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Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome
Hamilton, Eileen P.1; Kapusta, Aurelie2; Huvos, Piroska E.3; Bidwell, Shelby L.4; Zafar, Nikhat4; Tang, Haibao4; Hadjithomas, Michalis4; Krishnakumar, Vivek4; Badger, Jonathan H.4; Caler, Elisabet V.4; Russ, Carsten5; Zeng, Qiandong5; Fan, Lin5; Levin, Joshua Z.5; Shea, Terrance5; Young, Sarah K.5; Hegarty, Ryan5; Daza, Riza5; Gujja, Sharvari5; Wortman, Jennifer R.5; Birren, Bruce W.5; Nusbaum, Chad5; Thomas, Jainy2; Carey, Clayton M.2; Pritham, Ellen J.2; Feschotte, Cedric2; Noto, Tomoko6; Mochizuki, Kazufumi6; Papazyan, Romeo7; Taverna, Sean D.7; Dear, Paul H.8; Cassidy-Hanley, Donna M.9; Xiong, Jie10; Miao, Wei10; Orias, Eduardo1; Coyne, Robert S.4
2016-11-28
Source PublicationELIFE
ISSN2050-084X
Volume5Issue:1Pages:46
Abstract

The germline genome of the binucleated ciliate Tetrahymena thermophila undergoes programmed chromosome breakage and massive DNA elimination to generate the somatic genome. Here, we present a complete sequence assembly of the germline genome and analyze multiple features of its structure and its relationship to the somatic genome, shedding light on the mechanisms of genome rearrangement as well as the evolutionary history of this remarkable germline/soma differentiation. Our results strengthen the notion that a complex, dynamic, and ongoing interplay between mobile DNA elements and the host genome have shaped Tetrahymena chromosome structure, locally and globally. Non-standard outcomes of rearrangement events, including the generation of short-lived somatic chromosomes and excision of DNA interrupting protein-coding regions, may represent novel forms of developmental gene regulation. We also compare Tetrahymenas germline/soma differentiation to that of other characterized ciliates, illustrating the wide diversity of adaptations that have occurred within this phylum.

DOI10.7554/eLife.19090
Funding OrganizationNational Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation
Indexed BySCI
Language英语
Funding ProjectNational Institutes of Health[GM077582] ; Natural Science Foundation of Hubei Province[31525021] ; National Science Foundation[MCB-1158346]
WOS Research AreaLife Sciences & Biomedicine - Other Topics
WOS SubjectBiology
WOS IDWOS:000391710700001
WOS KeywordCHROMOSOME BREAKAGE SITES ; PROGRAMMED DNA ELIMINATION ; CIS-ACTING SEQUENCES ; RIBOSOMAL-RNA GENE ; PARAMECIUM-TETRAURELIA ; TRANSPOSABLE ELEMENTS ; WIDE CHARACTERIZATION ; CHROMATIN DIMINUTION ; V(D)J RECOMBINATION ; NUCLEOTIDE-SEQUENCE
PublisherELIFE SCIENCES PUBLICATIONS LTD
Funding OrganizationNational Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; National Institutes of Health ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; Natural Science Foundation of Hubei Province ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation ; National Science Foundation
Citation statistics
Cited Times:40[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/33129
Collection水生生物分子与细胞生物学研究中心_期刊论文
Corresponding AuthorCoyne, Robert S.
Affiliation1.Univ Calif Santa Barbara, Dept Mol Cellular & Dev Biol, Santa Barbara, CA 93106 USA
2.Univ Utah, Sch Med, Dept Human Genet, Salt Lake City, UT 84132 USA
3.Southern Illinois Univ, Biochem & Mol Biol, Carbondale, IL USA
4.J Craig Venter Inst, Rockville, MD USA
5.Eli & Edythe L Broad Inst Harvard & MIT, Cambridge, MA USA
6.Inst Mol Biotechnol, Vienna, Austria
7.Johns Hopkins Univ, Sch Med, Dept Pharmacol & Mol Sci, Baltimore, MD 21205 USA
8.MRC Lab Mol Biol, Cambridge, England
9.Cornell Univ, Dept Microbiol & Immunol, Ithaca, NY USA
10.Chinese Acad Sci, Inst Hydrobiol, Wuhan, Peoples R China
Recommended Citation
GB/T 7714
Hamilton, Eileen P.,Kapusta, Aurelie,Huvos, Piroska E.,et al. Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome[J]. ELIFE,2016,5(1):46.
APA Hamilton, Eileen P..,Kapusta, Aurelie.,Huvos, Piroska E..,Bidwell, Shelby L..,Zafar, Nikhat.,...&Coyne, Robert S..(2016).Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome.ELIFE,5(1),46.
MLA Hamilton, Eileen P.,et al."Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome".ELIFE 5.1(2016):46.
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