Anaerobic thiosulfate oxidation by the Roseobacter group is prevalent in marine biofilms
暂无分享,去创建一个
Shougang Wang | W. Ding | Weipeng Zhang | Hui-Hui Fu | Shen Fan | Meng Wang | Yong-Xin Li | Xiaoyan Su | Han Cui | Peiyan Cai | Yu-Zhong Zhang | Jie Lu | Yi Shu | Peng Qin | Yongming Wang | Yuzhong Zhang
[1] Huan Wang,et al. TCA cycle enhancement and uptake of monomeric substrates support growth of marine Roseobacter at low temperature , 2022, Communications Biology.
[2] J. Pachón,et al. iTRAQ-Based Quantitative Proteomic Analysis of Acinetobacter baumannii under Hypoxia and Normoxia Reveals the Role of OmpW as a Virulence Factor , 2022, Microbiology spectrum.
[3] M. H. Wong,et al. Active maintenance of proton motive force mediates starvation-induced bacterial antibiotic tolerance in Escherichia coli , 2021, Communications Biology.
[4] Y. Boucher,et al. Roseobacters in a Sea of Poly- and Paraphyly: Whole Genome-Based Taxonomy of the Family Rhodobacteraceae and the Proposal for the Split of the “Roseobacter Clade” Into a Novel Family, Roseobacteraceae fam. nov. , 2021, Frontiers in Microbiology.
[5] A. Frolova,et al. Niche partitioning of bacterial communities along the stratified water column in the Black Sea , 2021, MicrobiologyOpen.
[6] D. Canfield,et al. Sulfur cycling in oceanic oxygen minimum zones , 2021, Limnology and Oceanography.
[7] P. Qian,et al. Expanding our understanding of marine viral diversity through metagenomic analyses of biofilms , 2021, Marine Life Science & Technology.
[8] Qian Wang,et al. Selection of antibiotic resistance genes on biodegradable and non-biodegradable microplastics. , 2020, Journal of hazardous materials.
[9] M. Cannat,et al. Microbial ecology of the newly discovered serpentinite-hosted Old City hydrothermal field (southwest Indian ridge) , 2020, The ISME Journal.
[10] A. Stams,et al. The bacterial sulfur cycle in expanding dysoxic and euxinic marine waters , 2020, Environmental microbiology.
[11] Samir R. Damare,et al. Diversity of culturable Sulphur-oxidising bacteria in the oxygen minimum zones of the northern Indian Ocean , 2020 .
[12] T. Ferdelman,et al. Kelp deposition changes mineralization pathways and microbial communities in a sandy beach , 2020, Limnology and Oceanography.
[13] Jing Zhang,et al. A novel bacterial thiosulfate oxidation pathway provides a new clue about the formation of zero-valent sulfur in deep sea , 2020, The ISME Journal.
[14] N. Nomura,et al. Biofilms: hot spots of horizontal gene transfer (HGT) in aquatic environments, with a focus on a new HGT mechanism , 2020, FEMS microbiology ecology.
[15] Binbin Zhang,et al. Metagenomic Resolution of Functional Diversity in Copper Surface-Associated Marine Biofilms , 2019, Front. Microbiol..
[16] Donovan H Parks,et al. GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database , 2019, Bioinform..
[17] E. Torrents,et al. Optimal environmental and culture conditions allow the in vitro coexistence of Pseudomonas aeruginosa and Staphylococcus aureus in stable biofilms , 2019, Scientific Reports.
[18] Luis Pedro Coelho,et al. Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome , 2019, Cell.
[19] L. Procópio. The role of biofilms in the corrosion of steel in marine environments , 2019, World Journal of Microbiology and Biotechnology.
[20] S. Wuertz,et al. Bacteria and archaea on Earth and their abundance in biofilms , 2019, Nature Reviews Microbiology.
[21] S. Bougouffa,et al. Marine biofilms constitute a bank of hidden microbial diversity and functional potential , 2019, Nature Communications.
[22] A. Phillippy,et al. High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries , 2018, Nature Communications.
[23] Jin Sun,et al. Gut Microbial Divergence between Two Populations of the Hadal Amphipod Hirondellea gigas , 2018, Applied and Environmental Microbiology.
[24] W. Brazelton,et al. Deeply-sourced formate fuels sulfate reducers but not methanogens at Lost City hydrothermal field , 2018, Scientific Reports.
[25] M. Simon,et al. Composition of Total and Cell-Proliferating Bacterioplankton Community in Early Summer in the North Sea – Roseobacters Are the Most Active Component , 2017, Front. Microbiol..
[26] J. Banfield,et al. dRep: a tool for fast and accurate genomic comparisons that enables improved genome recovery from metagenomes through de-replication , 2017, The ISME Journal.
[27] J. Imlay,et al. Escherichia coli cytochrome c peroxidase is a respiratory oxidase that enables the use of hydrogen peroxide as a terminal electron acceptor , 2017, Proceedings of the National Academy of Sciences.
[28] S. Golden,et al. Type 4 pili are dispensable for biofilm development in the cyanobacterium Synechococcus elongatus , 2017, Environmental microbiology.
[29] Jan P. Meier-Kolthoff,et al. Phylogenomics of Rhodobacteraceae reveals evolutionary adaptation to marine and non-marine habitats , 2017, The ISME Journal.
[30] E. Hada,et al. Thiomicrospira hydrogeniphila sp. nov., an aerobic, hydrogen- and sulfur-oxidizing chemolithoautotroph isolated from a seawater tank containing a block of beef tallow. , 2016, International journal of systematic and evolutionary microbiology.
[31] J. Heilmann,et al. Global occurrence and heterogeneity of the Roseobacter-clade species Ruegeria mobilis , 2016, The ISME Journal.
[32] Hing-Fung Ting,et al. MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices. , 2016, Methods.
[33] Anders Krogh,et al. Fast and sensitive taxonomic classification for metagenomics with Kaiju , 2016, Nature Communications.
[34] M. Göker,et al. Biofilm plasmids with a rhamnose operon are widely distributed determinants of the ‘swim-or-stick' lifestyle in roseobacters , 2016, The ISME Journal.
[35] D. Nelson,et al. Contributions of tropodithietic acid and biofilm formation to the probiotic activity of Phaeobacter inhibens , 2016, BMC Microbiology.
[36] H. Cao,et al. Synchronized dynamics of bacterial niche-specific functions during biofilm development in a cold seep brine pool. , 2015, Environmental microbiology.
[37] Natàlia Hurtós,et al. The Kallisti Limnes, carbon dioxide-accumulating subsea pools , 2015, Scientific Reports.
[38] L. Polerecky,et al. Assessment of the stoichiometry and efficiency of CO2 fixation coupled to reduced sulfur oxidation , 2015, Front. Microbiol..
[39] Chao Xie,et al. Fast and sensitive protein alignment using DIAMOND , 2014, Nature Methods.
[40] F. Yildiz,et al. The Type II Secretion System Delivers Matrix Proteins for Biofilm Formation by Vibrio cholerae , 2014, Journal of bacteriology.
[41] C. Arnosti,et al. Composition and enzymatic function of particle-associated and free-living bacteria: a coastal/offshore comparison , 2014, The ISME Journal.
[42] K. Siddiqui,et al. Influence of Calcium in Extracellular DNA Mediated Bacterial Aggregation and Biofilm Formation , 2014, PloS one.
[43] Brian Bushnell,et al. BBMap: A Fast, Accurate, Splice-Aware Aligner , 2014 .
[44] J. Huber,et al. Phylogenetic diversity and functional gene patterns of sulfur-oxidizing subseafloor Epsilonproteobacteria in diffuse hydrothermal vent fluids , 2013, Front. Microbiol..
[45] B. Hall,et al. Building phylogenetic trees from molecular data with MEGA. , 2013, Molecular biology and evolution.
[46] Xiao Zhang,et al. PotD protein stimulates biofilm formation by Escherichia coli , 2013, Biotechnology Letters.
[47] T. Schmidt,et al. Shallow breathing: bacterial life at low O2 , 2013, Nature Reviews Microbiology.
[48] R. Morris,et al. Isolation of an aerobic sulfur oxidizer from the SUP05/Arctic96BD-19 clade , 2012, The ISME Journal.
[49] R. Amann,et al. Roseobacter clade bacteria are abundant in coastal sediments and encode a novel combination of sulfur oxidation genes , 2012, The ISME Journal.
[50] Alexandra J. Scott,et al. Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2 , 2012, Bioinform..
[51] Steven L Salzberg,et al. Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.
[52] Xiaolin Tian,et al. Quorum Sensing and Bacterial Social Interactions in Biofilms , 2012, Sensors.
[53] Mukesh Jain,et al. NGS QC Toolkit: A Toolkit for Quality Control of Next Generation Sequencing Data , 2012, PloS one.
[54] C. Fuqua,et al. Agrobacterium tumefaciens ExoR represses succinoglycan biosynthesis and is required for biofilm formation and motility , 2010, Microbiology.
[55] Miriam L. Land,et al. Trace: Tennessee Research and Creative Exchange Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification Recommended Citation Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification , 2022 .
[56] Gonçalo R. Abecasis,et al. The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..
[57] M. Mann,et al. MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification , 2008, Nature Biotechnology.
[58] S. Okabe,et al. Escherichia coli Harboring a Natural IncF Conjugative F Plasmid Develops Complex Mature Biofilms by Stimulating Synthesis of Colanic Acid and Curli , 2008, Journal of bacteriology.
[59] C. Cavanaugh,et al. CO2 Uptake and Fixation by Endosymbiotic Chemoautotrophs from the Bivalve Solemya velum , 2006, Applied and Environmental Microbiology.
[60] H. Biebl,et al. Environmental biology of the marine Roseobacter lineage. , 2006, Annual review of microbiology.
[61] C. Friedrich,et al. Prokaryotic sulfur oxidation. , 2005, Current opinion in microbiology.
[62] B. Tebo,et al. Diverse Mn(II)-Oxidizing Bacteria Isolated from Submarine Basalts at Loihi Seamount , 2005 .
[63] Ian T. Paulsen,et al. Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment , 2004, Nature.
[64] Alok J. Saldanha,et al. Java Treeview - extensible visualization of microarray data , 2004, Bioinform..
[65] S Miyano,et al. Open source clustering software. , 2004, Bioinformatics.
[66] Dean Laslett,et al. ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences. , 2004, Nucleic acids research.
[67] D. Sorokin. Oxidation of Inorganic Sulfur Compounds by Obligately Organotrophic Bacteria , 2003, Microbiology.
[68] J. Imhoff,et al. Phylogeny and distribution of the soxB gene among thiosulfate-oxidizing bacteria. , 2001, FEMS microbiology letters.
[69] R. Kraft,et al. Novel Genes Coding for Lithotrophic Sulfur Oxidation of Paracoccus pantotrophus GB17 , 2000, Journal of bacteriology.
[70] C. Prigent-Combaret,et al. Developmental pathway for biofilm formation in curli-producing Escherichia coli strains: role of flagella, curli and colanic acid. , 2000, Environmental microbiology.
[71] G. Muyzer,et al. Diversity of Thiosulfate-Oxidizing Bacteria from Marine Sediments and Hydrothermal Vents , 2000, Applied and Environmental Microbiology.
[72] N. Sauvonnet,et al. Pilus formation and protein secretion by the same machinery in Escherichia coli , 2000, The EMBO journal.
[73] M. Moran,et al. Transformation of Sulfur Compounds by an Abundant Lineage of Marine Bacteria in the α-Subclass of the ClassProteobacteria , 1999, Applied and Environmental Microbiology.
[74] J. Imhoff,et al. Tetrathionate production by sulfur oxidizing bacteria and the role of tetrathionate in the sulfur cycle of Baltic Sea sediments , 1999 .
[75] B. Jørgensen,et al. A Thiosulfate Shunt in the Sulfur Cycle of Marine Sediments , 1990, Science.
[76] C. Cavanaugh. Symbiotic chemoautotrophic bacteria in marine invertebrates from sulphide-rich habitats , 1983, Nature.
[77] J. H. Tuttle,et al. Thiosulfate stimulation of microbial dark assimilation of carbon dioxide in shallow marine waters , 1977, Microbial Ecology.
[78] W. Whitman. Bergey's Manual of Systematics of Archaea and Bacteria , 2016 .
[79] J. Sólyom,et al. Structure and dynamics , 2010 .
[80] C. Dahl,et al. Microbial sulfur metabolism , 2008 .
[81] P. Vandamme,et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. , 2007, International journal of systematic and evolutionary microbiology.
[82] F. Ceriotti,et al. IFCC primary reference procedures for the measurement of catalytic activity concentrations of enzymes at 37°C: International Federation of Clinical Chemistry and Laboratory Medicine (IFCC): Scientific Division, Committee on Reference Systems for Enzymes (C-RSE): Part 8. Reference procedure for the m , 2006 .