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For: Berg M, Goudeau D, Olmsted C, McMahon KD, Yitbarek S, Thweatt JL, Bryant DA, Eloe-Fadrosh EA, Malmstrom RR, Roux S. Host population diversity as a driver of viral infection cycle in wild populations of green sulfur bacteria with long standing virus-host interactions. ISME J 2021;15:1569-1584. [PMID: 33452481 PMCID: PMC8163819 DOI: 10.1038/s41396-020-00870-1] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/16/2020] [Revised: 09/29/2020] [Accepted: 12/07/2020] [Indexed: 01/29/2023]
Number Cited by Other Article(s)
1
Zhang H, Ruan Y, Kuzyakov Y, Sun H, Huang Q, Guo S, Shen Q, Ling N. Viruses Facilitate Energy Acquisition Potential by Their Bacterial Hosts in Rhizosphere of Grafted Plants. PLANT, CELL & ENVIRONMENT 2025;48:4599-4610. [PMID: 40038896 DOI: 10.1111/pce.15458] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2024] [Revised: 02/03/2025] [Accepted: 02/21/2025] [Indexed: 03/06/2025]
2
Varona NS, Wallace BA, Bosco-Santos A, Mullinax J, Stiffler AK, O'Beirne MD, Ford J, Fulton JM, Werne JP, Gilhooly WP, Silveira CB. Viral activity in lake analogs of anoxic early Earth oceans. MICROBIOME 2025;13:104. [PMID: 40287716 PMCID: PMC12032784 DOI: 10.1186/s40168-025-02085-y] [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: 09/18/2024] [Accepted: 03/09/2025] [Indexed: 04/29/2025]
3
Cheng Z, He Y, Wang N, Wu L, Xu J, Shi J. Uncovering soil amendment-induced genomic and functional divergence in soybean rhizosphere microbiomes during cadmium-contaminated soil remediation: Novel insights from field multi-omics. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2025;368:125787. [PMID: 39909332 DOI: 10.1016/j.envpol.2025.125787] [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: 11/11/2024] [Revised: 01/27/2025] [Accepted: 02/01/2025] [Indexed: 02/07/2025]
4
Wang D, Liu L, Xu X, Wang C, Wang Y, Deng Y, Zhang T. Distributions, interactions, and dynamics of prokaryotes and phages in a hybrid biological wastewater treatment system. MICROBIOME 2024;12:134. [PMID: 39039555 PMCID: PMC11265110 DOI: 10.1186/s40168-024-01853-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2023] [Accepted: 06/03/2024] [Indexed: 07/24/2024]
5
Jensen RO, Schulz F, Roux S, Klingeman DM, Mitchell WP, Udwary D, Moraïs S, Reynoso V, Winkler J, Nagaraju S, De Tissera S, Shapiro N, Ivanova N, Reddy TBK, Mizrahi I, Utturkar SM, Bayer EA, Woyke T, Mouncey NJ, Jewett MC, Simpson SD, Köpke M, Jones DT, Brown SD. Phylogenomics and genetic analysis of solvent-producing Clostridium species. Sci Data 2024;11:432. [PMID: 38693191 PMCID: PMC11063209 DOI: 10.1038/s41597-024-03210-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2023] [Accepted: 04/02/2024] [Indexed: 05/03/2024]  Open
6
Ramos-Barbero MD, Aldeguer-Riquelme B, Viver T, Villamor J, Carrillo-Bautista M, López-Pascual C, Konstantinidis KT, Martínez-García M, Santos F, Rossello-Mora R, Antón J. Experimental evolution at ecological scales allows linking of viral genotypes to specific host strains. THE ISME JOURNAL 2024;18:wrae208. [PMID: 39579348 PMCID: PMC11631230 DOI: 10.1093/ismejo/wrae208] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2024] [Revised: 10/03/2024] [Accepted: 11/21/2024] [Indexed: 11/25/2024]
7
Gomes N, Ferreira-Sa L, Alves N, Dallago B, Moraes A, Carvalho JL, Nitz N, Hagström L, Braz S, Machado ER, Gurgel-Gonçalves R, Hecht M. Uncovering the effects of Giardia duodenalis on the balance of DNA viruses and bacteria in children's gut microbiota. Acta Trop 2023;247:107018. [PMID: 37673134 DOI: 10.1016/j.actatropica.2023.107018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Revised: 08/28/2023] [Accepted: 09/01/2023] [Indexed: 09/08/2023]
8
Chen T, Liu T, Wu Z, Wang B, Chen Q, Zhang M, Liang E, Ni J. Virus-pathogen interactions improve water quality along the Middle Route of the South-to-North Water Diversion Canal. THE ISME JOURNAL 2023;17:1719-1732. [PMID: 37524909 PMCID: PMC10504254 DOI: 10.1038/s41396-023-01481-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2022] [Revised: 07/12/2023] [Accepted: 07/14/2023] [Indexed: 08/02/2023]
9
Amundson KK, Roux S, Shelton JL, Wilkins MJ. Long-term CRISPR locus dynamics and stable host-virus co-existence in subsurface fractured shales. Curr Biol 2023;33:3125-3135.e4. [PMID: 37402375 DOI: 10.1016/j.cub.2023.06.033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2023] [Revised: 05/18/2023] [Accepted: 06/12/2023] [Indexed: 07/06/2023]
10
Hesketh-Best PJ, Bosco-Santos A, Garcia SL, O’Beirne MD, Werne JP, Gilhooly WP, Silveira CB. Viruses of sulfur oxidizing phototrophs encode genes for pigment, carbon, and sulfur metabolisms. COMMUNICATIONS EARTH & ENVIRONMENT 2023;4:126. [PMID: 38665202 PMCID: PMC11041744 DOI: 10.1038/s43247-023-00796-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Accepted: 04/05/2023] [Indexed: 04/28/2024]
11
Rodríguez-Ramos J, Oliverio A, Borton MA, Danczak R, Mueller BM, Schulz H, Ellenbogen J, Flynn RM, Daly RA, Schopflin L, Shaffer M, Goldman A, Lewandowski J, Stegen JC, Wrighton KC. Spatial and temporal metagenomics of river compartments reveals viral community dynamics in an urban impacted stream. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.04.04.535500. [PMID: 37066413 PMCID: PMC10104031 DOI: 10.1101/2023.04.04.535500] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/18/2023]
12
Composition and function of viruses in sauce-flavor baijiu fermentation. Int J Food Microbiol 2023;387:110055. [PMID: 36527793 DOI: 10.1016/j.ijfoodmicro.2022.110055] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2022] [Revised: 11/21/2022] [Accepted: 12/05/2022] [Indexed: 12/14/2022]
13
Roux S, Fischer MG, Hackl T, Katz LA, Schulz F, Yutin N. Updated Virophage Taxonomy and Distinction from Polinton-like Viruses. Biomolecules 2023;13:204. [PMID: 36830574 PMCID: PMC9952930 DOI: 10.3390/biom13020204] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2022] [Revised: 01/02/2023] [Accepted: 01/04/2023] [Indexed: 01/20/2023]  Open
14
Grouzdev D, Gaisin V, Lunina O, Krutkina M, Krasnova E, Voronov D, Baslerov R, Sigalevich P, Savvichev A, Gorlenko V. Microbial communities of stratified aquatic ecosystems of Kandalaksha Bay (White Sea) shed light on the evolutionary history of green and brown morphotypes of Chlorobiota. FEMS Microbiol Ecol 2022;98:6693937. [PMID: 36073352 DOI: 10.1093/femsec/fiac103] [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: 05/12/2022] [Revised: 08/30/2022] [Accepted: 09/01/2022] [Indexed: 12/14/2022]  Open
15
Koskella B, Hernandez CA, Wheatley RM. Understanding the Impacts of Bacteriophage Viruses: From Laboratory Evolution to Natural Ecosystems. Annu Rev Virol 2022;9:57-78. [PMID: 35584889 DOI: 10.1146/annurev-virology-091919-075914] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
16
Panwar P, Allen MA, Williams TJ, Haque S, Brazendale S, Hancock AM, Paez-Espino D, Cavicchioli R. Remarkably coherent population structure for a dominant Antarctic Chlorobium species. MICROBIOME 2021;9:231. [PMID: 34823595 PMCID: PMC8620254 DOI: 10.1186/s40168-021-01173-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2021] [Accepted: 10/09/2021] [Indexed: 05/22/2023]
17
Silveira CB, Luque A, Rohwer F. The landscape of lysogeny across microbial community density, diversity and energetics. Environ Microbiol 2021;23:4098-4111. [PMID: 34121301 DOI: 10.1111/1462-2920.15640] [Citation(s) in RCA: 47] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2021] [Revised: 06/08/2021] [Accepted: 06/11/2021] [Indexed: 12/11/2022]
18
Exploring Viral Diversity in a Gypsum Karst Lake Ecosystem Using Targeted Single-Cell Genomics. Genes (Basel) 2021;12:genes12060886. [PMID: 34201311 PMCID: PMC8226683 DOI: 10.3390/genes12060886] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2021] [Revised: 06/04/2021] [Accepted: 06/07/2021] [Indexed: 12/14/2022]  Open
19
Garcia SL, Mehrshad M, Buck M, Tsuji JM, Neufeld JD, McMahon KD, Bertilsson S, Greening C, Peura S. Freshwater Chlorobia Exhibit Metabolic Specialization among Cosmopolitan and Endemic Populations. mSystems 2021;6:e01196-20. [PMID: 33975970 PMCID: PMC8125076 DOI: 10.1128/msystems.01196-20] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2020] [Accepted: 04/09/2021] [Indexed: 01/15/2023]  Open
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