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For: Mohrbeck I, Raupach MJ, Martínez Arbizu P, Knebelsberger T, Laakmann S. High-Throughput Sequencing-The Key to Rapid Biodiversity Assessment of Marine Metazoa? PLoS One 2015;10:e0140342. [PMID: 26479071 PMCID: PMC4610693 DOI: 10.1371/journal.pone.0140342] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2014] [Accepted: 09/24/2015] [Indexed: 02/03/2023]  Open
Number Cited by Other Article(s)
1
Gaonkar CC, Campbell L. A full-length 18S ribosomal DNA metabarcoding approach for determining protist community diversity using Nanopore sequencing. Ecol Evol 2024;14:e11232. [PMID: 38606340 PMCID: PMC11007259 DOI: 10.1002/ece3.11232] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2024] [Accepted: 03/21/2024] [Indexed: 04/13/2024]  Open
2
Owens LA, Friant S, Martorelli Di Genova B, Knoll LJ, Contreras M, Noya-Alarcon O, Dominguez-Bello MG, Goldberg TL. VESPA: an optimized protocol for accurate metabarcoding-based characterization of vertebrate eukaryotic endosymbiont and parasite assemblages. Nat Commun 2024;15:402. [PMID: 38195557 PMCID: PMC10776621 DOI: 10.1038/s41467-023-44521-3] [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: 04/04/2023] [Accepted: 12/15/2023] [Indexed: 01/11/2024]  Open
3
Latz MAC, Grujcic V, Brugel S, Lycken J, John U, Karlson B, Andersson A, Andersson AF. Short- and long-read metabarcoding of the eukaryotic rRNA operon: evaluation of primers and comparison to shotgun metagenomics sequencing. Mol Ecol Resour 2022;22:2304-2318. [PMID: 35437888 DOI: 10.1111/1755-0998.13623] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Revised: 03/17/2022] [Accepted: 04/11/2022] [Indexed: 11/30/2022]
4
Raupach MJ, Rulik B, Spelda J. Surprisingly high genetic divergence of the mitochondrial DNA barcode fragment (COI) within Central European woodlice species (Crustacea, Isopoda, Oniscidea). Zookeys 2022;1082:103-125. [PMID: 35115867 PMCID: PMC8794987 DOI: 10.3897/zookeys.1082.69851] [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: 06/08/2021] [Accepted: 12/20/2021] [Indexed: 11/12/2022]  Open
5
Phylogeography and genetic diversity of the commercially-collected Caribbean blue-legged hermit crab (Clibanarius tricolor). CONSERV GENET 2021. [DOI: 10.1007/s10592-021-01348-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
6
Laakmann S, Blanco-Bercial L, Cornils A. The crossover from microscopy to genes in marine diversity: from species to assemblages in marine pelagic copepods. Philos Trans R Soc Lond B Biol Sci 2020;375:20190446. [PMID: 33131432 PMCID: PMC7662206 DOI: 10.1098/rstb.2019.0446] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]  Open
7
Schroeder A, Stanković D, Pallavicini A, Gionechetti F, Pansera M, Camatti E. DNA metabarcoding and morphological analysis - Assessment of zooplankton biodiversity in transitional waters. MARINE ENVIRONMENTAL RESEARCH 2020;160:104946. [PMID: 32907716 DOI: 10.1016/j.marenvres.2020.104946] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2019] [Revised: 02/28/2020] [Accepted: 03/07/2020] [Indexed: 06/11/2023]
8
Li D, Olden JD, Lockwood JL, Record S, McKinney ML, Baiser B. Changes in taxonomic and phylogenetic diversity in the Anthropocene. Proc Biol Sci 2020;287:20200777. [PMID: 32546087 PMCID: PMC7329034 DOI: 10.1098/rspb.2020.0777] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Accepted: 05/20/2020] [Indexed: 12/21/2022]  Open
9
Hirakata Y, Hatamoto M, Oshiki M, Watari T, Kuroda K, Araki N, Yamaguchi T. Temporal variation of eukaryotic community structures in UASB reactor treating domestic sewage as revealed by 18S rRNA gene sequencing. Sci Rep 2019;9:12783. [PMID: 31484981 PMCID: PMC6726610 DOI: 10.1038/s41598-019-49290-y] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2019] [Accepted: 08/22/2019] [Indexed: 11/09/2022]  Open
10
Detection of introduced and resident marine species using environmental DNA metabarcoding of sediment and water. Sci Rep 2019;9:11559. [PMID: 31399606 PMCID: PMC6689084 DOI: 10.1038/s41598-019-47899-7] [Citation(s) in RCA: 61] [Impact Index Per Article: 12.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Accepted: 07/25/2019] [Indexed: 12/12/2022]  Open
11
Metabarcoding of marine environmental DNA based on mitochondrial and nuclear genes. Sci Rep 2018;8:14822. [PMID: 30287908 PMCID: PMC6172225 DOI: 10.1038/s41598-018-32917-x] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2018] [Accepted: 09/17/2018] [Indexed: 11/17/2022]  Open
12
Hering D, Borja A, Jones JI, Pont D, Boets P, Bouchez A, Bruce K, Drakare S, Hänfling B, Kahlert M, Leese F, Meissner K, Mergen P, Reyjol Y, Segurado P, Vogler A, Kelly M. Implementation options for DNA-based identification into ecological status assessment under the European Water Framework Directive. WATER RESEARCH 2018;138:192-205. [PMID: 29602086 DOI: 10.1016/j.watres.2018.03.003] [Citation(s) in RCA: 153] [Impact Index Per Article: 25.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2017] [Revised: 03/02/2018] [Accepted: 03/03/2018] [Indexed: 05/22/2023]
13
Leray M, Knowlton N. Censusing marine eukaryotic diversity in the twenty-first century. Philos Trans R Soc Lond B Biol Sci 2017;371:rstb.2015.0331. [PMID: 27481783 PMCID: PMC4971183 DOI: 10.1098/rstb.2015.0331] [Citation(s) in RCA: 84] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 05/26/2016] [Indexed: 11/12/2022]  Open
14
Sommer SA, Van Woudenberg L, Lenz PH, Cepeda G, Goetze E. Vertical gradients in species richness and community composition across the twilight zone in the North Pacific Subtropical Gyre. Mol Ecol 2017;26:6136-6156. [PMID: 28792641 DOI: 10.1111/mec.14286] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2016] [Revised: 06/08/2017] [Accepted: 06/30/2017] [Indexed: 01/28/2023]
15
Hirai J, Nagai S, Hidaka K. Evaluation of metagenetic community analysis of planktonic copepods using Illumina MiSeq: Comparisons with morphological classification and metagenetic analysis using Roche 454. PLoS One 2017;12:e0181452. [PMID: 28715458 PMCID: PMC5513544 DOI: 10.1371/journal.pone.0181452] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2017] [Accepted: 06/30/2017] [Indexed: 12/22/2022]  Open
16
George KH. Phylogeny of the taxon Paralaophontodes Lang (Copepoda, Harpacticoida, Laophontodinae), including species descriptions, chorological remarks, and a key to species. ZOOSYST EVOL 2017. [DOI: 10.3897/zse.93.11314] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
17
Clarke LJ, Beard JM, Swadling KM, Deagle BE. Effect of marker choice and thermal cycling protocol on zooplankton DNA metabarcoding studies. Ecol Evol 2017;7:873-883. [PMID: 28168024 PMCID: PMC5288259 DOI: 10.1002/ece3.2667] [Citation(s) in RCA: 79] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2016] [Revised: 11/02/2016] [Accepted: 11/08/2016] [Indexed: 02/06/2023]  Open
18
Holovachov O. Metabarcoding of marine nematodes - evaluation of similarity scores used in alignment-based taxonomy assignment approach. Biodivers Data J 2016:e10647. [PMID: 27932928 PMCID: PMC5136674 DOI: 10.3897/bdj.4.e10647] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2016] [Accepted: 11/11/2016] [Indexed: 11/12/2022]  Open
19
Design and Evaluation of Illumina MiSeq-Compatible, 18S rRNA Gene-Specific Primers for Improved Characterization of Mixed Phototrophic Communities. Appl Environ Microbiol 2016;82:5878-91. [PMID: 27451454 DOI: 10.1128/aem.01630-16] [Citation(s) in RCA: 119] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2016] [Accepted: 07/20/2016] [Indexed: 11/20/2022]  Open
20
Lanzén A, Lekang K, Jonassen I, Thompson EM, Troedsson C. High-throughput metabarcoding of eukaryotic diversity for environmental monitoring of offshore oil-drilling activities. Mol Ecol 2016;25:4392-406. [DOI: 10.1111/mec.13761] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2015] [Revised: 06/20/2016] [Accepted: 07/13/2016] [Indexed: 10/21/2022]
21
Morinière J, Cancian de Araujo B, Lam AW, Hausmann A, Balke M, Schmidt S, Hendrich L, Doczkal D, Fartmann B, Arvidsson S, Haszprunar G. Species Identification in Malaise Trap Samples by DNA Barcoding Based on NGS Technologies and a Scoring Matrix. PLoS One 2016;11:e0155497. [PMID: 27191722 PMCID: PMC4871420 DOI: 10.1371/journal.pone.0155497] [Citation(s) in RCA: 76] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2016] [Accepted: 04/30/2016] [Indexed: 11/23/2022]  Open
22
Naupay AI, Cribillero NG, Lopez-Urbina MT, Gonzalez AE, Gomez-Puerta LA. Finding of pentastomes of genus Reighardia (Pentastomida) in the Belcher's gull (Larus belcheri). Parasitol Int 2016;65:288-90. [PMID: 26892103 DOI: 10.1016/j.parint.2016.02.006] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2015] [Revised: 02/08/2016] [Accepted: 02/12/2016] [Indexed: 11/18/2022]
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