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For: Sunagawa S, Acinas SG, Bork P, Bowler C, Eveillard D, Gorsky G, Guidi L, Iudicone D, Karsenti E, Lombard F, Ogata H, Pesant S, Sullivan MB, Wincker P, de Vargas C. Tara Oceans: towards global ocean ecosystems biology. Nat Rev Microbiol 2020;18:428-445. [PMID: 32398798 DOI: 10.1038/s41579-020-0364-5] [Citation(s) in RCA: 162] [Impact Index Per Article: 40.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/27/2020] [Indexed: 12/14/2022]
Number Cited by Other Article(s)
101
Nata’ala MK, Avila Santos AP, Coelho Kasmanas J, Bartholomäus A, Saraiva JP, Godinho Silva S, Keller-Costa T, Costa R, Gomes NCM, Ponce de Leon Ferreira de Carvalho AC, Stadler PF, Sipoli Sanches D, Nunes da Rocha U. MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes. ENVIRONMENTAL MICROBIOME 2022;17:57. [PMID: 36401317 PMCID: PMC9675116 DOI: 10.1186/s40793-022-00449-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/08/2022] [Accepted: 09/15/2022] [Indexed: 05/17/2023]
102
Das A, Schatz MC. Sketching and sampling approaches for fast and accurate long read classification. BMC Bioinformatics 2022;23:452. [PMID: 36316646 PMCID: PMC9624007 DOI: 10.1186/s12859-022-05014-0] [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: 07/01/2022] [Accepted: 10/27/2022] [Indexed: 11/05/2022]  Open
103
de la Higuera I, Lázaro E. Viruses in astrobiology. Front Microbiol 2022;13:1032918. [PMID: 36386652 PMCID: PMC9643867 DOI: 10.3389/fmicb.2022.1032918] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2022] [Accepted: 10/10/2022] [Indexed: 11/24/2022]  Open
104
Duarte B, Figueiredo A, Ramalhosa P, Canning-Clode J, Caçador I, Fonseca VF. Unravelling the Portuguese Coastal and Transitional Waters' Microbial Resistome as a Biomarker of Differential Anthropogenic Impact. TOXICS 2022;10:613. [PMID: 36287893 PMCID: PMC9612280 DOI: 10.3390/toxics10100613] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2022] [Revised: 10/10/2022] [Accepted: 10/14/2022] [Indexed: 05/14/2023]
105
Espinoza JL, Dupont CL. VEBA: a modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagenomes. BMC Bioinformatics 2022;23:419. [PMID: 36224545 PMCID: PMC9554839 DOI: 10.1186/s12859-022-04973-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2022] [Accepted: 09/27/2022] [Indexed: 11/23/2022]  Open
106
Dang Z, Luo Z, Wang S, Liao Y, Jiang Z, Zhu X, Ji G. Using hierarchical stable isotope to reveal microbial food web structure and trophic transfer efficiency differences during lake melt season. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022;842:156893. [PMID: 35753488 DOI: 10.1016/j.scitotenv.2022.156893] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2022] [Revised: 05/31/2022] [Accepted: 06/19/2022] [Indexed: 06/15/2023]
107
Jouhten P, Konstantinidis D, Pereira F, Andrejev S, Grkovska K, Castillo S, Ghiachi P, Beltran G, Almaas E, Mas A, Warringer J, Gonzalez R, Morales P, Patil KR. Predictive evolution of metabolic phenotypes using model-designed environments. Mol Syst Biol 2022;18:e10980. [PMID: 36201279 PMCID: PMC9536503 DOI: 10.15252/msb.202210980] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2022] [Revised: 08/24/2022] [Accepted: 08/26/2022] [Indexed: 11/04/2022]  Open
108
Zha Y, Chong H, Yang P, Ning K. Microbial Dark Matter: from Discovery to Applications. GENOMICS, PROTEOMICS & BIOINFORMATICS 2022;20:867-881. [PMID: 35477055 PMCID: PMC10025686 DOI: 10.1016/j.gpb.2022.02.007] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2021] [Revised: 09/28/2021] [Accepted: 03/22/2022] [Indexed: 01/12/2023]
109
Liu S, Storti M, Finazzi G, Bowler C, Dorrell RG. A metabolic, phylogenomic and environmental atlas of diatom plastid transporters from the model species Phaeodactylum. FRONTIERS IN PLANT SCIENCE 2022;13:950467. [PMID: 36212359 PMCID: PMC9546453 DOI: 10.3389/fpls.2022.950467] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/22/2022] [Accepted: 09/02/2022] [Indexed: 06/16/2023]
110
Marx V. Why the ocean virome matters. Nat Methods 2022;19:924-927. [PMID: 35906296 PMCID: PMC9336122 DOI: 10.1038/s41592-022-01567-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
111
Marx V. Trawling the ocean virome. Nat Methods 2022;19:928-931. [PMID: 35906297 DOI: 10.1038/s41592-022-01568-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
112
Guo K, Chen J, Yuan J, Wang X, Xu S, Hou S, Wang Y. Effects of Temperature on Transparent Exopolymer Particle Production and Organic Carbon Allocation of Four Marine Phytoplankton Species. BIOLOGY 2022;11:biology11071056. [PMID: 36101434 PMCID: PMC9312018 DOI: 10.3390/biology11071056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/19/2022] [Revised: 07/05/2022] [Accepted: 07/07/2022] [Indexed: 11/16/2022]
113
Bai L, Liu L, Esquivel M, Tardy BL, Huan S, Niu X, Liu S, Yang G, Fan Y, Rojas OJ. Nanochitin: Chemistry, Structure, Assembly, and Applications. Chem Rev 2022;122:11604-11674. [PMID: 35653785 PMCID: PMC9284562 DOI: 10.1021/acs.chemrev.2c00125] [Citation(s) in RCA: 80] [Impact Index Per Article: 40.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
114
Priorities for ocean microbiome research. Nat Microbiol 2022;7:937-947. [PMID: 35773399 DOI: 10.1038/s41564-022-01145-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2021] [Accepted: 05/04/2022] [Indexed: 11/10/2022]
115
Milke F, Sanchez-Garcia S, Dlugosch L, McNichol J, Fuhrman J, Simon M, Wagner-Döbler I. Composition and Biogeography of Planktonic Pro- and Eukaryotic Communities in the Atlantic Ocean: Primer Choice Matters. Front Microbiol 2022;13:895875. [PMID: 35836413 PMCID: PMC9273945 DOI: 10.3389/fmicb.2022.895875] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2022] [Accepted: 05/18/2022] [Indexed: 01/02/2023]  Open
116
Tiedje JM, Bruns MA, Casadevall A, Criddle CS, Eloe-Fadrosh E, Karl DM, Nguyen NK, Zhou J. Microbes and Climate Change: a Research Prospectus for the Future. mBio 2022;13:e0080022. [PMID: 35438534 PMCID: PMC9239095 DOI: 10.1128/mbio.00800-22] [Citation(s) in RCA: 37] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/04/2022] [Indexed: 11/20/2022]  Open
117
Holm HC, Fredricks HF, Bent SM, Lowenstein DP, Ossolinski JE, Becker KW, Johnson WM, Schrage K, Van Mooy BAS. Global ocean lipidomes show a universal relationship between temperature and lipid unsaturation. Science 2022;376:1487-1491. [PMID: 35737766 DOI: 10.1126/science.abn7455] [Citation(s) in RCA: 27] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
118
A wealth of new biosynthetic pathways from the global ocean microbiome. Nature 2022:10.1038/d41586-022-01545-x. [PMID: 35732716 DOI: 10.1038/d41586-022-01545-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
119
Biosynthetic potential of the global ocean microbiome. Nature 2022;607:111-118. [PMID: 35732736 PMCID: PMC9259500 DOI: 10.1038/s41586-022-04862-3] [Citation(s) in RCA: 124] [Impact Index Per Article: 62.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Accepted: 05/12/2022] [Indexed: 02/07/2023]
120
Nishimura Y, Yoshizawa S. The OceanDNA MAG catalog contains over 50,000 prokaryotic genomes originated from various marine environments. Sci Data 2022;9:305. [PMID: 35715423 PMCID: PMC9205870 DOI: 10.1038/s41597-022-01392-5] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Accepted: 05/12/2022] [Indexed: 12/22/2022]  Open
121
Kaszecki E, Kennedy V, Shah M, Maciszewski K, Karnkowska A, Linton E, Ginger ML, Farrow S, Ebenezer TE. Meeting Report: Euglenids in the Age of Symbiogenesis: Origins, Innovations, and Prospects, November 8-11, 2021. Protist 2022;173:125894. [PMID: 35772300 DOI: 10.1016/j.protis.2022.125894] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2022] [Revised: 06/01/2022] [Accepted: 06/02/2022] [Indexed: 10/18/2022]
122
Forecasting ocean microbiome shifts. Nat Microbiol 2022;7:747-748. [PMID: 35650285 DOI: 10.1038/s41564-022-01140-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
123
Rosani U. Tracing RNA viruses associated with Nudibranchia gastropods. PeerJ 2022;10:e13410. [PMID: 35586129 PMCID: PMC9109684 DOI: 10.7717/peerj.13410] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Accepted: 04/19/2022] [Indexed: 01/14/2023]  Open
124
Delmont TO, Gaia M, Hinsinger DD, Frémont P, Vanni C, Fernandez-Guerra A, Eren AM, Kourlaiev A, d'Agata L, Clayssen Q, Villar E, Labadie K, Cruaud C, Poulain J, Da Silva C, Wessner M, Noel B, Aury JM, de Vargas C, Bowler C, Karsenti E, Pelletier E, Wincker P, Jaillon O. Functional repertoire convergence of distantly related eukaryotic plankton lineages abundant in the sunlit ocean. CELL GENOMICS 2022;2:100123. [PMID: 36778897 PMCID: PMC9903769 DOI: 10.1016/j.xgen.2022.100123] [Citation(s) in RCA: 38] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Revised: 12/10/2021] [Accepted: 04/04/2022] [Indexed: 12/20/2022]
125
Lobanov V, Keesman KJ, Joyce A. Plants Dictate Root Microbial Composition in Hydroponics and Aquaponics. Front Microbiol 2022;13:848057. [PMID: 35509321 PMCID: PMC9058158 DOI: 10.3389/fmicb.2022.848057] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 03/23/2022] [Indexed: 11/13/2022]  Open
126
Phylogeny and Metabolic Potential of the Candidate Phylum SAR324. BIOLOGY 2022;11:biology11040599. [PMID: 35453798 PMCID: PMC9031357 DOI: 10.3390/biology11040599] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/14/2022] [Revised: 04/11/2022] [Accepted: 04/12/2022] [Indexed: 11/30/2022]
127
Labonté JM, Campbell KL. There's more to RNA viruses than diseases. Science 2022;376:138-139. [PMID: 35389800 DOI: 10.1126/science.abo5590] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
128
Régimbeau A, Budinich M, Larhlimi A, Pierella Karlusich JJ, Aumont O, Memery L, Bowler C, Eveillard D. Contribution of genome-scale metabolic modelling to niche theory. Ecol Lett 2022;25:1352-1364. [PMID: 35384214 PMCID: PMC9324083 DOI: 10.1111/ele.13954] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Revised: 11/22/2021] [Accepted: 11/28/2021] [Indexed: 12/22/2022]
129
Novel functional insights into a modified sugar-binding protein from Synechococcus MITS9220. Sci Rep 2022;12:4805. [PMID: 35314715 PMCID: PMC8938411 DOI: 10.1038/s41598-022-08459-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2021] [Accepted: 03/07/2022] [Indexed: 11/17/2022]  Open
130
Zha Y, Ning K. Ontology-aware neural network: a general framework for pattern mining from microbiome data. Brief Bioinform 2022;23:bbac005. [PMID: 35091743 PMCID: PMC8921649 DOI: 10.1093/bib/bbac005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Revised: 12/30/2021] [Accepted: 01/04/2022] [Indexed: 11/23/2022]  Open
131
Xu G, Zhang N, Zhao X, Chen C, Zhang C, He J. Offshore Marine Sediment Microbiota Respire Structurally Distinct Organohalide Pollutants. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022;56:3065-3075. [PMID: 35187933 DOI: 10.1021/acs.est.1c06680] [Citation(s) in RCA: 29] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
132
The marine nitrogen cycle: new developments and global change. Nat Rev Microbiol 2022;20:401-414. [PMID: 35132241 DOI: 10.1038/s41579-022-00687-z] [Citation(s) in RCA: 51] [Impact Index Per Article: 25.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/07/2022] [Indexed: 12/25/2022]
133
Pierella Karlusich JJ, Pelletier E, Zinger L, Lombard F, Zingone A, Colin S, Gasol JM, Dorrell RG, Henry N, Scalco E, Acinas SG, Wincker P, de Vargas C, Bowler C. A robust approach to estimate relative phytoplankton cell abundances from metagenomes. Mol Ecol Resour 2022;23:16-40. [PMID: 35108459 PMCID: PMC10078663 DOI: 10.1111/1755-0998.13592] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2021] [Revised: 01/09/2022] [Accepted: 01/25/2022] [Indexed: 11/28/2022]
134
Assessment of Hydrocarbon Degradation Potential in Microbial Communities in Arctic Sea Ice. Microorganisms 2022;10:microorganisms10020328. [PMID: 35208784 PMCID: PMC8879337 DOI: 10.3390/microorganisms10020328] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2021] [Revised: 01/27/2022] [Accepted: 01/28/2022] [Indexed: 02/04/2023]  Open
135
Le Reun N, Bramucci A, O’Brien J, Ostrowski M, Brown MV, Van de Kamp J, Bodrossy L, Raina JB, Ajani P, Seymour J. Diatom Biogeography, Temporal Dynamics, and Links to Bacterioplankton across Seven Oceanographic Time-Series Sites Spanning the Australian Continent. Microorganisms 2022;10:microorganisms10020338. [PMID: 35208793 PMCID: PMC8880096 DOI: 10.3390/microorganisms10020338] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2021] [Revised: 01/28/2022] [Accepted: 01/29/2022] [Indexed: 11/30/2022]  Open
136
Understanding Interaction Patterns within Deep-Sea Microbial Communities and Their Potential Applications. Mar Drugs 2022;20:md20020108. [PMID: 35200637 PMCID: PMC8874374 DOI: 10.3390/md20020108] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2021] [Revised: 01/17/2022] [Accepted: 01/21/2022] [Indexed: 11/17/2022]  Open
137
Deng Y, Vallet M, Pohnert G. Temporal and Spatial Signaling Mediating the Balance of the Plankton Microbiome. ANNUAL REVIEW OF MARINE SCIENCE 2022;14:239-260. [PMID: 34437810 DOI: 10.1146/annurev-marine-042021-012353] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
138
Van Den Bossche T, Arntzen MØ, Becher D, Benndorf D, Eijsink VGH, Henry C, Jagtap PD, Jehmlich N, Juste C, Kunath BJ, Mesuere B, Muth T, Pope PB, Seifert J, Tanca A, Uzzau S, Wilmes P, Hettich RL, Armengaud J. The Metaproteomics Initiative: a coordinated approach for propelling the functional characterization of microbiomes. MICROBIOME 2021;9:243. [PMID: 34930457 PMCID: PMC8690404 DOI: 10.1186/s40168-021-01176-w] [Citation(s) in RCA: 42] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Accepted: 10/10/2021] [Indexed: 05/04/2023]
139
Bonny P, Schaeffer J, Besnard A, Desdouits M, Ngang JJE, Le Guyader FS. Human and Animal RNA Virus Diversity Detected by Metagenomics in Cameroonian Clams. Front Microbiol 2021;12:770385. [PMID: 34917052 PMCID: PMC8669915 DOI: 10.3389/fmicb.2021.770385] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2021] [Accepted: 10/18/2021] [Indexed: 11/13/2022]  Open
140
Waterhouse RM, Adam-Blondon AF, Agosti D, Baldrian P, Balech B, Corre E, Davey RP, Lantz H, Pesole G, Quast C, Glöckner FO, Raes N, Sandionigi A, Santamaria M, Addink W, Vohradsky J, Nunes-Jorge A, Willassen NP, Lanfear J. Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR. F1000Res 2021;10:ELIXIR-1238. [PMID: 35999898 PMCID: PMC9360911 DOI: 10.12688/f1000research.73825.2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 07/27/2022] [Indexed: 12/03/2022]  Open
141
Waterhouse RM, Adam-Blondon AF, Agosti D, Baldrian P, Balech B, Corre E, Davey RP, Lantz H, Pesole G, Quast C, Glöckner FO, Raes N, Sandionigi A, Santamaria M, Addink W, Vohradsky J, Nunes-Jorge A, Willassen NP, Lanfear J. Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR. F1000Res 2021;10:ELIXIR-1238. [PMID: 35999898 PMCID: PMC9360911 DOI: 10.12688/f1000research.73825.1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 10/12/2021] [Indexed: 09/03/2024]  Open
142
Coming full circle on diazotrophy in the marine cyanobacterium Trichodesmium. Proc Natl Acad Sci U S A 2021;118:2117967118. [PMID: 34785598 DOI: 10.1073/pnas.2117967118] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/14/2021] [Indexed: 11/18/2022]  Open
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Robinson SL, Piel J, Sunagawa S. A roadmap for metagenomic enzyme discovery. Nat Prod Rep 2021;38:1994-2023. [PMID: 34821235 PMCID: PMC8597712 DOI: 10.1039/d1np00006c] [Citation(s) in RCA: 66] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2021] [Indexed: 12/13/2022]
144
Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean. Nat Microbiol 2021;6:1561-1574. [PMID: 34782724 DOI: 10.1038/s41564-021-00979-9] [Citation(s) in RCA: 40] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Accepted: 09/13/2021] [Indexed: 11/08/2022]
145
Discovery of nondiazotrophic Trichodesmium species abundant and widespread in the open ocean. Proc Natl Acad Sci U S A 2021;118:2112355118. [PMID: 34750267 DOI: 10.1073/pnas.2112355118] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/13/2021] [Indexed: 11/18/2022]  Open
146
Claverie JM, Santini S. Validation of predicted anonymous proteins simply using Fisher's exact test. BIOINFORMATICS ADVANCES 2021;1:vbab034. [PMID: 36700095 PMCID: PMC9710694 DOI: 10.1093/bioadv/vbab034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/15/2021] [Revised: 11/03/2021] [Accepted: 11/10/2021] [Indexed: 01/28/2023]
147
Galbraith E, Convertino M. The Eco-Evo Mandala: Simplifying Bacterioplankton Complexity into Ecohealth Signatures. ENTROPY (BASEL, SWITZERLAND) 2021;23:1471. [PMID: 34828169 PMCID: PMC8625105 DOI: 10.3390/e23111471] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Revised: 10/30/2021] [Accepted: 11/05/2021] [Indexed: 12/24/2022]
148
Courtot M, Gupta D, Liyanage I, Xu F, Burdett T. BioSamples database: FAIRer samples metadata to accelerate research data management. Nucleic Acids Res 2021;50:D1500-D1507. [PMID: 34747489 PMCID: PMC8728232 DOI: 10.1093/nar/gkab1046] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Revised: 10/13/2021] [Accepted: 10/14/2021] [Indexed: 12/04/2022]  Open
149
Delmont TO, Pierella Karlusich JJ, Veseli I, Fuessel J, Eren AM, Foster RA, Bowler C, Wincker P, Pelletier E. Heterotrophic bacterial diazotrophs are more abundant than their cyanobacterial counterparts in metagenomes covering most of the sunlit ocean. ISME JOURNAL 2021;16:927-936. [PMID: 34697433 DOI: 10.1038/s41396-021-01135-1] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Revised: 09/24/2021] [Accepted: 09/29/2021] [Indexed: 12/30/2022]
150
Chevallereau A, Pons BJ, van Houte S, Westra ER. Interactions between bacterial and phage communities in natural environments. Nat Rev Microbiol 2021;20:49-62. [PMID: 34373631 DOI: 10.1038/s41579-021-00602-y] [Citation(s) in RCA: 198] [Impact Index Per Article: 66.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2021] [Accepted: 06/28/2021] [Indexed: 12/20/2022]
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