0548344 - BC 2022 RIV SE eng J - Článek v odborném periodiku
Vondrak, Tihana - Oliveira, Ludmila - Novák, Petr - Koblížková, Andrea - Neumann, Pavel - Macas, Jiří
Complex sequence organization of heterochromatin in the holocentric plant Cuscuta europaea elucidated by the computational analysis of nanopore reads.
Computational and Structural Biotechnology Journal. Roč. 19, Apr 22 (2021), s. 2179-2189. ISSN 2001-0370. E-ISSN 2001-0370
Grant CEP: GA ČR(CZ) GA20-24252S; GA MŠMT(CZ) LM2018131
Výzkumná infrastruktura: ELIXIR-CZ II - 90131
Institucionální podpora: RVO:60077344
Klíčová slova: Satellite DNA * Heterochromatin * Oxford Nanopore sequencing * Fluorescence in situ hybridization * Holocentric chromosomes * LINE elements
Obor OECD: Genetics and heredity (medical genetics to be 3)
Impakt faktor: 6.155, rok: 2021 ; AIS: 1.475, rok: 2021
Způsob publikování: Open access
Web výsledku:
https://www.sciencedirect.com/science/article/pii/S2001037021001227?via%3DihubDOI: https://doi.org/10.1016/j.csbj.2021.04.011

Repeat-rich regions of higher plant genomes are usually associated with constitutive heterochromatin, a specific type of chromatin that forms tightly packed nuclear chromocenters and chromosome bands. There is a large body of cytogenetic evidence that these chromosome regions are often composed of tandemly organized satellite DNA. However, comparatively little is known about the sequence arrangement within heterochromatic regions, which are difficult to assemble due to their repeated nature. Here, we explore long-range sequence organization of heterochromatin regions containing the major satellite repeat CUS-TR24 in the holocentric plant Cuscuta europaea. Using a combination of ultra-long read sequencing with assembly-free sequence analysis, we reveal the complex structure of these loci, which are composed of short arrays of CUS-TR24 interrupted frequently by emerging simple sequence repeats and targeted insertions of a specific lineage of LINE retrotransposons. These data suggest that the organization of satellite repeats constituting heterochromatic chromosome bands can be more complex than previously envisioned, and demonstrate that heterochromatin organization can be efficiently investigated without the need for genome assembly. (C) 2021 The Author(s). Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology.
Trvalý link: http://hdl.handle.net/11104/0329092