were identified on the basis of their 16S rRNA gene sequences. Volatile organic compounds (VOCs) of eight isolates were extracted using solid-phase micro-extraction (SPME) and their structures were identified based on gas chromatography-mass spectrometry (GC-MS). At the same time, all isolates were used for quantitative measurement of ammonia by the indophenol blue method. The effects of pure commercial compounds on inducement of trap formation in A. oligospora were tested. Taken together, results demonstrated that the predominant bacterial volatile compound inducing trap formation was ammonia. Meanwhile, ammonia also played a role in other nematode-trapping fungi, including Arthrobotrys guizhouensis YMF1·00014, producing adhesive nets; Dactylellina phymatopaga YMF1·01474, producing adhesive knobs; Dactylellina cionopaga YMF1·01472, producing adhesive columns and Drechslerella brochopaga YMF1·01829, producing constricting rings.
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Affiliation(s)
- H N Su
- Laboratory for Conservation and Utilization of Bio-resource, Key Laboratory for Microbial Resources of the Ministry of Education, Yunnan University, Kunming, China
| | - Y Y Xu
- Laboratory for Conservation and Utilization of Bio-resource, Key Laboratory for Microbial Resources of the Ministry of Education, Yunnan University, Kunming, China.,Angang general hospital, Anshan, China
| | - X Wang
- Laboratory for Conservation and Utilization of Bio-resource, Key Laboratory for Microbial Resources of the Ministry of Education, Yunnan University, Kunming, China
| | - K Q Zhang
- Laboratory for Conservation and Utilization of Bio-resource, Key Laboratory for Microbial Resources of the Ministry of Education, Yunnan University, Kunming, China
| | - G H Li
- Laboratory for Conservation and Utilization of Bio-resource, Key Laboratory for Microbial Resources of the Ministry of Education, Yunnan University, Kunming, China
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26
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Zhao LS, Su HN, Li K, Xie BB, Liu LN, Zhang XY, Chen XL, Huang F, Zhou BC, Zhang YZ. Supramolecular architecture of photosynthetic membrane in red algae in response to nitrogen starvation. Biochim Biophys Acta 2016; 1857:1751-1758. [PMID: 27528560 DOI: 10.1016/j.bbabio.2016.08.005] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2016] [Revised: 08/06/2016] [Accepted: 08/11/2016] [Indexed: 12/15/2022]
Abstract
The availability of nitrogen is one of the most important determinants that can limit the growth of photosynthetic organisms including plants and algae; however, direct observations on the supramolecular architecture of photosynthetic membranes in response to nitrogen stress are still lacking. Red algae are an important evolutionary group of algae which contain phycobilisomes (PBSs) on their thylakoid membranes, as do cyanobacteria. PBSs function not only as light-harvesting antennae but also as nitrogen storage. In this report, alterations of the supramolecular architecture of thylakoid membranes from red alga Porphyridium cruentum during nitrogen starvation were characterized. The morphology of the intact thylakoid membrane was observed to be round vesicles. Thylakoid membranes were reduced in content and PBSs were degraded during nitrogen starvation. The size and density of PBSs were both found to be reduced. PBS size decreased by less than one-half after 20days of nitrogen starvation, but their hemispherical morphology was retained. The density of PBSs on thylakoid membranes was more seriously affected as time proceeded. Upon re-addition of nitrogen led to increasing of PBSs on thylakoid membranes. This work reports the first direct observation on alterations in the supramolecular architecture of thylakoid membranes from a photosynthetic organism in response to nitrogen stress.
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Affiliation(s)
- Long-Sheng Zhao
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China.
| | - Kang Li
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China
| | - Lu-Ning Liu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China
| | - Feng Huang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China
| | - Bai-Cheng Zhou
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Institute of Marine Science and Technology, Shandong University, Jinan 250100, China; Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
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Liu C, Zhang XY, Song XY, Su HN, Qin QL, Xie BB, Chen XL, Zhang YZ, Shi M. Algimonas arctica sp. nov., isolated from intertidal sand, and emended description of the genus Algimonas. Int J Syst Evol Microbiol 2016; 65:3256-3261. [PMID: 26296764 DOI: 10.1099/ijsem.0.000402] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel Gram-reaction-negative, aerobic, pale-orange-pigmented bacterium, designated strain SM1216T, was isolated from Arctic intertidal sand. Cells of strain SM1216T were dimorphic rods with a single polar prostheca or flagellum. The strain grew at 4 − 30 °C (optimum at 25 °C) and with 0.5 − 6 % (w/v) NaCl (optimum with 2 − 3 %). It reduced nitrate to nitrite but did not hydrolyse gelatin, DNA or Tween 80. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain SM1216T was affiliated with the genus Algimonas in the family Hyphomonadaceae, sharing 97.5 and 96.3 % similarity with Algimonas ampicilliniresistens 14A-2-7T and Algimonas porphyrae 0C-2-2T, respectively, the two known species in the genus Algimonas. However, the level of DNA–DNA relatedness between strain SM1216T and the type strain of A. ampicilliniresistens, the nearest phylogenetic neighbour, was 57.9 %. The major cellular fatty acids of strain SM1216T were C18 : 1ω7c and C18 : 1 2-OH. The main polar lipids of strain SM1216T were monoglycosyldiglyceride (MGDG), glucuronopyranosyldiglyceride (GUDG), phosphatidylglycerol (PG) and three unidentified phospholipids (PL1–3). The major respiratory quinone was ubiquinone 10 (Q10). The genomic G+C content of strain SM1216T was 60.6 mol%. On the basis of the evidence from this polyphasic study, strain SM1216T represents a novel species in the genus Algimonas, for which the name Algimonas arctica sp. nov. is proposed. The type strain is SM1216T ( = MCCC 1K00233T = KCTC 32513T). An emended description of the genus Algimonas is also given.
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Affiliation(s)
- Chang Liu
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Qi-Long Qin
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China.,Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Mei Shi
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China.,State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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Liu A, Mi ZH, Zheng XY, Yu Y, Su HN, Chen XL, Xie BB, Zhou BC, Zhang YZ, Qin QL. Exopolysaccharides Play a Role in the Swarming of the Benthic Bacterium Pseudoalteromonas sp. SM9913. Front Microbiol 2016; 7:473. [PMID: 27092127 PMCID: PMC4820436 DOI: 10.3389/fmicb.2016.00473] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2015] [Accepted: 03/21/2016] [Indexed: 12/01/2022] Open
Abstract
Most marine bacteria secrete exopolysaccharide (EPS), which is important for bacterial survival in the marine environment. However, it is still unclear whether the self-secreted EPS is involved in marine bacterial motility. Here we studied the role of EPS in the lateral flagella-driven swarming motility of benthic bacterium Pseudoalteromonas sp. SM9913 (SM9913) by a comparison of wild SM9913 and ΔepsT, an EPS synthesis defective mutant. Reduction of EPS production in ΔepsT did not affect the growth rate or the swimming motility, but significantly decreased the swarming motility on a swarming plate, suggesting that the EPS may play a role in SM9913 swarming. However, the expression and assembly of lateral flagella in ΔepsT were not affected. Instead, ΔepsT had a different swarming behavior from wild SM9913. The swarming of ΔepsT did not have an obvious rapid swarming period, and its rate became much lower than that of wild SM9913 after 35 h incubation. An addition of surfactin or SM9913 EPS on the surface of the swarming plate could rescue the swarming level. These results indicate that the self-secreted EPS is required for the swarming of SM9913. This study widens our understanding of the function of the EPS of benthic bacteria.
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Affiliation(s)
- Ang Liu
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Zi-Hao Mi
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Xiao-Yu Zheng
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Yang Yu
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Hai-Nan Su
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Xiu-Lan Chen
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Bin-Bin Xie
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Bai-Cheng Zhou
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Yu-Zhong Zhang
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
| | - Qi-Long Qin
- Marine and Agricultural Biotechnology Laboratory, State Key Laboratory of Microbial Technology, Shandong UniversityJinan, China; Marine Biotechnology Research CenterJinan, China
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Xu F, Zhang XY, Liu C, Shi M, Su HN, Qin QL, Chen XL, Zhang YZ, Song XY. Subsaxibacter arcticus sp. nov., isolated from Arctic intertidal sand. Int J Syst Evol Microbiol 2016; 66:132-136. [DOI: 10.1099/ijsem.0.000684] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Fei Xu
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Chang Liu
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Mei Shi
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Qi-Long Qin
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiao-Yan Song
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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30
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Liu C, Zhang XY, Wen XR, Shi M, Chen XL, Su HN. Arcticiflavibacter luteus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from intertidal sand. Int J Syst Evol Microbiol 2015; 66:144-149. [PMID: 26475791 DOI: 10.1099/ijsem.0.000681] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A yellow-pigmented, rod-shaped, non-flagellated, aerobic and Gram-reaction-negative bacterium, designated strain SM1212T, was isolated from intertidal sand of Kongsfjorden, Svalbard. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain SM1212T constituted a distinct lineage within the family Flavobacteriaceae. It shared highest 16S rRNA gene sequence similarities with the type strains of Bizionia echini (96.0 %), Lacinutrix jangbogonensis (95.8 %) and Psychroserpens damuponensis (95.7 %) and < 95.6 % sequence similarity with other recognized species in the family Flavobacteriaceae. The strain grew at 4-35 °C and with 0-6.0 % (w/v) NaCl. It hydrolysed gelatin, DNA, starch and Tween 80 but did not reduce nitrate to nitrite. The major cellular fatty acids were anteiso-C15 : 0, iso-C15 : 0, iso-C15 : 1 G, anteiso-C15 : 1 A, iso-C15 : 0 3-OH, C17 : 0 2-OH and iso-C17 : 0 3-OH and the major respiratory quinone was menaquinone MK-6. Polar lipids included phosphatidylethanolamine, one unidentified phospholipid, one unidentified aminophospholipid, three unidentified aminolipids and nine unidentified lipids. The genomic DNA G+C content of strain SM1212T was 36.6 mol%. On the basis of data from this polyphasic study, strain SM1212T represents a novel species in a new genus in the family Flavobacteriaceae, for which the name Arcticiflavibacter luteus gen. nov., sp. nov. is proposed. The type strain of Arcticiflavibacter luteus is SM1212T ( = MCCC 1K00234T = KCTC 32514T).
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Affiliation(s)
- Chang Liu
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xi-Ruo Wen
- Beijing National Day School, Beijing 100039, PR China
| | - Mei Shi
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
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Lin CY, Zhang XY, Liu A, Liu C, Song XY, Su HN, Qin QL, Xie BB, Zhang YZ, Chen XL. Haliea atlantica sp. nov., isolated from seawater, transfer of Haliea mediterranea to Parahaliea gen. nov. as Parahaliea mediterranea comb. nov. and emended description of the genus Haliea. Int J Syst Evol Microbiol 2015; 65:3413-3418. [DOI: 10.1099/ijsem.0.000431] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Chao-Yi Lin
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Ang Liu
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Chang Liu
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Qi-Long Qin
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan 250100, PR China
| | - Xiu-Lan Chen
- Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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Lin CY, Zhang XY, Liu A, Liu C, Song XY, Su HN, Qin QL, Xie BB, Zhang YZ. Marivirga atlantica sp. nov., isolated from seawater and emended description of the genus
Marivirga. Int J Syst Evol Microbiol 2015; 65:1515-1519. [DOI: 10.1099/ijs.0.000126] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel Gram-stain-negative, aerobic, orange-pigmented, non-flagellated, gliding, rod-shaped bacterium, designated strain SM1354T was isolated from surface seawater of the Atlantic Ocean. The strain hydrolysed gelatin and DNA but did not reduce nitrate. It grew at 4–40 °C and with 0.5–11 % (w/v) NaCl. Phylogenetic analysis of the 16S rRNA gene sequences revealed that strain SM1354T belonged to the genus
Marivirga
with 96.0–96.2 % sequence similarities to known species of the genus
Marivirga
. The major fatty acids of strain SM1354T were iso-C15 : 0, iso-C15 : 1 G, iso-C17 : 03-OH and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 02-OH). Polar lipids of strain SM1354T included phosphatidylethanolamine, three unidentified lipids and one unidentified aminolipid and aminophospholipid. The major respiratory quinone of strain SM1354T was menaquinone 7 (MK-7). The genomic DNA G+C content of strain SM1354T was 33.9±0.4 mol%. On the basis of the results of the polyphasic characterization in this study, it is proposed that strain SM1354T represents a novel species of the genus
Marivirga
, namely Marivirga atlantica sp. nov. The type strain of Marivirga atlantica is SM1354T ( = CCTCC AB 2014242T = JCM 30305T). An emended description of the genus
Marivirga
is also proposed.
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Affiliation(s)
- Chao-Yi Lin
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Xi-Ying Zhang
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Ang Liu
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Chang Liu
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Xiao-Yan Song
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Qi-Long Qin
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Bin-Bin Xie
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Yu-Zhong Zhang
- Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan 250100, PR China
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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Yang J, Zhao HL, Ran LY, Li CY, Zhang XY, Su HN, Shi M, Zhou BC, Chen XL, Zhang YZ. Mechanistic insights into elastin degradation by pseudolysin, the major virulence factor of the opportunistic pathogen Pseudomonas aeruginosa. Sci Rep 2015; 5:9936. [PMID: 25905792 PMCID: PMC4407726 DOI: 10.1038/srep09936] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2014] [Accepted: 03/12/2015] [Indexed: 01/01/2023] Open
Abstract
Pseudolysin is the most abundant protease secreted by Pseudomonas aeruginosa and is the major extracellular virulence factor of this opportunistic human pathogen. Pseudolysin destroys human tissues by solubilizing elastin. However, the mechanisms by which pseudolysin binds to and degrades elastin remain elusive. In this study, we investigated the mechanism of action of pseudolysin on elastin binding and degradation by biochemical assay, microscopy and site-directed mutagenesis. Pseudolysin bound to bovine elastin fibers and preferred to attack peptide bonds with hydrophobic residues at the P1 and P1’ positions in the hydrophobic domains of elastin. The time-course degradation processes of both bovine elastin fibers and cross-linked human tropoelastin by pseudolysin were further investigated by microscopy. Altogether, the results indicate that elastin degradation by pseudolysin began with the hydrophobic domains on the fiber surface, followed by the progressive disassembly of macroscopic elastin fibers into primary structural elements. Moreover, our site-directed mutational results indicate that five hydrophobic residues in the S1-S1’ sub-sites played key roles in the binding of pseudolysin to elastin. This study sheds lights on the pathogenesis of P. aeruginosa infection.
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Affiliation(s)
- Jie Yang
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Hui-Lin Zhao
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Li-Yuan Ran
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Chun-Yang Li
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Xi-Ying Zhang
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Hai-Nan Su
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Mei Shi
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Bai-Cheng Zhou
- Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Xiu-Lan Chen
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China [3] Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan 250100, China
| | - Yu-Zhong Zhang
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China [2] Biotechnology Research Center, Shandong University, Jinan 250100, China [3] Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan 250100, China
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Mi ZH, Yu ZC, Su HN, Wang L, Chen XL, Pang X, Qin QL, Xie BB, Zhang XY, Zhou BC, Zhang YZ. Physiological and genetic analyses reveal a mechanistic insight into the multifaceted lifestyles ofPseudoalteromonassp. SM9913 adapted to the deep-sea sediment. Environ Microbiol 2015; 17:3795-806. [DOI: 10.1111/1462-2920.12823] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2014] [Accepted: 02/22/2015] [Indexed: 12/01/2022]
Affiliation(s)
- Zi-Hao Mi
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Zi-Chao Yu
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
- Collaborative Innovation Center of Deep Sea Biology; Shandong University; Jinan 250100 China
| | - Lei Wang
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
- Collaborative Innovation Center of Deep Sea Biology; Shandong University; Jinan 250100 China
| | - Xiuhua Pang
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
- Collaborative Innovation Center of Deep Sea Biology; Shandong University; Jinan 250100 China
| | - Qi-Long Qin
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Bai-Cheng Zhou
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
- Collaborative Innovation Center of Deep Sea Biology; Shandong University; Jinan 250100 China
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35
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Yang J, Zhao HL, Tang BL, Chen XL, Su HN, Zhang XY, Song XY, Zhou BC, Xie BB, Weiss AS, Zhang YZ. Mechanistic insight into the elastin degradation process by the metalloprotease myroilysin from the deep-sea bacterium Myroides profundi D25. Mar Drugs 2015; 13:1481-96. [PMID: 25793427 PMCID: PMC4377995 DOI: 10.3390/md13031481] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2014] [Accepted: 03/10/2015] [Indexed: 02/01/2023] Open
Abstract
Elastases have been widely studied because of their important uses as medicine and meat tenderizers. However, there are relatively few studies on marine elastases. Myroilysin, secreted by Myroides profundi D25 from deep-sea sediment, is a novel elastase. In this study, we examined the elastin degradation mechanism of myroilysin. When mixed with insoluble bovine elastin, myroilysin bound hydrophobically, suggesting that this elastase may interact with the hydrophobic domains of elastin. Consistent with this, analysis of the cleavage pattern of myroilysin on bovine elastin and recombinant tropoelastin revealed that myroilysin preferentially cleaves peptide bonds with hydrophobic residues at the P1 and/or P1′ positions. Scanning electron microscopy (SEM) of cross-linked recombinant tropoelastin degraded by myroilysin showed preferential damages of spherules over cross-links, as expected for a hydrophobic preference. The degradation process of myroilysin on bovine elastin fibres was followed by light microscopy and SEM, revealing that degradation begins with the formation of crevices and cavities at the fibre surface, with these openings increasing in number and size until the fibre breaks into small pieces, which are subsequently fragmented. Our results are helpful for developing biotechnological applications for myroilysin.
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Affiliation(s)
- Jie Yang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Hui-Lin Zhao
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Department of Pathogenic Biology, Binzhou Medical University, Shandong Province, Yantai 264003, China.
| | - Bai-Lu Tang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Xiao-Yan Song
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Bai-Cheng Zhou
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Anthony S Weiss
- School of Molecular Bioscience, The University of Sydney, NSW 2006, Australia.
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
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36
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Yu ZC, Chen XL, Shen QT, Zhao DL, Tang BL, Su HN, Wu ZY, Qin QL, Xie BB, Zhang XY, Yu Y, Zhou BC, Chen B, Zhang YZ. Filamentous phages prevalent in Pseudoalteromonas spp. confer properties advantageous to host survival in Arctic sea ice. ISME J 2015; 9:871-81. [PMID: 25303713 PMCID: PMC4817708 DOI: 10.1038/ismej.2014.185] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/12/2014] [Revised: 08/14/2014] [Accepted: 08/18/2014] [Indexed: 12/30/2022]
Abstract
Sea ice is one of the most frigid environments for marine microbes. In contrast to other ocean ecosystems, microbes in permanent sea ice are space confined and subject to many extreme conditions, which change on a seasonal basis. How these microbial communities are regulated to survive the extreme sea ice environment is largely unknown. Here, we show that filamentous phages regulate the host bacterial community to improve survival of the host in permanent Arctic sea ice. We isolated a filamentous phage, f327, from an Arctic sea ice Pseudoalteromonas strain, and we demonstrated that this type of phage is widely distributed in Arctic sea ice. Growth experiments and transcriptome analysis indicated that this phage decreases the host growth rate, cell density and tolerance to NaCl and H2O2, but enhances its motility and chemotaxis. Our results suggest that the presence of the filamentous phage may be beneficial for survival of the host community in sea ice in winter, which is characterized by polar night, nutrient deficiency and high salinity, and that the filamentous phage may help avoid over blooming of the host in sea ice in summer, which is characterized by polar day, rich nutrient availability, intense radiation and high concentration of H2O2. Thus, while they cannot kill the host cells by lysing them, filamentous phages confer properties advantageous to host survival in the Arctic sea ice environment. Our study provides a foremost insight into the ecological role of filamentous phages in the Arctic sea ice ecosystem.
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Affiliation(s)
- Zi-Chao Yu
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Xiu-Lan Chen
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China [3] Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan, China
| | - Qing-Tao Shen
- Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Dian-Li Zhao
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Bai-Lu Tang
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Hai-Nan Su
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China [3] Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan, China
| | - Zhao-Yu Wu
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Qi-Long Qin
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China [3] Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan, China
| | - Bin-Bin Xie
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China [3] Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan, China
| | - Xi-Ying Zhang
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China [3] Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan, China
| | - Yong Yu
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, Shanghai, China
| | - Bai-Cheng Zhou
- Marine Biotechnology Research Center, Shandong University, Jinan, China
| | - Bo Chen
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, Shanghai, China
| | - Yu-Zhong Zhang
- 1] State Key Laboratory of Microbial Technology, Shandong University, Jinan, China [2] Marine Biotechnology Research Center, Shandong University, Jinan, China [3] Collaborative Innovation Center of Deep Sea Biology, Shandong University, Jinan, China
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37
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Li PY, Chen XL, Ji P, Li CY, Wang P, Zhang Y, Xie BB, Qin QL, Su HN, Zhou BC, Zhang YZ, Zhang XY. Interdomain hydrophobic interactions modulate the thermostability of microbial esterases from the hormone-sensitive lipase family. J Biol Chem 2015; 290:11188-98. [PMID: 25771540 DOI: 10.1074/jbc.m115.646182] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2015] [Indexed: 12/11/2022] Open
Abstract
Microbial hormone-sensitive lipases (HSLs) contain a CAP domain and a catalytic domain. However, it remains unclear how the CAP domain interacts with the catalytic domain to maintain the stability of microbial HSLs. Here, we isolated an HSL esterase, E40, from a marine sedimental metagenomic library. E40 exhibited the maximal activity at 45 °C and was quite thermolabile, with a half-life of only 2 min at 40 °C, which may be an adaptation of E40 to the permanently cold sediment environment. The structure of E40 was solved to study its thermolability. Structural analysis showed that E40 lacks the interdomain hydrophobic interactions between loop 1 of the CAP domain and α7 of the catalytic domain compared with its thermostable homologs. Mutational analysis showed that the introduction of hydrophobic residues Trp(202) and Phe(203) in α7 significantly improved E40 stability and that a further introduction of hydrophobic residues in loop 1 made E40 more thermostable because of the formation of interdomain hydrophobic interactions. Altogether, the results indicate that the absence of interdomain hydrophobic interactions between loop 1 and α7 leads to the thermolability of E40. In addition, a comparative analysis of the structures of E40 and other thermolabile and thermostable HSLs suggests that the interdomain hydrophobic interactions between loop 1 and α7 are a key element for the thermostability of microbial HSLs. Therefore, this study not only illustrates the structural element leading to the thermolability of E40 but also reveals a structural determinant for HSL thermostability.
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Affiliation(s)
- Ping-Yi Li
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Xiu-Lan Chen
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Peng Ji
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Chun-Yang Li
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Peng Wang
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Yi Zhang
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Bin-Bin Xie
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Qi-Long Qin
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Hai-Nan Su
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Bai-Cheng Zhou
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Yu-Zhong Zhang
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
| | - Xi-Ying Zhang
- From the State Key Laboratory of Microbial Technology and the Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
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38
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Fu SM, Hartung J, Zhou CY, Su HN, Tan J, Li ZA. Ultrastructural Changes and Putative Phage Particles Observed in Sweet Orange Leaves Infected with 'Candidatus Liberibacter asiaticus'. Plant Dis 2015; 99:320-324. [PMID: 30699697 DOI: 10.1094/pdis-01-14-0106-re] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Huanglongbing (HLB), also known as citrus greening, is currently the most destructive citrus disease. Anatomical analyses of HLB-affected sweet orange were carried out by light and electron microscopy. As compared with healthy citrus, the phloem plasmodesmata were plugged with callose, and in some samples the phloem was collapsed. Chloroplast structures were deformed. Prophage sequences occupy a significant portion of the genome of 'Candidatus Liberibacter asiaticus' and have been used to distinguish strains from Yunnan and Guangdong provinces in China and Florida. Interestingly, a large number of possible putative phage particles were observed attached on the surface of 'Ca. L. asiaticus' cells in plants inoculated with strain FJ3 from Fujian Province, China. Phage particles have been observed previously only in periwinkle plants artificially inoculated in Florida with 'Ca. L. asiaticus' that carried the SC1-type prophage. PCR assays verified the presence of the SC1-type prophage sequences previously described from this bacterium in Florida in the FJ3 isolate. This is the first time that suspected phage particles have been observed in sweet orange trees infected with 'Ca. L. asiaticus.'
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Affiliation(s)
- S M Fu
- College of Plant Protection/Citrus Research Institute of Southwest University, Chongqing 400715, P. R. China, USDA-ARS Molecular Plant Pathology Laboratory, Beltsville, MD
| | - John Hartung
- USDA-ARS Molecular Plant Pathology Laboratory, Beltsville, MD
| | - C Y Zhou
- Citrus Research Institute, Southwest University, Chongqing 400715, P. R. China
| | - H N Su
- Citrus Research Institute, Southwest University, Chongqing 400715, P. R. China
| | - J Tan
- Citrus Research Institute, Southwest University, Chongqing 400715, P. R. China
| | - Z A Li
- Citrus Research Institute, Southwest University, Chongqing 400715, P. R. China
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39
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Su HN, Xie BB. Reply to the comment on "The ultrastructure of type I collagen at nanoscale: large or small D-spacing distribution?" by J. Wallace, Nanoscale, 2015, 7, DOI: 10.1039/c4nr03160a. Nanoscale 2015; 7:1235-1236. [PMID: 25473806 DOI: 10.1039/c4nr05120c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Measuring D-spacing values from collagen fibrils or collagen fascicles with surface curvatures will introduce additional errors. This error might be minimized by studying single collagen fibrils which are parallel to the surface of substrates.
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Affiliation(s)
- Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Jinan, China.
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40
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Su HN, Ran LY, Chen ZH, Qin QL, Shi M, Song XY, Chen XL, Zhang YZ, Xie BB. The ultrastructure of type I collagen at nanoscale: large or small D-spacing distribution? Nanoscale 2014; 6:8134-8139. [PMID: 24922185 DOI: 10.1039/c4nr01268b] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
D-Spacing is the most significant topographic feature of type I collagen fibril, and it is important for our understanding of the structure and function in collagens. Traditionally, the D-spacing of type I collagen fibril was shown to have a singular value of 67 nm, but recent works indicated that the D-spacing values have a large distribution of up to 10 nm when measured by atomic force microscopy. We found that this large distribution of D-spacing values mainly resulted from image drift during measurement. Note that the D-spacing was homogeneous in a single type I collagen fibril. Our statistical analysis indicated that the D-spacing values of type I collagen fibrils exhibited only a narrow distribution of 2.5 nm around the value of 67 nm. In addition, the D-spacing values of the collagen fibrils were nearly identical not only within a single fibril bundle, but also in different fibril bundles. The measurement of the D-spacing values of collagen may provide important structural information in many research areas such as collagen related diseases, construction of molecular model of collagen, and collagen fibrogenesis.
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Affiliation(s)
- Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
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41
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Liu C, Zhang XY, Su HN, Zhou MY, Chen B, Li H, Chen XL, Zhao DL, Zhou BC, Shi M, Zhang YZ. Puniceibacterium antarcticum gen. nov., sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2014; 64:1566-1572. [DOI: 10.1099/ijs.0.057695-0] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-reaction-negative, aerobic, non-flagellated, rod-shaped bacterium, designated strain SM1211T, was isolated from Antarctic seawater. The isolate grew at 4–35 °C and with 0–10 % (w/v) NaCl. It could produce bacteriochlorophyll a, but did not reduce nitrate to nitrite or hydrolyse DNA. Phylogenetic analysis of 16S rRNA gene sequences revealed that strain SM1211T constituted a distinct phylogenetic line within the family
Rhodobacteraceae
and was closely related to species in the genera
Litorimicrobium
,
Leisingera
,
Seohaeicola
and
Phaeobacter
with 95.1–96.0 % similarities. The predominant cellular fatty acid was C18 : 1ω7c. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, an unidentified aminolipid and two unidentified phospholipids. The genomic DNA G+C content of strain SM1211T was 60.7 mol%. Based on the phylogenetic, chemotaxonomic and phenotypic data obtained in this study, strain SM1211T is considered to represent a novel species in a new genus within the family
Rhodobacteraceae
, for which the name Puniceibacterium antarcticum gen. nov., sp. nov. is proposed. The type strain of Puniceibacterium antarcticum is SM1211T ( = CCTCC AB 2013147T = KACC 16875T).
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Affiliation(s)
- Chang Liu
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Xi-Ying Zhang
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Ming-Yang Zhou
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Bo Chen
- SOA Key Laboratory for Polar Science, Polar Research Institute of China, Shanghai 200136, PR China
| | - Hai Li
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Xiu-Lan Chen
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Dian-Li Zhao
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Bai-Cheng Zhou
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Mei Shi
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Yu-Zhong Zhang
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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42
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Zhao HL, Yang J, Chen XL, Su HN, Zhang XY, Huang F, Zhou BC, Xie BB. Optimization of fermentation conditions for the production of the M23 protease Pseudoalterin by deep-sea Pseudoalteromonas sp. CF6-2 with artery powder as an inducer. Molecules 2014; 19:4779-90. [PMID: 24743935 PMCID: PMC6271819 DOI: 10.3390/molecules19044779] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2014] [Revised: 04/12/2014] [Accepted: 04/14/2014] [Indexed: 11/16/2022] Open
Abstract
Proteases in the M23 family have specific activities toward elastin and bacterial peptidoglycan. The peptidoglycan-degrading property makes these proteases have potential as novel antimicrobials. Because M23 proteases cannot be maturely expressed in Escherichia coli, it is significant to improve the production of these enzymes in their wild strains. Pseudoalterin is a new M23 protease secreted by the deep-sea bacterium Pseudoalteromonas sp. CF6-2. In this study, the fermentation conditions of strain CF6-2 for pseudoalterin production were optimized using single factor experiments and response surface methodology to improve the enzyme yield. To reduce the fermentation cost, bovine artery powder instead of elastin was determined as a cheap and efficient inducer. Based on single factor experiments, artery powder content, culture temperature and culture time were determined as the main factors influencing pseudoalterin production and were further optimized by the central composite design. The optimal values of these factors were determined as: artery powder of 1.2%, culture temperature of 20.17 °C and culture time of 28.04 h. Under the optimized conditions, pseudoalterin production reached 100.02±9.0 U/mL, more than twice of that before optimization. These results lay a good foundation for developing the biotechnological potential of pseudoalterin.
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Affiliation(s)
- Hui-Lin Zhao
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
| | - Jie Yang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
| | - Feng Huang
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
| | - Bai-Cheng Zhou
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, China.
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
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Xu Z, Zhang XY, Su HN, Yu ZC, Liu C, Li H, Chen XL, Song XY, Xie BB, Qin QL, Zhou BC, Shi M, Huang Y, Zhang YZ. Oceanisphaera profunda sp. nov., a marine bacterium isolated from deep-sea sediment, and emended description of the genus Oceanisphaera. Int J Syst Evol Microbiol 2014; 64:1252-1256. [DOI: 10.1099/ijs.0.058115-0] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, aerobic, oxidase- and catalase-positive, flagellated, rod-shaped bacterial strain, designated SM1222T, was isolated from the deep-sea sediment of the South China Sea. The strain grew at 4–35 °C and with 0.5–8 % NaCl (w/v). Phylogenetic analysis based on the 16S rRNA gene sequences revealed that strain SM1222T was affiliated with the genus
Oceanisphaera
in the class
Gammaproteobacteria
. It shared the highest sequence similarity with the type strain of
Oceanisphaera ostreae
(96.8 %) and 95.4–96.6 % sequence similarities with type strains of other species of the genus
Oceanisphaera
with validly published names. Strain SM1222T contained summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), C18 : 1ω7c, C16 : 0, C12 : 0 and summed feature 2 (C14 : 0 3-OH and/or iso-C16 : 1 I) as the major fatty acids and ubiquinone Q-8 as the predominant respiratory quinone. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The genomic DNA G+C content of strain SM1222T was 51.5 mol%. On the basis of the evidence presented in this study, strain SM1222T represents a novel species of the genus
Oceanisphaera
, for which the name Oceanisphaera profunda sp. nov. is proposed. The type strain of Oceanisphaera profunda is SM1222T ( = CCTCC AB 2013241T = KCTC 32510T). An emended description of the genus
Oceanisphaera
Romanenko et al. 2003 emend. Choi et al. 2011 is also proposed.
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Affiliation(s)
- Zhong Xu
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
- School of Life Science, Liaocheng University, Liaocheng 252059, PR China
| | - Xi-Ying Zhang
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Hai-Nan Su
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Zi-Chao Yu
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Chang Liu
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Hai Li
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Xiu-Lan Chen
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Xiao-Yan Song
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Bin-Bin Xie
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Qi-Long Qin
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Bai-Cheng Zhou
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Mei Shi
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Yong Huang
- School of Life Science, Liaocheng University, Liaocheng 252059, PR China
| | - Yu-Zhong Zhang
- Marine Biotechnology Research Center, Shandong University, Jinan 250100, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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Yu ZC, Zhao DL, Ran LY, Mi ZH, Wu ZY, Pang X, Zhang XY, Su HN, Shi M, Song XY, Xie BB, Qin QL, Zhou BC, Chen XL, Zhang YZ. Development of a genetic system for the deep-sea psychrophilic bacterium Pseudoalteromonas sp. SM9913. Microb Cell Fact 2014; 13:13. [PMID: 24450434 PMCID: PMC3930924 DOI: 10.1186/1475-2859-13-13] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2013] [Accepted: 01/17/2014] [Indexed: 11/17/2022] Open
Abstract
Background Pseudoalteromonas species are a group of marine gammaproteobacteria frequently found in deep-sea sediments, which may play important roles in deep-sea sediment ecosystem. Although genome sequence analysis of Pseudoalteromonas has revealed some specific features associated with adaptation to the extreme deep-sea environment, it is still difficult to study how Pseudoalteromonas adapt to the deep-sea environment due to the lack of a genetic manipulation system. The aim of this study is to develop a genetic system in the deep-sea sedimentary bacterium Pseudoalteromonas sp. SM9913, making it possible to perform gene mutation by homologous recombination. Results The sensitivity of Pseudoalteromonas sp. SM9913 to antibiotic was investigated and the erythromycin resistance gene was chosen as the selective marker. A shuttle vector pOriT-4Em was constructed and transferred into Pseudoalteromonas sp. SM9913 through intergeneric conjugation with an efficiency of 1.8 × 10-3, which is high enough to perform the gene knockout assay. A suicide vector pMT was constructed using pOriT-4Em as the bone vector and sacB gene as the counterselective marker. The epsT gene encoding the UDP-glucose lipid carrier transferase was selected as the target gene for inactivation by in-frame deletion. The epsT was in-frame deleted using a two-step integration–segregation strategy after transferring the suicide vector pMT into Pseudoalteromonas sp. SM9913. The ΔepsT mutant showed approximately 73% decrease in the yield of exopolysaccharides, indicating that epsT is an important gene involved in the EPS production of SM9913. Conclusions A conjugal transfer system was constructed in Pseudoalteromonas sp. SM9913 with a wide temperature range for selection and a high transfer efficiency, which will lay the foundation of genetic manipulation in this strain. The epsT gene of SM9913 was successfully deleted with no selective marker left in the chromosome of the host, which thus make it possible to knock out other genes in the same host. The construction of a gene knockout system for Pseudoalteromonas sp. SM9913 will contribute to the understanding of the molecular mechanism of how Pseudoalteromonas adapt to the deep-sea environment.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | | | | | | | | | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China.
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Ran LY, Su HN, Zhou MY, Wang L, Chen XL, Xie BB, Song XY, Shi M, Qin QL, Pang X, Zhou BC, Zhang YZ, Zhang XY. Characterization of a novel subtilisin-like protease myroicolsin from deep sea bacterium Myroides profundi D25 and molecular insight into its collagenolytic mechanism. J Biol Chem 2014; 289:6041-53. [PMID: 24429289 DOI: 10.1074/jbc.m113.513861] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Collagen is an insoluble protein that widely distributes in the extracellular matrix of marine animals. Collagen degradation is an important step in the marine nitrogen cycle. However, the mechanism of marine collagen degradation is still largely unknown. Here, a novel subtilisin-like collagenolytic protease, myroicolsin, which is secreted by the deep sea bacterium Myroides profundi D25, was purified and characterized, and its collagenolytic mechanism was studied. Myroicolsin displays low identity (<30%) to previously characterized subtilisin-like proteases, and it contains a novel domain structure. Protein truncation indicated that the Pro secretion system C-terminal sorting domain in the precursor protein is involved in the cleavage of the N-propeptide, and the linker is required for protein folding during myroicolsin maturation. The C-terminal β-jelly roll domain did not bind insoluble collagen fiber, suggesting that myroicolsin may degrade collagen without the assistance of a collagen-binding domain. Myroicolsin had broad specificity for various collagens, especially fish-insoluble collagen. The favored residue at the P1 site was basic arginine. Scanning electron microscopy and atomic force microscopy, together with biochemical analyses, confirmed that collagen fiber degradation by myroicolsin begins with the hydrolysis of proteoglycans and telopeptides in collagen fibers and fibrils. Myroicolsin showed strikingly different cleavage patterns between native and denatured collagens. A collagen degradation model of myroicolsin was proposed based on our results. Our study provides molecular insight into the collagen degradation mechanism and structural characterization of a subtilisin-like collagenolytic protease secreted by a deep sea bacterium, shedding light on the degradation mechanism of deep sea sedimentary organic nitrogen.
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Affiliation(s)
- Li-Yuan Ran
- From the State Key Laboratory of Microbial Technology
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Ran LY, Su HN, Zhao GY, Gao X, Zhou MY, Wang P, Zhao HL, Xie BB, Zhang XY, Chen XL, Zhou BC, Zhang YZ. Structural and mechanistic insights into collagen degradation by a bacterial collagenolytic serine protease in the subtilisin family. Mol Microbiol 2013; 90:997-1010. [DOI: 10.1111/mmi.12412] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/22/2013] [Indexed: 01/22/2023]
Affiliation(s)
- Li-Yuan Ran
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Hai-Nan Su
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Guo-Yan Zhao
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Xiang Gao
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Ming-Yang Zhou
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Peng Wang
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Hui-Lin Zhao
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Bin-Bin Xie
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Xi-Ying Zhang
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Xiu-Lan Chen
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Bai-Cheng Zhou
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
| | - Yu-Zhong Zhang
- State Key Laboratory of Microbial Technology; Shandong University; Jinan 250100 China
- Marine Biotechnology Research Center; Shandong University; Jinan 250100 China
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Gao X, Wei TD, Zhang N, Xie BB, Su HN, Zhang XY, Chen XL, Zhou BC, Wang ZX, Wu JW, Zhang YZ. Molecular insights into the terminal energy acceptor in cyanobacterial phycobilisome. Mol Microbiol 2012; 85:907-15. [PMID: 22758351 DOI: 10.1111/j.1365-2958.2012.08152.x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The linker protein L(CM) (ApcE) is postulated as the major component of the phycobilisome terminal energy acceptor (TEA) transferring excitation energy from the phycobilisome to photosystem II. L(CM) is the only phycobilin-attached linker protein in the cyanobacterial phycobilisome through auto-chromophorylation. However, the underlying mechanism for the auto-chromophorylation of L(CM) and the detailed molecular architecture of TEA is still unclear. Here, we demonstrate that the N-terminal phycobiliprotein-like domain of L(CM) (Pfam00502, LP502) can specifically recognize phycocyanobilin (PCB) by itself. Biochemical assays indicated that PCB binds into the same pocket in LP502 as that in the allophycocyanin α-subunit and that Ser152 and Asp155 play a vital role in LP502 auto-chromophorylation. By carefully conducting computational simulations, we arrived at a rational model of the PCB-LP502 complex structure that was supported by extensive mutational studies. In the PCB-LP502 complex, PCB binds into a deep pocket of LP502 with a distorted conformation, and Ser152 and Asp155 form several hydrogen bonds to PCB fixing the PCB Ring A and Ring D. Finally, based on our results, the dipoles and dipole-dipole interactions in TEA are analysed and a molecular structure for TEA is proposed, which gives new insights into the energy transformation mechanism of cyanobacterial phycobilisome.
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Affiliation(s)
- Xiang Gao
- State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, China
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Gao X, Zhang N, Wei TD, Su HN, Xie BB, Dong CC, Zhang XY, Chen XL, Zhou BC, Wang ZX, Wu JW, Zhang YZ. Crystal structure of the N-terminal domain of linker LR and the assembly of cyanobacterial phycobilisome rods. Mol Microbiol 2011; 82:698-705. [DOI: 10.1111/j.1365-2958.2011.07844.x] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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Su HN, Xie BB, Zhang XY, Zhou BC, Zhang YZ. The supramolecular architecture, function, and regulation of thylakoid membranes in red algae: an overview. Photosynth Res 2010; 106:73-87. [PMID: 20521115 DOI: 10.1007/s11120-010-9560-x] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2009] [Accepted: 05/10/2010] [Indexed: 05/29/2023]
Abstract
Red algae are a group of eukaryotic photosynthetic organisms. Phycobilisomes (PBSs), which are composed of various types of phycobiliproteins and linker polypeptides, are the main light-harvesting antennae in red algae, as in cyanobacteria. Two morphological types of PBSs, hemispherical- and hemidiscoidal-shaped, are found in different red algae species. PBSs harvest solar energy and efficiently transfer it to photosystem II (PS II) and finally to photosystem I (PS I). The PS I of red algae uses light-harvesting complex of PS I (LHC I) as a light-harvesting antennae, which is phylogenetically related to the LHC I found in higher plants. PBSs, PS II, and PS I are all distributed throughout the entire thylakoid membrane, a pattern that is different from the one found in higher plants. Photosynthesis processes, especially those of the light reactions, are carried out by the supramolecular complexes located in/on the thylakoid membranes. Here, the supramolecular architecture, function and regulation of thylakoid membranes in red algal are reviewed.
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Affiliation(s)
- Hai-Nan Su
- The State Key Lab of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Jinan 250100, People's Republic of China
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Zhang FC, Zhang F, Su HN, Li H, Zhang Y, Hu J. Mechanical manipulation assisted self-assembly to achieve defect repair and guided epitaxial growth of individual peptide nanofilaments. ACS Nano 2010; 4:5791-5796. [PMID: 20839881 DOI: 10.1021/nn101541m] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
We have succeeded in the production of defect-free and spatially organized individual one-dimensional peptide nanofilaments by real-time control of the self-assembly process on a solid substrate. Using a unique mechanical manipulation method based on atomic force microscopy, we are able to introduce mechanical stimuli to generate active ends at designated positions on an existing peptide nanofilament previously formed. By doing so, defects in the filament were removed, and self-repairing occurred when the active ends extended along the direction of the supporting lattice, resulting in the closure of the broken filament. Furthermore, new active ends of the nanofilaments can be specifically generated to guide the self-assembly of new filaments at designated positions with selected orientations. The mechanism of defect repair and guided epitaxial growth is also discussed.
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Affiliation(s)
- Fu-Chun Zhang
- Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
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