Genomic Insights into Paucibacter aquatile DH15, a Cyanobactericidal Bacterium, and Comparative Genomics of the Genus Paucibacter

키워드

참고문헌 (80)

1. Novotny A, "DNA metabarcoding highlights cyanobacteria as the main source of primary production in a pelagic food web model", Sci. Adv, 9, pp.eadg1096~ (2023)
2. Svirčev Z, "Global geographical and historical overview of cyanotoxin distribution and cyanobacterial poisonings" (2019), Springer Berlin Heidelberg
3. Rastogi RP, "Bloom dynamics of cyanobacteria and their toxins: environmental health impacts and mitigation strategies", Front. Microbiol, 6, pp.1254~ (2015)
4. Le VV, "Microcystis colony formation: extracellular polymeric substance, associated microorganisms , and its application", Bioresour. Technol, 360, pp.127610~ (2022)
5. Yan X, "Climate warming and cyanobacteria blooms: looks at their relationships from a new perspective", Water Res, 125, pp.449~457 (2017)
6. Sun R, "Microorganisms-based methods for harmful algal blooms control: a review", Bioresour. Technol, 248, pp.12~20 (2018)
7. Nishu S Das, "Nutritional status regulates algicidal activity of Aeromonas sp. L23 against cyanobacteria and green algae", PLoS One, 14, pp.e0213370~ (2019)
8. Lu L, "The algicidal efficacy and the mechanism of Enterobacter sp. EA-1 on Oscillatoria dominating in aquaculture system", Environ. Res, 197, pp.111105~ (2021)
9. Zhang Y, "Transcriptome analysis reveals the algicidal mechanism of Brevibacillus laterosporus against Microcystis aeruginosa", Toxins (Basel), 14, pp.492~ (2022)
10. Luo J, "Isolation and identification of algicidal compound from Streptomyces and algicidal mechanism to Microcystis aeruginosa", PLoS One, 8, pp.e76444~ (2013)
11. Su JF, "Isolation, identification, and algicidal activity of aerobic denitrifying bacterium R11 and its effect on Microcystis aeruginosa", Water Sci. Technol, 73, pp.2600~2607 (2016)
12. Le VV, "Algicide capacity of Paucibacter aquatile DH15 on Microcystis aeruginosa by attachment and non-attachment effects", Environ. Pollut, 302, pp.119079~ (2022)
13. Zeng Y, "A Streptomyces globisporus strain kills Microcystis aeruginosa via cell-to-cell contact", Sci. Total Environ, 769, pp.144489~ (2021)
14. Ahn CY, "Selective control of cyanobacteria by surfactin-containing culture broth of Bacillus subtilis C1", Biotechnol Lett, 25, pp.1137~1142 (2003)
15. Le VV, "The cyanobactericidal bacterium Paucibacter aquatile DH15 caused the decline of Microcystis and aquatic microbial community succession: a mesocosm study", Environ. Pollut, 311, pp.119849~ (2022)
16. Le VV, "Effective control of harmful Microcystis blooms by paucibactin A, a novel macrocyclic tambjamine, isolated from Paucibacter aquatile DH15", J. Clean. Prod, 383, pp.135408~ (2023)
17. Coyne KJ, "Algicidal bacteria: a review of current knowledge and applications to control harmful algal blooms", Front. Microbiol, 13, pp.871177~ (2022)
18. Pal M, "Genomic insight for algicidal activity in Rhizobium strain AQ_MP", Arch. Microbiol, 203, pp.5193~5203 (2021)
19. Rapala J, "Paucibacter toxinivorans gen. nov., sp. nov., a bacterium that degrades cyclic cyanobacterial hepatotoxins microcystins and nodularin", Int. J. Syst. Evol. Microbiol, 55, pp.1563~1568 (2005)
20. Pheng S, "Paucibacter oligotrophus sp. nov., isolated from fresh water, and emended description of the genus Paucibacter", Int. J. Syst. Evol. Microbiol, 67, pp.2231~2235 (2017)
21. Nam YH, "Paucibacter aquatile sp. nov. isolated from freshwater of the Nakdong River, Republic of Korea", Arch. Microbiol, 200, pp.877~882 (2018)
22. Chung EJ, "Draft genome sequence of Paucibacter aquatile CR182 T , a strain with antimicrobial activity isolated from freshwater of Nakdong River in South Korea", Genome Announc, 6, pp.e00194-18~ (2018)
23. Kayani MUR, "Genome-resolved characterization of structure and potential functions of the zebrafish stool microbiome", Front. Cell. Infect. Microbiol, 12, pp.910766~ (2022)
24. Le VV, "Hymenobacter cyanobacteriorum sp. nov., isolated from a freshwater reservoir during the cyanobacterial bloom period", Arch. Microbiol, 204, pp.369~ (2022)
25. Weisburg WG, "16S ribosomal DNA amplification for phylogenetic study", J. Bacteriol, 173, pp.697~703 (1991)
26. Tamura K, "MEGA11: molecular evolutionary genetics analysis version 11", Mol. Biol. Evol, 38, pp.3022~3027 (2021)
27. Walker BJ, "Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement", PLoS One, 9, pp.e112963~ (2014)
28. Li H, "Minimap2: pairwise alignment for nucleotide sequences", Bioinformatics, 34, pp.3094~3100 (2018)
29. Simão FA, "BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs", Bioinformatics, 31, pp.3210~3212 (2015)
30. Aziz RK, "The RAST server: rapid annotations using subsystems technology", BMC Genomics, 9, pp.75~ (2008)
31. Davis JJ, "The PATRIC bioinformatics resource center: expanding data and analysis capabilities", Nucleic Acids Res, 48, pp.D606~D612 (2020)
32. Cantalapiedra CP, "eggNOG-mapper v2: functional annotation, orthology assignments, and domain prediction at the metagenomic scale", Mol. Biol. Evol, 38, pp.5825~5829 (2021)
33. Blin K, "AntiSMASH 5.0: updates to the secondary metabolite genome mining pipeline", Nucleic Acids Res, 47, pp.W81~W87 (2019)
34. Zhang H, "dbCAN2: a meta server for automated carbohydrate-active enzyme annotation", Nucleic Acids Res, 46, pp.W95~W101 (2018)
35. Eren AM, "Community-led, integrated, reproducible multi-omics with anvi’o", Nat. Microbiol, 6, pp.3~6 (2021)
36. Meier-Kolthoff JP, "Genome sequence-based species delimitation with confidence intervals and improved distance functions", BMC Bioinformatics, 14, pp.60~ (2013)
37. Meier-Kolthoff JP, "TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy", Nat. Commun, 10, pp.2182~ (2019)
38. Page AJ, "Roary: rapid large-scale prokaryote pan genome analysis", Bioinformatics, 31, pp.3691~3693 (2015)
39. Kanehisa M, "BlastKOALA and GhostKOALA: KEGG tools for functional characterization of genome and metagenome sequences", J. Mol. Biol, 428, pp.726~731 (2016)
40. Hayashi Sant’Anna F, "Genomic metrics made easy: what to do and where to go in the new era of bacterial taxonomy", Crit. Rev. Microbiol, 45, pp.182~200 (2019)
41. Richter M, "Shifting the genomic gold standard for the prokaryotic species definition", Proc. Natl. Acad. Sci. USA, 106, pp.19126~19131 (2009)
42. Auch AF, "Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison", Standard. Genomic Sci, 2, pp.117~134 (2010)
43. Zhou Q, "Physiological responses of Microcystis aeruginosa to extracellular degradative enzymes and algicidal substance from heterotrophic bacteria", Pol. J. Environ. Stud, 30, pp.2947~2955 (2021)
44. De Maayer P, "Flagella by numbers: comparative genomic analysis of the supernumerary flagellar systems among the Enterobacterales", BMC Genomics, 21, pp.670~ (2020)
45. Meyer N, "Strategies and ecological roles of algicidal bacteria", FEMS Microbiol. Rev, 41, pp.880~899 (2017)
46. Guo Y, "The effects of exogenous amino acids on production of microcystin variants in Microcystis aeruginosa", Aquat. Toxicol, 259, pp.106525~ (2023)
47. Kim W, "Unlocking the mystery of lysine toxicity on Microcystis aeruginosa", J. Hazard. Mater, 448, pp.130932~ (2023)
48. Tian L, "Anticyanobacterial effect of l-lysine on: Microcystis aeruginosa", RSC Adv, 8, pp.21606~21612 (2018)
49. Jürgens UJ, "Cell wall constituents of Microcystis sp. PCC 7806", FEMS Microbiol. Lett, 65, pp.47~51 (1989)
50. Han G, "Insights into the mechanism of cyanobacteria removal by the algicidal fungi Bjerkandera adusta and Trametes versicolor", MicrobiologyOpen, 9, pp.e1042~ (2020)
51. Huang L, "dbCAN-seq: a database of carbohydrate-active enzyme (CAZyme)sequence and annotation", Nucleic Acids Res, 46, pp.D516~D521 (2018)
52. Low KE, "Combinatorial glycomic analyses to direct CAZyme discovery for the tailored degradation of canola meal non-starch dietary polysaccharides", Microorganisms, 8, pp.1888~ (2020)
53. Lairson LL, "Glycosyl transferases: structures, functions, and mechanisms", Ann. Rev. Biochem, 77, pp.521~555 (2008)
54. Nakamura AM, "Structural diversity of carbohydrate esterases", Biotechnol. Res. Innov, 1, pp.35~51 (2017)
55. Liu Y, "Carbohydrate-binding modules of potential resources: occurrence in nature, function, and application in fiber recognition and treatment", Polymers, 14, pp.1806~ (2022)
56. Choi SY, "Biotechnological activities and applications of bacterial pigments violacein and prodigiosin", J. Biol. Eng, 15, pp.10~ (2021)
57. Yang K, "The algicidal mechanism of prodigiosin from Hahella sp. KA22against Microcystis aeruginosa", Sci. Rep, 7, pp.7750~ (2017)
58. Balzarini J, "Pradimicin A, a carbohydrate-binding nonpeptidic lead compound for treatment of infections with viruses with highly glycosylated envelopes, such as human immunodeficiency virus", J. Virol, 81, pp.362~373 (2007)
59. Jiang Y, "Longicatenamides A–D, two diastereomeric pairs of cyclic hexapeptides produced by combined-culture of Streptomyces sp. KUSC_F05 and Tsukamurella pulmonis TP-B0596", J. Antibiot, 74, pp.307~316 (2021)
60. Ekundayo FO, "Antifungal activity of chitinase produced by Streptomyces species isolated from grassland soils in Futa Area, Akure", Bull. Natl. Res. Cent, 46, pp.95~ (2022)
61. Santoso P, "Enhancement of the antifungal activity of chitinase by palmitoylation and the synergy of palmitoylated chitinase with amphotericin B", ACS Infect. Dis, 8, pp.1051~1061 (2022)
62. Liang W, "Pan-genomic analysis provides insights into the genomic variation and evolution of Salmonella Paratyphi A", PLoS One, 7, pp.e45346~ (2012)
63. Medini D, "The microbial pan-genome", Curr. Opin. Genet. Dev, 15, pp.589~594 (2005)
64. Condon C, "rRNA operon multiplicity in Escherichia coli and the physiological implications of rrn inactivation", J. Bacteriol, 177, pp.4152~4156 (1995)
65. Sharrar AM, "Bacterial secondary metabolite biosynthetic potential in soil", mBio, 11, pp.1~17 (2020)
66. Caicedo-Montoya C, "Pan-Genome of the genus Streptomyces and prioritization of biosynthetic gene clusters with potential to produce antibiotic compounds", Front. Microbiol, 12, pp.677558~ (2021)
67. Helfrich EJN, "Bacterial terpene biosynthesis: challenges and opportunities for pathway engineering", Beilstein J. Org. Chem, 15, pp.2889~2906 (2019)
68. Hegemann JD, "Lasso peptides: an intriguing class of bacterial natural products", Acc. Chem. Res, 48, pp.1909~1919 (2015)
69. Lee CM, "Characterization of a novel antibacterial N-acyl amino acid synthase from soil metagenome", J. Biotechnol, 294, pp.19~25 (2019)
70. Bushley KE, "Phylogenomics reveals subfamilies of fungal nonribosomal peptide synthetases and their evolutionary relationships", BMC Evol. Biol, 10, pp.26~ (2010)
71. Dror B, "Elucidating the diversity and potential function of nonribosomal peptide and polyketide biosynthetic gene clusters in the root microbiome", mSystems, 5, pp.e00866-20~ (2020)
72. Joglar V, "Microbial plankton community structure and function system", Appl. Environ. Microbiol, 87, pp.e0152521~ (2021)
73. Satiaputra J, "Mechanisms of biotin-regulated gene expression in microbes", Synth. Syst. Biotechnol, 1, pp.17~24 (2016)
74. Watanabe F, "Vitamin B12 sources and microbial interaction", Exp. Biol. Med, 243, pp.148~158 (2018)
75. Zempleni J, "Biotin", BioFactors, 35, pp.36~46 (2009)
76. Zempleni J, "Biotin requirements for DNA damage prevention", Mutat. Res, 733, pp.58~60 (2012)
77. Alzoubi KH, "Vitamin B12 protects against DNA damage induced by hydrochlorothiazide", Saudi Pharm. J, 26, pp.786~789 (2018)
78. Warren MJ, "The biosynthesis of adenosylcobalamin (vitamin B12)", Nat. Prod. Rep, 19, pp.390~412 (2002)
79. Xu Y, "Cobalamin (Vitamin B12) induced a shift in microbial composition and metabolic activity in an in vitro colon simulation", Front. Microbiol, 9, pp.2780~ (2018)
80. Kim S, "Heme auxotrophy in abundant aquatic microbial lineages", Proc. Natl. Acad. Sci. USA, 118, pp.e2102750118~ (2021)

관련 논문AI추천