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Liu T, Da H, Zhang S, Wang W, Pan H, Yan L. Magnetotactic bacteria in vertical sediments of volcanic lakes in NE China appear Alphaproteobacteria dominated distribution regardless of waterbody types. World J Microbiol Biotechnol 2022; 38:76. [PMID: 35304669 DOI: 10.1007/s11274-022-03262-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2021] [Accepted: 03/03/2022] [Indexed: 10/18/2022]
Abstract
Magnetotactic bacteria (MTB) distribute widely in sediment habitats and play critical roles in iron cycling. Here, the vertical distribution of morphology and phylogenetic diversity of MTB in sediments (0-15 cm) of three lakes (open waterbody, Bailonghu, BL; semi-enclosed waterbody, Yaoquanhu, YQ; enclosed waterbody, Yueyapao, YY) in Wudalianchi volcanic field (China) were investigated. TEM showed the appearance of coccoid, rod-shaped, oval-shaped, and arc-shaped MTB. With the increase of BL sediment depth, the number of rod-shaped and spherical MTB decreased and increased, respectively. High-throughput sequencing indicated that Alphaproteobacterial MTB dominantly thrived in these lakes regardless of waterbody types. In BL and YY, the dominant genus was Magnetospirillum (44.99-70.80%) which showed a peak in the middle layer. In YQ, the genus Magnetospira was dominant in the upper (52.36%) and middle (66.56%) layer and Magnetococcus (69.63%) existed dominantly in the bottom layer. The vertical distribution of MTB in sediments of these lakes decreased first and then increased. Functional analysis showed that ABC transporter and two-component system of MTB changed significantly with the sediment depth. RDA indicated that the distribution of Magnetospirillum was positively associated with sulfide, pH, and TC. These findings will expand our knowledge of the vertical distribution of MTB in volcanic lakes.
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Affiliation(s)
- Tao Liu
- Heilongjiang Provincial Key Laboratory of Environmental Microbiology and Recycling of Argo-Waste in Cold Region, College of Life Science and Biotechnology, Heilongjiang Bayi Agricultural University, Daqing, 163319, People's Republic of China
| | - Huiyun Da
- Heilongjiang Provincial Key Laboratory of Environmental Microbiology and Recycling of Argo-Waste in Cold Region, College of Life Science and Biotechnology, Heilongjiang Bayi Agricultural University, Daqing, 163319, People's Republic of China
| | - Shuang Zhang
- Heilongjiang Provincial Key Laboratory of Environmental Microbiology and Recycling of Argo-Waste in Cold Region, College of Life Science and Biotechnology, Heilongjiang Bayi Agricultural University, Daqing, 163319, People's Republic of China
| | - Weidong Wang
- Heilongjiang Provincial Key Laboratory of Environmental Microbiology and Recycling of Argo-Waste in Cold Region, College of Life Science and Biotechnology, Heilongjiang Bayi Agricultural University, Daqing, 163319, People's Republic of China.,Engineering Research Center of Processing and Utilization of Grain By-Products, Ministry of Education, Daqing, 163319, People's Republic of China
| | - Hong Pan
- Institute of Natural Resources and Ecology, Heilongjiang Academy of Science, Harbin, 150090, People's Republic of China
| | - Lei Yan
- Heilongjiang Provincial Key Laboratory of Environmental Microbiology and Recycling of Argo-Waste in Cold Region, College of Life Science and Biotechnology, Heilongjiang Bayi Agricultural University, Daqing, 163319, People's Republic of China. .,Engineering Research Center of Processing and Utilization of Grain By-Products, Ministry of Education, Daqing, 163319, People's Republic of China.
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Yan L, Xing W. Methods to Study Magnetotactic Bacteria and Magnetosomes. J Microbiol Methods 2018. [DOI: 10.1016/bs.mim.2018.05.003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
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Bacterial community structure and novel species of magnetotactic bacteria in sediments from a seamount in the Mariana volcanic arc. Sci Rep 2017; 7:17964. [PMID: 29269894 PMCID: PMC5740136 DOI: 10.1038/s41598-017-17445-4] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2017] [Accepted: 11/27/2017] [Indexed: 12/15/2022] Open
Abstract
Seamounts are undersea mountains rising abruptly from the sea floor and interacting dynamically with underwater currents. They represent unique biological habitats with various microbial community structures. Certain seamount bacteria form conspicuous extracellular iron oxide structures, including encrusted stalks, flattened bifurcating tubes, and filamentous sheaths. To extend our knowledge of seamount ecosystems, we performed an integrated study on population structure and the occurrence of magnetotactic bacteria (MTB) that synthesize intracellular iron oxide nanocrystals in sediments of a seamount in the Mariana volcanic arc. We found Proteobacteria dominant at 13 of 14 stations, but ranked second in abundance to members of the phylum Firmicutes at the deep-water station located on a steep slope facing the Mariana-Yap Trench. Live MTB dwell in biogenic sediments from all 14 stations ranging in depth from 238 to 2,023 m. Some magnetotactic cocci possess the most complex flagellar apparatus yet reported; 19 flagella are arranged in a 3:4:5:4:3 array within a flagellar bundle. Phylogenetic analysis of 16S rRNA gene sequences identified 16 novel species of MTB specific to this seamount. Together the results obtained indicate that geographic properties of the seamount stations are important in shaping the bacterial community structure and the MTB composition.
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Lin W, Pan Y, Bazylinski DA. Diversity and ecology of and biomineralization by magnetotactic bacteria. ENVIRONMENTAL MICROBIOLOGY REPORTS 2017; 9:345-356. [PMID: 28557300 DOI: 10.1111/1758-2229.12550] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2017] [Revised: 05/20/2017] [Accepted: 05/21/2017] [Indexed: 06/07/2023]
Abstract
Magnetotactic bacteria (MTB) biomineralize intracellular, membrane-bounded crystals of magnetite (Fe3 O4 ) and/or greigite (Fe3 S4 ) called magnetosomes. MTB play important roles in the geochemical cycling of iron, sulfur, nitrogen and carbon. Significantly, they also represent an intriguing model system not just for the study of microbial biomineralization but also for magnetoreception, prokaryotic organelle formation and microbial biogeography. Here we review current knowledge on the ecology of and biomineralization by MTB, with an emphasis on more recent reports of unexpected ecological and phylogenetic findings regarding MTB. In this study, we conducted a search of public metagenomic databases and identified six novel magnetosome gene cluster-containing genomic fragments affiliated with the Deltaproteobacteria and Gammaproteobacteria classes of the Proteobacteria phylum, the Nitrospirae phylum and the Planctomycetes phylum from the deep subseafloor, marine oxygen minimum zone, groundwater biofilm and estuary sediment, thereby extending our knowledge on the diversity and distribution of MTB as well deriving important information as to their ecophysiology. We point out that the increasing availability of sequence data will facilitate researchers to systematically explore the ecology and biomineralization of MTB even further.
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Affiliation(s)
- Wei Lin
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Chinese Academy of Sciences, Beijing, 100029, China
- France-China Bio-Mineralization and Nano-Structures Laboratory, Chinese Academy of Sciences, Beijing, 100029, China
| | - Yongxin Pan
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Chinese Academy of Sciences, Beijing, 100029, China
- France-China Bio-Mineralization and Nano-Structures Laboratory, Chinese Academy of Sciences, Beijing, 100029, China
- College of Earth Sciences, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Dennis A Bazylinski
- School of Life Sciences, University of Nevada at Las Vegas, Las Vegas, NV, 89154-4004, USA
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Abreu F, Carolina A, Araujo V, Leão P, Silva KT, Carvalho FMD, Cunha ODL, Almeida LG, Geurink C, Farina M, Rodelli D, Jovane L, Pellizari VH, Vasconcelos ATD, Bazylinski DA, Lins U. Culture‐independent characterization of novel psychrophilic magnetotactic cocci from Antarctic marine sediments. Environ Microbiol 2016; 18:4426-4441. [DOI: 10.1111/1462-2920.13388] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2016] [Accepted: 05/20/2016] [Indexed: 11/29/2022]
Affiliation(s)
- Fernanda Abreu
- Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro21941‐902Rio de Janeiro RJ Brazil
| | | | - V. Araujo
- Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro21941‐902Rio de Janeiro RJ Brazil
| | - Pedro Leão
- Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro21941‐902Rio de Janeiro RJ Brazil
| | - Karen Tavares Silva
- Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro21941‐902Rio de Janeiro RJ Brazil
| | | | - Oberdan de Lima Cunha
- Laboratório de Bioinformática, Laboratório Nacional de Computação Científica25651‐070Petrópolis RJ Brazil
| | - Luiz Gonzaga Almeida
- Laboratório de Bioinformática, Laboratório Nacional de Computação Científica25651‐070Petrópolis RJ Brazil
| | - Corey Geurink
- School of Life SciencesUniversity of Nevada at Las VegasLas Vegas NV89154‐4004 USA
| | - Marcos Farina
- Instituto de Ciências Biomédicas, Universidade Federal do Rio de Janeiro21941‐902Rio de Janeiro RJ Brazil
| | - Daniel Rodelli
- Instituto Oceanográfico, Universidade de São Paulo05508‐900São Paulo SP Brazil
| | - Luigi Jovane
- Instituto Oceanográfico, Universidade de São Paulo05508‐900São Paulo SP Brazil
| | - Vivian H. Pellizari
- Instituto Oceanográfico, Universidade de São Paulo05508‐900São Paulo SP Brazil
| | - Ana Tereza de Vasconcelos
- Laboratório de Bioinformática, Laboratório Nacional de Computação Científica25651‐070Petrópolis RJ Brazil
| | - Dennis A. Bazylinski
- School of Life SciencesUniversity of Nevada at Las VegasLas Vegas NV89154‐4004 USA
| | - Ulysses Lins
- Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro21941‐902Rio de Janeiro RJ Brazil
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Dong Y, Li J, Zhang W, Zhang W, Zhao Y, Xiao T, Wu LF, Pan H. The detection of magnetotactic bacteria in deep sea sediments from the east Pacific Manganese Nodule Province. ENVIRONMENTAL MICROBIOLOGY REPORTS 2016; 8:239-249. [PMID: 26742990 DOI: 10.1111/1758-2229.12374] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2015] [Accepted: 12/21/2015] [Indexed: 06/05/2023]
Abstract
Magnetotactic bacteria (MTB) are distributed ubiquitously in sediments from coastal environments to the deep sea. The Pacific Manganese Nodule Province contains numerous polymetallic nodules mainly composed of manganese, iron, cobalt, copper and nickel. In the present study we used Illumina MiSeq sequencing technology to assess the communities of putative MTB in deep sea surface sediments at nine stations in the east Pacific Manganese Nodule Province. A total of 402 sequence reads from MTB were classified into six operational taxonomic units (OTUs). Among these, OTU113 and OTU759 were affiliated with the genus Magnetospira, OTU2224 and OTU2794 were affiliated with the genus Magnetococcus and Magnetovibrio, respectively, OTU3017 had no known genus affiliation, and OTU2556 was most similar to Candidatus Magnetananas. Interestingly, OTU759 was widely distributed, occurring at all study sites. Magnetism measurements revealed that all sediments were dominated by low coercivity, non-interacting single domain magnetic minerals. Transmission electron microscopy confirmed that the magnetic minerals were magnetosomes. Our data suggest that diverse putative MTB are widely distributed in deep sea surface sediments from the east Pacific Manganese Nodule Province.
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Affiliation(s)
- Yi Dong
- Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
- Laboratory of Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, China
- Laboratoire International Associé de la Bio-Minéralisation et Nano-Structures (LIA-BioMNSL), CNRS, F-13402, Marseille, France
| | - Jinhua Li
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Chinese Academy of Sciences, Beijing, 100029, China
- Laboratoire International Associé de la Bio-Minéralisation et Nano-Structures (LIA-BioMNSL), CNRS, F-13402, Marseille, France
| | - Wuchang Zhang
- Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
- Laboratory of Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, China
| | - Wenyan Zhang
- Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
- Laboratory of Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, China
- Laboratoire International Associé de la Bio-Minéralisation et Nano-Structures (LIA-BioMNSL), CNRS, F-13402, Marseille, France
| | - Yuan Zhao
- Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
- Laboratory of Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, China
- Laboratoire International Associé de la Bio-Minéralisation et Nano-Structures (LIA-BioMNSL), CNRS, F-13402, Marseille, France
| | - Tian Xiao
- Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
- Laboratory of Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, China
- Laboratoire International Associé de la Bio-Minéralisation et Nano-Structures (LIA-BioMNSL), CNRS, F-13402, Marseille, France
| | - Long-Fei Wu
- Laboratoire International Associé de la Bio-Minéralisation et Nano-Structures (LIA-BioMNSL), CNRS, F-13402, Marseille, France
- Laboratoire de Chimie Bactérienne, UMR7283, Aix-Marseille Université, Institut de Microbiologie de la Méditerranée, CNRS, F-13402, Marseille, France
| | - Hongmiao Pan
- Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
- Laboratory of Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266071, China
- Laboratoire International Associé de la Bio-Minéralisation et Nano-Structures (LIA-BioMNSL), CNRS, F-13402, Marseille, France
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Pradel N, Cayol JL, Fardeau ML, Karray F, Sayadi S, Alazard D, Ollivier B. Analysis of a population of magnetotactic bacteria of the Gulf of Gabès, Tunisia. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:4046-4053. [PMID: 25772882 DOI: 10.1007/s11356-015-4314-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2014] [Accepted: 03/02/2015] [Indexed: 06/04/2023]
Abstract
The occurrence of magnetotactic bacteria (MTB) on a Tunisian marine coast exposed to heavy metals pollution (Sfax, Gulf of Gabès, Mediterranean Sea) was investigated. The MTB population of this Southern Mediterranean coast was compared to the MTB populations previously investigated on the French Northern Mediterranean coast. A dominant MTB coccus morphotype was observed by microscopy analysis. By pyrosequencing technology, the analysis of the 16S ribosomal RNA (rDNA) revealed as much as 33 operational taxonomic sequence units (OTUs) close to sequences of MTB accessible in the databases. The majority were close to MTB sequences of the "Med group" of α-Proteobacteria. Among them, a dominant OTU_001 (99 % of the MTB sequences) affiliated within the Magnetococcales order was highlighted. Investigating the capacities of this novel bacterium to be used in bioremediation and/or depollution processes could be envisaged.
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Affiliation(s)
- Nathalie Pradel
- Aix Marseille Université, IRD, Université de Toulon, CNRS, MIO UM 110, 13288, Marseille, France.
- Laboratoire Mixte International Contaminants et Ecosystèmes Marins Sud Méditerranéens (LMI COSYS-Med), Marseille, France.
| | - Jean-Luc Cayol
- Aix Marseille Université, IRD, Université de Toulon, CNRS, MIO UM 110, 13288, Marseille, France
| | - Marie-Laure Fardeau
- Aix Marseille Université, IRD, Université de Toulon, CNRS, MIO UM 110, 13288, Marseille, France
| | - Fatma Karray
- Laboratory of Environmental Bioprocesses, Biotechnology Center of Sfax, Sfax, 3018, Tunisia
- Laboratoire Mixte International Contaminants et Ecosystèmes Marins Sud Méditerranéens (LMI COSYS-Med), Marseille, France
| | - Sami Sayadi
- Laboratory of Environmental Bioprocesses, Biotechnology Center of Sfax, Sfax, 3018, Tunisia
- Laboratoire Mixte International Contaminants et Ecosystèmes Marins Sud Méditerranéens (LMI COSYS-Med), Marseille, France
| | - Didier Alazard
- Aix Marseille Université, IRD, Université de Toulon, CNRS, MIO UM 110, 13288, Marseille, France
| | - Bernard Ollivier
- Aix Marseille Université, IRD, Université de Toulon, CNRS, MIO UM 110, 13288, Marseille, France
- Laboratoire Mixte International Contaminants et Ecosystèmes Marins Sud Méditerranéens (LMI COSYS-Med), Marseille, France
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Pradel N, Fuduche M, Ollivier B. Magnetotactic bacteria population in a pristine French Atlantic lagoon. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:691-697. [PMID: 26335530 DOI: 10.1007/s11356-015-5322-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2015] [Accepted: 08/25/2015] [Indexed: 06/05/2023]
Abstract
In this study, we report for the first time the presence of magnetotactic bacteria (MTB) on the Northeastern Atlantic coast. Microscopy observations indicated a heterogeneous population of MTB morphotypes. The analysis of the 16S rDNA by pyrosequencing technology revealed four operational taxonomic sequence units affiliated within the Magnetococcales order, class Alphaproteobacteria. One of them was closely related to sequences of MTB from the Tunisian coast, central Mediterranean Sea. This work offers information on anew environmental context and on biogeography of MTB, highlights the putative impact that marine currents may have on MTB distribution on Earth, and underlines the role that pristine or polluted areas may play on the structure of the MTB communites.
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Affiliation(s)
- Nathalie Pradel
- Aix Marseille Université, IRD, Université de Toulon, CNRS/INSU, MIO, UM 110, 13288, Marseille, cedex 09, France.
- Laboratoire Mixte International Contaminants et Ecosystèmes Marins Sud Méditerranéens (LMI COSYS-Med), Marseille, France.
| | - Maxime Fuduche
- Aix Marseille Université, IRD, Université de Toulon, CNRS/INSU, MIO, UM 110, 13288, Marseille, cedex 09, France
| | - Bernard Ollivier
- Aix Marseille Université, IRD, Université de Toulon, CNRS/INSU, MIO, UM 110, 13288, Marseille, cedex 09, France
- Laboratoire Mixte International Contaminants et Ecosystèmes Marins Sud Méditerranéens (LMI COSYS-Med), Marseille, France
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