Conserved chromatin and repetitive patterns reveal slow genome evolution in frogs
Author
Abstract
Suggested Citation
DOI: 10.1038/s41467-023-43012-9
Download full text from publisher
References listed on IDEAS
- Martin Mascher & Heidrun Gundlach & Axel Himmelbach & Sebastian Beier & Sven O. Twardziok & Thomas Wicker & Volodymyr Radchuk & Christoph Dockter & Pete E. Hedley & Joanne Russell & Micha Bayer & Luke, 2017. "A chromosome conformation capture ordered sequence of the barley genome," Nature, Nature, vol. 544(7651), pages 427-433, April.
- Andreea Dréau & Vrinda Venu & Elena Avdievich & Ludmila Gaspar & Felicity C. Jones, 2019. "Genome-wide recombination map construction from single individuals using linked-read sequencing," Nature Communications, Nature, vol. 10(1), pages 1-11, December.
- Tim J. Stevens & David Lando & Srinjan Basu & Liam P. Atkinson & Yang Cao & Steven F. Lee & Martin Leeb & Kai J. Wohlfahrt & Wayne Boucher & Aoife O’Shaughnessy-Kirwan & Julie Cramard & Andre J. Faure, 2017. "3D structures of individual mammalian genomes studied by single-cell Hi-C," Nature, Nature, vol. 544(7648), pages 59-64, April.
- Sergej Nowoshilow & Siegfried Schloissnig & Ji-Feng Fei & Andreas Dahl & Andy W. C. Pang & Martin Pippel & Sylke Winkler & Alex R. Hastie & George Young & Juliana G. Roscito & Francisco Falcon & Dunja, 2018. "The axolotl genome and the evolution of key tissue formation regulators," Nature, Nature, vol. 554(7690), pages 50-55, February.
- Sergej Nowoshilow & Siegfried Schloissnig & Ji-Feng Fei & Andreas Dahl & Andy W. C. Pang & Martin Pippel & Sylke Winkler & Alex R. Hastie & George Young & Juliana G. Roscito & Francisco Falcon & Dunja, 2018. "Author Correction: The axolotl genome and the evolution of key tissue formation regulators," Nature, Nature, vol. 559(7712), pages 2-2, July.
- Zhijun Duan & Mirela Andronescu & Kevin Schutz & Sean McIlwain & Yoo Jung Kim & Choli Lee & Jay Shendure & Stanley Fields & C. Anthony Blau & William S. Noble, 2010. "A three-dimensional model of the yeast genome," Nature, Nature, vol. 465(7296), pages 363-367, May.
- Ross A. Alford & Philip M. Dixon & Joseph H. K. Pechmann, 2001. "Global amphibian population declines," Nature, Nature, vol. 412(6846), pages 499-500, August.
- Andrew R. Blaustein & Andy Dobson, 2006. "A message from the frogs," Nature, Nature, vol. 439(7073), pages 143-144, January.
- Brian Leung & Anna L. Hargreaves & Dan A. Greenberg & Brian McGill & Maria Dornelas & Robin Freeman, 2020. "Clustered versus catastrophic global vertebrate declines," Nature, Nature, vol. 588(7837), pages 267-271, December.
- Jun Li & Haiyan Yu & Wenxia Wang & Chao Fu & Wei Zhang & Fengming Han & Hua Wu, 2019. "Genomic and transcriptomic insights into molecular basis of sexually dimorphic nuptial spines in Leptobrachium leishanense," Nature Communications, Nature, vol. 10(1), pages 1-13, December.
- Adam M. Session & Yoshinobu Uno & Taejoon Kwon & Jarrod A. Chapman & Atsushi Toyoda & Shuji Takahashi & Akimasa Fukui & Akira Hikosaka & Atsushi Suzuki & Mariko Kondo & Simon J. van Heeringen & Ian Qu, 2016. "Genome evolution in the allotetraploid frog Xenopus laevis," Nature, Nature, vol. 538(7625), pages 336-343, October.
Most related items
These are the items that most often cite the same works as this one and are cited by the same works as this one.- Guang Shi & D. Thirumalai, 2023. "A maximum-entropy model to predict 3D structural ensembles of chromatin from pairwise distances with applications to interphase chromosomes and structural variants," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
- Yenny Villuendas-Rey & José L. Velázquez-Rodríguez & Mariana Dayanara Alanis-Tamez & Marco-Antonio Moreno-Ibarra & Cornelio Yáñez-Márquez, 2021. "Mexican Axolotl Optimization: A Novel Bioinspired Heuristic," Mathematics, MDPI, vol. 9(7), pages 1-20, April.
- Milad Mokhtaridoost & Jordan J. Chalmers & Marzieh Soleimanpoor & Brandon J. McMurray & Daniella F. Lato & Son C. Nguyen & Viktoria Musienko & Joshua O. Nash & Sergio Espeso-Gil & Sameen Ahmed & Kate , 2024. "Inter-chromosomal contacts demarcate genome topology along a spatial gradient," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
- Adriana Arneson & Amin Haghani & Michael J. Thompson & Matteo Pellegrini & Soo Bin Kwon & Ha Vu & Emily Maciejewski & Mingjia Yao & Caesar Z. Li & Ake T. Lu & Marco Morselli & Liudmilla Rubbi & Bret B, 2022. "A mammalian methylation array for profiling methylation levels at conserved sequences," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
- Peng Liu & Jessica Ewald & Zhiqiang Pang & Elena Legrand & Yeon Seon Jeon & Jonathan Sangiovanni & Orcun Hacariz & Guangyan Zhou & Jessica A. Head & Niladri Basu & Jianguo Xia, 2023. "ExpressAnalyst: A unified platform for RNA-sequencing analysis in non-model species," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
- Cassie L. Kemmler & Jana Smolikova & Hannah R. Moran & Brandon J. Mannion & Dunja Knapp & Fabian Lim & Anna Czarkwiani & Viviana Hermosilla Aguayo & Vincent Rapp & Olivia E. Fitch & Seraina Bötschi & , 2023. "Conserved enhancers control notochord expression of vertebrate Brachyury," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
- Fang Ye & Guodong Zhang & Weigao E. & Haide Chen & Chengxuan Yu & Lei Yang & Yuting Fu & Jiaqi Li & Sulei Fu & Zhongyi Sun & Lijiang Fei & Qile Guo & Jingjing Wang & Yanyu Xiao & Xinru Wang & Peijing , 2022. "Construction of the axolotl cell landscape using combinatorial hybridization sequencing at single-cell resolution," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
- Surya K Ghosh & Daniel Jost, 2018. "How epigenome drives chromatin folding and dynamics, insights from efficient coarse-grained models of chromosomes," PLOS Computational Biology, Public Library of Science, vol. 14(5), pages 1-26, May.
- Camilla S. Colding-Christensen & Ellen S. Kakulidis & Javier Arroyo-Gomez & Ivo A. Hendriks & Connor Arkinson & Zita Fábián & Agnieszka Gambus & Niels Mailand & Julien P. Duxin & Michael L. Nielsen, 2023. "Profiling ubiquitin signalling with UBIMAX reveals DNA damage- and SCFβ-Trcp1-dependent ubiquitylation of the actin-organizing protein Dbn1," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
- Alon Diament & Tamir Tuller, 2015. "Improving 3D Genome Reconstructions Using Orthologous and Functional Constraints," PLOS Computational Biology, Public Library of Science, vol. 11(5), pages 1-22, May.
- Olga Afanasenko & Irina Rozanova & Anastasiia Gofman & Nina Lashina & Fluturë Novakazi & Nina Mironenko & Olga Baranova & Alexandr Zubkovich, 2022. "Validation of Molecular Markers of Barley Net Blotch Resistance Loci on Chromosome 3H for Marker-Assisted Selection," Agriculture, MDPI, vol. 12(4), pages 1-20, March.
- Seungsoo Hahn & Dongsup Kim, 2015. "Identifying and Reducing Systematic Errors in Chromosome Conformation Capture Data," PLOS ONE, Public Library of Science, vol. 10(12), pages 1-17, December.
- Taikui Zhang & Weichen Huang & Lin Zhang & De-Zhu Li & Ji Qi & Hong Ma, 2024. "Phylogenomic profiles of whole-genome duplications in Poaceae and landscape of differential duplicate retention and losses among major Poaceae lineages," Nature Communications, Nature, vol. 15(1), pages 1-27, December.
- Heiner Kuhl & Kang Du & Manfred Schartl & Lukáš Kalous & Matthias Stöck & Dunja K. Lamatsch, 2022. "Equilibrated evolution of the mixed auto-/allopolyploid haplotype-resolved genome of the invasive hexaploid Prussian carp," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
- Yufan Zhou & Tian Li & Lavanya Choppavarapu & Kun Fang & Shili Lin & Victor X. Jin, 2024. "Integration of scHi-C and scRNA-seq data defines distinct 3D-regulated and biological-context dependent cell subpopulations," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
- Ming-Ju Amy Lyu & Huilong Du & Hongyan Yao & Zhiguo Zhang & Genyun Chen & Yuhui Huang & Xiaoxiang Ni & Faming Chen & Yong-Yao Zhao & Qiming Tang & Fenfen Miao & Yanjie Wang & Yuhui Zhao & Hongwei Lu &, 2025. "A dominant role of transcriptional regulation during the evolution of C4 photosynthesis in Flaveria species," Nature Communications, Nature, vol. 16(1), pages 1-17, December.
- Habteab Goitom Gebremedhin & Yahui Li & Jinghuang Hu & Dan Qiu & Qiuhong Wu & Hongjun Zhang & Li Yang & Yang Zhou & Yijun Zhou & Zhiyong Liu & Peng Zhang & Hongjie Li, 2022. "Development of KASP and SSR Markers for PmQ , a Recessive Gene Conferring Powdery Mildew Resistance in Wheat Landrace Qingxinmai," Agriculture, MDPI, vol. 12(9), pages 1-10, August.
- Yi Liao & Juntao Wang & Zhangsheng Zhu & Yuanlong Liu & Jinfeng Chen & Yongfeng Zhou & Feng Liu & Jianjun Lei & Brandon S. Gaut & Bihao Cao & J. J. Emerson & Changming Chen, 2022. "The 3D architecture of the pepper genome and its relationship to function and evolution," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
- Jonas Paulsen & Odin Gramstad & Philippe Collas, 2015. "Manifold Based Optimization for Single-Cell 3D Genome Reconstruction," PLOS Computational Biology, Public Library of Science, vol. 11(8), pages 1-19, August.
- Chave, Jérôme & Norden, Natalia, 2007. "Changes of species diversity in a simulated fragmented neutral landscape," Ecological Modelling, Elsevier, vol. 207(1), pages 3-10.
Corrections
All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-023-43012-9. See general information about how to correct material in RePEc.
If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.
If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .
If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.
For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .
Please note that corrections may take a couple of weeks to filter through the various RePEc services.