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For: Dunthorn M, Foissner W, Katz LA. Expanding character sampling for ciliate phylogenetic inference using mitochondrial SSU-rDNA as a molecular marker. Protist 2011;162:85-99. [PMID: 20708960 PMCID: PMC3272410 DOI: 10.1016/j.protis.2010.06.003] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2009] [Accepted: 06/12/2010] [Indexed: 11/28/2022]
Number Cited by Other Article(s)
1
Zhang Y, Li H, Wang Y, Nie M, Zhang K, Pan J, Zhang Y, Ye Z, Zufall RA, Lynch M, Long H. Mitogenomic architecture and evolution of the soil ciliates Colpoda. mSystems 2024;9:e0116123. [PMID: 38259100 PMCID: PMC10878089 DOI: 10.1128/msystems.01161-23] [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: 11/01/2023] [Accepted: 12/14/2023] [Indexed: 01/24/2024]  Open
2
Ewers I, Rajter L, Czech L, Mahé F, Stamatakis A, Dunthorn M. Interpreting phylogenetic placements for taxonomic assignment of environmental DNA. J Eukaryot Microbiol 2023;70:e12990. [PMID: 37448139 DOI: 10.1111/jeu.12990] [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: 03/22/2023] [Revised: 05/29/2023] [Accepted: 06/17/2023] [Indexed: 07/15/2023]
3
Li B, Song Y, Hao T, Wang L, Zheng W, lyu Z, Chen Y, Pan X. Insights into the phylogeny of the ciliate of class Colpodea based on multigene data. Ecol Evol 2022;12:e9380. [PMID: 36304093 PMCID: PMC9595136 DOI: 10.1002/ece3.9380] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Revised: 08/29/2022] [Accepted: 09/15/2022] [Indexed: 11/26/2022]  Open
4
Wang C, Hu Y, Warren A, Hu X. Genetic Diversity and Phylogeny of the Genus Euplotes (Protozoa, Ciliophora) Revealed by the Mitochondrial CO1 and Nuclear Ribosomal Genes. Microorganisms 2021;9:microorganisms9112204. [PMID: 34835330 PMCID: PMC8624429 DOI: 10.3390/microorganisms9112204] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Revised: 10/03/2021] [Accepted: 10/19/2021] [Indexed: 11/16/2022]  Open
5
Rajter Ľ, Ewers I, Graupner N, Vďačný P, Dunthorn M. Colpodean ciliate phylogeny and reference alignments for phylogenetic placements. Eur J Protistol 2020;77:125747. [PMID: 33279755 DOI: 10.1016/j.ejop.2020.125747] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 09/24/2020] [Accepted: 11/03/2020] [Indexed: 10/23/2022]
6
Wang Y, Jiang Y, Liu Y, Li Y, Katz LA, Gao F, Yan Y. Comparative Studies on the Polymorphism and Copy Number Variation of mtSSU rDNA in Ciliates (Protista, Ciliophora): Implications for Phylogenetic, Environmental, and Ecological Research. Microorganisms 2020;8:E316. [PMID: 32106521 PMCID: PMC7142639 DOI: 10.3390/microorganisms8030316] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2020] [Revised: 02/20/2020] [Accepted: 02/21/2020] [Indexed: 01/21/2023]  Open
7
Zhang T, Fan X, Gao F, Al-Farraj SA, El-Serehy HA, Song W. Further analyses on the phylogeny of the subclass Scuticociliatia (Protozoa, Ciliophora) based on both nuclear and mitochondrial data. Mol Phylogenet Evol 2019;139:106565. [PMID: 31326515 DOI: 10.1016/j.ympev.2019.106565] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2019] [Revised: 07/13/2019] [Accepted: 07/17/2019] [Indexed: 11/24/2022]
8
Vd’ačný P, Foissner W. Re-analysis of the 18S rRNA gene phylogeny of the ciliate class Colpodea. Eur J Protistol 2019;67:89-105. [DOI: 10.1016/j.ejop.2018.11.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2018] [Revised: 11/20/2018] [Accepted: 11/28/2018] [Indexed: 10/27/2022]
9
Li M, Wang R, Bastos Gomes G, Zou H, Li WX, Wu SG, Wang GT, Ponce-Gordo F. Epidemiology and identification of two species of Chilodonella affecting farmed fishes in China. Vet Parasitol 2018;264:8-17. [PMID: 30503097 DOI: 10.1016/j.vetpar.2018.10.009] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2018] [Revised: 10/08/2018] [Accepted: 10/09/2018] [Indexed: 10/28/2022]
10
Vďačný P, Rajter Ľ, Stoeck T, Foissner W. A Proposed Timescale for the Evolution of Armophorean Ciliates: Clevelandellids Diversify More Rapidly Than Metopids. J Eukaryot Microbiol 2018;66:167-181. [PMID: 29873141 DOI: 10.1111/jeu.12641] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2018] [Revised: 05/11/2018] [Accepted: 06/01/2018] [Indexed: 11/30/2022]
11
Dunthorn M, Zufall RA, Chi J, Paszkiewicz K, Moore K, Mahé F. Meiotic Genes in Colpodean Ciliates Support Secretive Sexuality. Genome Biol Evol 2018;9:1781-1787. [PMID: 28854634 PMCID: PMC5570047 DOI: 10.1093/gbe/evx125] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/06/2017] [Indexed: 12/19/2022]  Open
12
Pan H, Stoeck T. Redescription of the halophile ciliate, Blepharisma halophilum Ruinen, 1938 (Ciliophora, Heterotrichea, Heterotrichida) shows that the genus Blepharisma is non-monophyletic. Eur J Protistol 2017;61:20-28. [DOI: 10.1016/j.ejop.2017.07.004] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2017] [Revised: 07/17/2017] [Accepted: 07/19/2017] [Indexed: 10/19/2022]
13
Raja R, Hemaiswarya S, Ganesan V, Carvalho IS. Internal Transcribed sequence (ITS) of Halocafeteria seosinensis (Bicosoecids). BENI-SUEF UNIVERSITY JOURNAL OF BASIC AND APPLIED SCIENCES 2017. [DOI: 10.1016/j.bjbas.2017.04.009] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]  Open
14
Seah BKB, Schwaha T, Volland JM, Huettel B, Dubilier N, Gruber-Vodicka HR. Specificity in diversity: single origin of a widespread ciliate-bacteria symbiosis. Proc Biol Sci 2017;284:20170764. [PMID: 28701560 PMCID: PMC5524500 DOI: 10.1098/rspb.2017.0764] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2017] [Accepted: 06/06/2017] [Indexed: 12/03/2022]  Open
15
Further consideration on the phylogeny of the Ciliophora: Analyses using both mitochondrial and nuclear data with focus on the extremely confused class Phyllopharyngea. Mol Phylogenet Evol 2017;112:96-106. [DOI: 10.1016/j.ympev.2017.04.018] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2016] [Revised: 04/11/2017] [Accepted: 04/20/2017] [Indexed: 11/17/2022]
16
Bastos Gomes G, Miller TL, Vaughan DB, Jerry DR, McCowan C, Bradley TL, Hutson KS. Evidence of multiple species of Chilodonella (Protozoa, Ciliophora) infecting Australian farmed freshwater fishes. Vet Parasitol 2017;237:8-16. [DOI: 10.1016/j.vetpar.2017.03.004] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2016] [Revised: 02/16/2017] [Accepted: 03/03/2017] [Indexed: 01/20/2023]
17
Tarcz S, Rautian M, Potekhin A, Sawka N, Beliavskaya A, Kiselev A, Nekrasova I, Przyboś E. Paramecium putrinum (Ciliophora, Protozoa): The first insight into the variation of two DNA fragments – Molecular support for the existence of cryptic species. Mol Phylogenet Evol 2014;73:140-5. [DOI: 10.1016/j.ympev.2014.01.019] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2013] [Revised: 01/18/2014] [Accepted: 01/21/2014] [Indexed: 11/25/2022]
18
Bourland WA, Wendell L, Hampikian G, Vďačný P. Morphology and phylogeny of Bryophryoides ocellatus n. g., n. sp. (Ciliophora, Colpodea) from in situ soil percolates of Idaho, U.S.A. Eur J Protistol 2014;50:47-67. [DOI: 10.1016/j.ejop.2013.09.001] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2013] [Revised: 08/31/2013] [Accepted: 09/18/2013] [Indexed: 11/28/2022]
19
Dunthorn M, Otto J, Berger SA, Stamatakis A, Mahé F, Romac S, de Vargas C, Audic S, Stock A, Kauff F, Stoeck T. Placing environmental next-generation sequencing amplicons from microbial eukaryotes into a phylogenetic context. Mol Biol Evol 2014;31:993-1009. [PMID: 24473288 DOI: 10.1093/molbev/msu055] [Citation(s) in RCA: 68] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]  Open
20
Yi Z, Strüder-Kypke M, Hu X, Lin X, Song W. Sampling strategies for improving tree accuracy and phylogenetic analyses: a case study in ciliate protists, with notes on the genus Paramecium. Mol Phylogenet Evol 2013;71:142-8. [PMID: 24315865 DOI: 10.1016/j.ympev.2013.11.013] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2013] [Revised: 11/20/2013] [Accepted: 11/24/2013] [Indexed: 11/28/2022]
21
Przyboś E, Tarcz S, Dusi E. New Paramecium quadecaurelia strains (P. aurelia spp. complex, Ciliophora) identified by molecular markers (rDNA and mtDNA). Eur J Protistol 2013;49:477-86. [DOI: 10.1016/j.ejop.2012.11.001] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2012] [Revised: 10/02/2012] [Accepted: 11/08/2012] [Indexed: 11/28/2022]
22
Multigene-based analyses of the phylogenetic evolution of oligotrich ciliates, with consideration of the internal transcribed spacer 2 secondary structure of three systematically ambiguous genera. EUKARYOTIC CELL 2013;12:430-7. [PMID: 23314963 DOI: 10.1128/ec.00270-12] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
23
Zhan Z, Xu K, Dunthorn M. Evaluating molecular support for and against the monophyly of the Peritrichia and phylogenetic relationships within the Mobilida (Ciliophora, Oligohymenophorea). ZOOL SCR 2012. [DOI: 10.1111/j.1463-6409.2012.00568.x] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
24
Przyboś E, Tarcz S, Prajer M, Surmacz M, Rautian M, Sawka N. Does high intraspecific variability of two genome fragments indicate a recent speciation process ofParamecium dodecaurelia(P. aureliaspecies complex, Ciliophora, Protozoa)? SYST BIODIVERS 2012. [DOI: 10.1080/14772000.2012.721403] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
25
Huang J, Dunthorn M, Song W. Expanding character sampling for the molecular phylogeny of euplotid ciliates (Protozoa, Ciliophora) using three markers, with a focus on the family Uronychiidae. Mol Phylogenet Evol 2012;63:598-605. [DOI: 10.1016/j.ympev.2012.02.007] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2011] [Revised: 01/05/2012] [Accepted: 02/01/2012] [Indexed: 10/28/2022]
26
Tarcz S, Potekhin A, Rautian M, Przyboś E. Variation in ribosomal and mitochondrial DNA sequences demonstrates the existence of intraspecific groups in Paramecium multimicronucleatum (Ciliophora, Oligohymenophorea). Mol Phylogenet Evol 2012;63:500-9. [DOI: 10.1016/j.ympev.2012.01.024] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2011] [Revised: 01/27/2012] [Accepted: 01/31/2012] [Indexed: 11/25/2022]
27
Dunthorn M, Katz LA, Stoeck T, Foissner W. Congruence and indifference between two molecular markers for understanding oral evolution in the Marynidae sensu lato (Ciliophora, Colpodea). Eur J Protistol 2012;48:297-304. [PMID: 22356924 PMCID: PMC3473355 DOI: 10.1016/j.ejop.2012.01.007] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2011] [Revised: 01/16/2012] [Accepted: 01/18/2012] [Indexed: 11/26/2022]
28
Katz LA, DeBerardinis J, Hall MS, Kovner AM, Dunthorn M, Muse SV. Heterogeneous rates of molecular evolution among cryptic species of the ciliate morphospecies Chilodonella uncinata. J Mol Evol 2012;73:266-72. [PMID: 22258433 DOI: 10.1007/s00239-011-9468-x] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2011] [Accepted: 10/24/2011] [Indexed: 11/27/2022]
29
Foissner W, Stoeck T, Agatha S, Dunthorn M. Intraclass evolution and classification of the Colpodea (Ciliophora). J Eukaryot Microbiol 2011;58:397-415. [PMID: 21762424 PMCID: PMC3280895 DOI: 10.1111/j.1550-7408.2011.00566.x] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
30
A two-locus molecular characterization of Paramecium calkinsi. Protist 2011;163:263-73. [PMID: 21798802 DOI: 10.1016/j.protis.2011.06.006] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2011] [Accepted: 06/25/2011] [Indexed: 11/23/2022]
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