Extremely High Copy Numbers and Polymorphisms of the rDNA Operon Estimated from Single Cell Analysis of Oligotrich and Peritrich Ciliates
11 pages, 3 figures, 2 tables
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| Format: | artículo biblioteca |
| Language: | English |
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Elsevier
2013-05
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| Subjects: | Ciliophora, Copy number, Intragenomic variability, rDNA, Quantitative PCR, Sequence polymorphism, PCR, |
| Online Access: | http://hdl.handle.net/10261/76224 |
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dig-icm-es-10261-762242020-12-01T13:18:25Z Extremely High Copy Numbers and Polymorphisms of the rDNA Operon Estimated from Single Cell Analysis of Oligotrich and Peritrich Ciliates Gong, Jun Dong, Jun Liu, Xihan Massana, Ramon Ciliophora Copy number Intragenomic variability rDNA Quantitative PCR Sequence polymorphism PCR 11 pages, 3 figures, 2 tables The copy number and sequence variation of the ribosomal DNA (rDNA) operon are of functional significance in evolution and ecology of organisms. However, the relationship between copy number and sequence variation of rDNA in protists has been rarely studied. Here we quantified rDNA copy numbers of oligotrich and peritrich ciliate species using single-cell quantitative PCR. We also examined the rDNA sequence variation by using single-cell PCR, cloning, and sequencing of multiple clones. We found that the rDNA copy numbers per cell were extremely high and different among even congeners, with the highest record of about 310,000. There was substantial intraindividual haplotype diversity and nucleotide diversity for the rDNA markers, with sequence differences primarily characterized by single nucleotide polymorphisms. Haplotype and nucleotide diversity was positively correlated to the rDNA copy number. Our findings provide evidence that: (1) ciliates generally have much higher rDNA copy numbers than other protists and fungi, which could lead to overestimation of the relative abundance of ciliates in environmental samples when rDNA sequence-based methodologies are used; and that (2) the rDNA might not always evolve in a strictly concerted manner in ciliates, which may raise problems in rDNA-based inference of species richness and phylogeny This work was supported by the One Hundred Talent Program of CAS, the Natural Science Foundation of China (grant Nos. 40976099 and 41176143), the Natural Science Foundation for Distinguished Young Scholars of Shandong (No. JQ201210), and a grant from FANEDD (No. 2007B27) to JG Peer reviewed 2013-05-17T07:57:23Z 2013-05-17T07:57:23Z 2013-05 artículo http://purl.org/coar/resource_type/c_6501 Protist 164(3): 369-379 (2013) 1434-4610 http://hdl.handle.net/10261/76224 10.1016/j.protis.2012.11.006 1618-0941 en https://doi.org/10.1016/j.protis.2012.11.006 none Elsevier |
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Ciliophora Copy number Intragenomic variability rDNA Quantitative PCR Sequence polymorphism PCR Ciliophora Copy number Intragenomic variability rDNA Quantitative PCR Sequence polymorphism PCR |
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Ciliophora Copy number Intragenomic variability rDNA Quantitative PCR Sequence polymorphism PCR Ciliophora Copy number Intragenomic variability rDNA Quantitative PCR Sequence polymorphism PCR Gong, Jun Dong, Jun Liu, Xihan Massana, Ramon Extremely High Copy Numbers and Polymorphisms of the rDNA Operon Estimated from Single Cell Analysis of Oligotrich and Peritrich Ciliates |
| description |
11 pages, 3 figures, 2 tables |
| format |
artículo |
| topic_facet |
Ciliophora Copy number Intragenomic variability rDNA Quantitative PCR Sequence polymorphism PCR |
| author |
Gong, Jun Dong, Jun Liu, Xihan Massana, Ramon |
| author_facet |
Gong, Jun Dong, Jun Liu, Xihan Massana, Ramon |
| author_sort |
Gong, Jun |
| title |
Extremely High Copy Numbers and Polymorphisms of the rDNA Operon Estimated from Single Cell Analysis of Oligotrich and Peritrich Ciliates |
| title_short |
Extremely High Copy Numbers and Polymorphisms of the rDNA Operon Estimated from Single Cell Analysis of Oligotrich and Peritrich Ciliates |
| title_full |
Extremely High Copy Numbers and Polymorphisms of the rDNA Operon Estimated from Single Cell Analysis of Oligotrich and Peritrich Ciliates |
| title_fullStr |
Extremely High Copy Numbers and Polymorphisms of the rDNA Operon Estimated from Single Cell Analysis of Oligotrich and Peritrich Ciliates |
| title_full_unstemmed |
Extremely High Copy Numbers and Polymorphisms of the rDNA Operon Estimated from Single Cell Analysis of Oligotrich and Peritrich Ciliates |
| title_sort |
extremely high copy numbers and polymorphisms of the rdna operon estimated from single cell analysis of oligotrich and peritrich ciliates |
| publisher |
Elsevier |
| publishDate |
2013-05 |
| url |
http://hdl.handle.net/10261/76224 |
| work_keys_str_mv |
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| _version_ |
1777665909967552512 |