Programmed DNA elimination of germline development genes in songbirds

被引：61

作者：

Kinsella, Cormac M. ^{[1
,8
]}

Ruiz-Ruano, Francisco J. ^{[1
,2
,9
]}

Dion-Cote, Anne-Marie ^{[1
,3
,10
]}

Charles, Alexander J. ^{[4
]}

Gossmann, Toni I. ^{[4
,11
]}

Cabrero, Josefa ^{[2
]}

Kappei, Dennis ^{[5
,6
]}

Hemmings, Nicola ^{[4
]}

Simons, Mirre J. P. ^{[4
]}

Camacho, Juan Pedro M. ^{[2
]}

Forstmeier, Wolfgang ^{[7
]}

Suh, Alexander ^{[1
,9
]}

机构：

[1] Uppsala Univ, Sci Life Lab, EBC, Dept Ecol & Genet Evolutionary Biol, SE-75236 Uppsala, Sweden

[2] Univ Granada, Dept Genet, E-18071 Granada, Spain

[3] Cornell Univ, Dept Mol Biol & Genet, Ithaca, NY 14853 USA

[4] Univ Sheffield, Dept Anim & Plant Sci, Sheffield S10 2TN, S Yorkshire, England

[5] Natl Univ Singapore, Canc Sci Inst Singapore, Singapore 117599, Singapore

[6] Natl Univ Singapore, Yong Loo Lin Sch Med, Dept Biochem, Singapore 117596, Singapore

[7] Max Planck Inst Ornithol, D-82319 Seewiesen, Germany

[8] Univ Amsterdam, Amsterdam UMC, Dept Med Microbiol, Lab Expt Virol, NL-1105 AZ Amsterdam, Netherlands

[9] Uppsala Univ, Sci Life Lab, EBC, Dept Organismal Biol Systemat Biol, SE-75236 Uppsala, Sweden

[10] Univ Moncton, Dept Biol, Moncton, NB E1A 3E9, Canada

[11] Bielefeld Univ, Dept Anim Behav, D-33501 Bielefeld, Germany

来源：

NATURE COMMUNICATIONS | 2019年 / 10卷 / 1期

基金：

瑞典研究理事会; 新加坡国家研究基金会; 加拿大自然科学与工程研究理事会;

关键词：

ZEBRA FINCH; RESTRICTED CHROMOSOME; PHYLOGENETIC ANALYSIS; MITOCHONDRIAL GENOME; ALIGNMENT; SEQUENCE; EVOLUTION; RATES; REARRANGEMENT; RECOMBINATION;

D O I：

10.1038/s41467-019-13427-4

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

In some eukaryotes, germline and somatic genomes differ dramatically in their composition. Here we characterise a major germline-soma dissimilarity caused by a germline-restricted chromosome (GRC) in songbirds. We show that the zebra finch GRC contains >115 genes paralogous to single-copy genes on 18 autosomes and the Z chromosome, and is enriched in genes involved in female gonad development. Many genes are likely functional, evidenced by expression in testes and ovaries at the RNA and protein level. Using comparative genomics, we show that genes have been added to the GRC over millions of years of evolution, with embryonic development genes bicc1 and trim71 dating to the ancestor of songbirds and dozens of other genes added very recently. The somatic elimination of this evolutionarily dynamic chromosome in songbirds implies a unique mechanism to minimise genetic conflict between germline and soma, relevant to antagonistic pleiotropy, an evolutionary process underlying ageing and sexual traits.

引用

页数：10

共 73 条

[61] Germline-restricted chromosome (GRC) is widespread among songbirds [J].

Torgasheva, Anna A. ;

Malinovskaya, Lyubov P. ;

Zadesenets, Kira S. ;

Karamysheva, Tatyana V. ;

Kizilova, Elena A. ;

Akberdina, Ekaterina A. ;

Pristyazhnyuk, Inna E. ;

Shnaider, Elena P. ;

Volodkina, Valeria A. ;

Saifitdinova, Alsu F. ;

Galkina, Svetlana A. ;

Larkin, Denis M. ;

Rubtsov, Nikolai B. ;

Borodin, Pavel M. .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2019, 116 (24) :11845-11850

[62] Tissue-based map of the human proteome [J].

Uhlen, Mathias ;

Fagerberg, Linn ;

Hallstroem, Bjoern M. ;

Lindskog, Cecilia ;

Oksvold, Per ;

Mardinoglu, Adil ;

Sivertsson, Asa ;

Kampf, Caroline ;

Sjoestedt, Evelina ;

Asplund, Anna ;

Olsson, IngMarie ;

Edlund, Karolina ;

Lundberg, Emma ;

Navani, Sanjay ;

Szigyarto, Cristina Al-Khalili ;

Odeberg, Jacob ;

Djureinovic, Dijana ;

Takanen, Jenny Ottosson ;

Hober, Sophia ;

Alm, Tove ;

Edqvist, Per-Henrik ;

Berling, Holger ;

Tegel, Hanna ;

Mulder, Jan ;

Rockberg, Johan ;

Nilsson, Peter ;

Schwenk, Jochen M. ;

Hamsten, Marica ;

von Feilitzen, Kalle ;

Forsberg, Mattias ;

Persson, Lukas ;

Johansson, Fredric ;

Zwahlen, Martin ;

von Heijne, Gunnar ;

Nielsen, Jens ;

Ponten, Fredrik .

SCIENCE, 2015, 347 (6220)

[63] Primer3-new capabilities and interfaces [J].

Untergasser, Andreas ;

Cutcutache, Ioana ;

Koressaar, Triinu ;

Ye, Jian ;

Faircloth, Brant C. ;

Remm, Maido ;

Rozen, Steven G. .

NUCLEIC ACIDS RESEARCH, 2012, 40 (15) :e115

[64] The zinc finger transcriptional repressor Blimp1/Prdm1 is dispensable for early axis formation but is required for specification of primordial germ cells in the mouse [J].

Vincent, SD ;

Dunn, NR ;

Sciammas, R ;

Shapiro-Shalef, M ;

Davis, MM ;

Calame, K ;

Bikoff, EK ;

Robertson, EJ .

DEVELOPMENT, 2005, 132 (06) :1315-1325

[65] Comparative genome analysis of programmed DNA elimination in nematodes [J].

Wang, Jianbin ;

Gao, Shenghan ;

Mostovoy, Yulia ;

Kang, Yuanyuan ;

Zagoskin, Maxim ;

Sun, Yongqiao ;

Zhang, Bing ;

White, Laura K. ;

Easton, Alice ;

Nutman, Thomas B. ;

Kwok, Pui-Yan ;

Hu, Songnian ;

Nielsen, Martin K. ;

Davis, Richard E. .

GENOME RESEARCH, 2017, 27 (12) :2001-2014

[66] Programmed DNA elimination in multicellular organisms [J].

Wang, Jianbin ;

Davis, Richard E. .

CURRENT OPINION IN GENETICS & DEVELOPMENT, 2014, 27 :26-34

[67] Silencing of Germline-Expressed Genes by DNA Elimination in Somatic Cells [J].

Wang, Jianbin ;

Mitreva, Makedonka ;

Berriman, Matthew ;

Thorne, Alicia ;

Magrini, Vincent ;

Koutsovoulos, Georgios ;

Kumar, Sujai ;

Blaxter, Mark L. ;

Davis, Richard E. .

DEVELOPMENTAL CELL, 2012, 23 (05) :1072-1080

[68] The genome of a songbird [J].

Warren, Wesley C. ;

Clayton, David F. ;

Ellegren, Hans ;

Arnold, Arthur P. ;

Hillier, LaDeana W. ;

Kuenstner, Axel ;

Searle, Steve ;

White, Simon ;

Vilella, Albert J. ;

Fairley, Susan ;

Heger, Andreas ;

Kong, Lesheng ;

Ponting, Chris P. ;

Jarvis, Erich D. ;

Mello, Claudio V. ;

Minx, Pat ;

Lovell, Peter ;

Velho, Tarciso A. F. ;

Ferris, Margaret ;

Balakrishnan, Christopher N. ;

Sinha, Saurabh ;

Blatti, Charles ;

London, Sarah E. ;

Li, Yun ;

Lin, Ya-Chi ;

George, Julia ;

Sweedler, Jonathan ;

Southey, Bruce ;

Gunaratne, Preethi ;

Watson, Michael ;

Nam, Kiwoong ;

Backstroem, Niclas ;

Smeds, Linnea ;

Nabholz, Benoit ;

Itoh, Yuichiro ;

Whitney, Osceola ;

Pfenning, Andreas R. ;

Howard, Jason ;

Voelker, Martin ;

Skinner, Bejamin M. ;

Griffin, Darren K. ;

Ye, Liang ;

McLaren, William M. ;

Flicek, Paul ;

Quesada, Victor ;

Velasco, Gloria ;

Lopez-Otin, Carlos ;

Puente, Xose S. ;

Olender, Tsviya ;

Lancet, Doron .

NATURE, 2010, 464 (7289) :757-762

[69] Correlated variation and population differentiation in satellite DNA abundance among lines of Drosophila melanogaster [J].

Wei, Kevin H. -C. ;

Grenier, Jennifer K. ;

Barbash, Daniel A. ;

Clark, Andrew G. .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2014, 111 (52) :18793-18798

[70] Direct determination of diploid genome sequences [J].

Weisenfeld, Neil I. ;

Kumar, Vijay ;

Shah, Preyas ;

Church, Deanna M. ;

Jaffe, David B. .

GENOME RESEARCH, 2017, 27 (05) :757-767

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