Result Details

Satellite DNA and Transposable Elements in Seabuckthorn (Hippophae rhamnoides), a Dioecious Plant with Small Y and Large X Chromosomes

PUTEROVÁ, J.; RAZUMOVA, O.; MARTÍNEK, T.; ALEXANDROV, O.; DIVASHUK, M.; KUBÁT, Z.; HOBZA, R.; KARLOV, G.; KEJNOVSKÝ, E. Satellite DNA and Transposable Elements in Seabuckthorn (Hippophae rhamnoides), a Dioecious Plant with Small Y and Large X Chromosomes. Genome Biology and Evolution, 2017, vol. 9, no. 1, p. 197-212. ISSN: 1759-6653.
Type
journal article
Language
English
Authors
Puterová Janka, Ing., Ph.D., DIFS (FIT)
Razumova Olga
Martínek Tomáš, doc. Ing., Ph.D., DCSY (FIT)
Alexandrov Oleg
Divashuk Mikhail
Kubát Zdeněk
Hobza Roman
Karlov Gennady
Kejnovský Eduard, doc. RNDr., CSc.
Abstract


Seabuckthorn (Hippophae rhamnoides) is a dioecious shrub commonly used in the pharmaceutical, cosmetic, and environmental
industry as a source of oil, minerals and vitamins. In this study, we analyzed the transposable elements and satellites in its genome.We
carried out Illumina DNA sequencing and reconstructed the main repetitive DNA sequences. For data analysis, we developed a new
bioinformatics approach for advanced satellite DNA analysis and showed that about 25% of the genome consists of satellite DNA and
about 24% is formed of transposable elements, dominated by Ty3/Gypsy and Ty1/Copia LTR retrotransposons. FISH mapping
revealed X chromosome-accumulated, Y chromosome-specific or both sex chromosomes-accumulated satellites but most satellites
were found on autosomes. Transposable elements were located mostly in the subtelomeres of all chromosomes. The 5S rDNA and
45S rDNA were localized on one autosomal locus each. Although we demonstrated the small size of the Y chromosome of the
seabuckthorn and accumulated satellite DNA there, we were unable to estimate the age and extent of the Y chromosome degeneration.
Analysis of dioecious relatives such as Shepherdia would shed more light on the evolution of these sex chromosomes.

Keywords

sex chromosomes, genome composition, chromosomal localization, repetitive DNA

URL
Published
2017
Pages
197–212
Journal
Genome Biology and Evolution, vol. 9, no. 1, ISSN 1759-6653
DOI
10.1093/gbe/evw303
UT WoS
000396057400016
EID Scopus
2-s2.0-85016261483
BibTeX 
@article{BUT144426,
  author="Janka {Puterová} and Olga {Razumova} and Tomáš {Martínek} and Oleg {Alexandrov} and Mikhail {Divashuk} and Zdeněk {Kubát} and Roman {Hobza} and Gennady {Karlov} and Eduard {Kejnovský}",
  title="Satellite DNA and Transposable Elements in Seabuckthorn (Hippophae rhamnoides), a Dioecious Plant with Small Y and Large X Chromosomes",
  journal="Genome Biology and Evolution",
  year="2017",
  volume="9",
  number="1",
  pages="197--212",
  doi="10.1093/gbe/evw303",
  issn="1759-6653",
  url="https://academic.oup.com/gbe/article/9/1/197/2830930"
}
Files
Projects
IT4Innovations excellence in science, MŠMT, Národní program udržitelnosti II, LQ1602, start: 2016-01-01, end: 2020-12-31, completed
Výzkum pokročilých metod ICT a jejich aplikace, BUT, Vnitřní projekty VUT, FIT-S-14-2299, start: 2014-01-01, end: 2016-12-31, completed
Departments
Department of Information Systems (DIFS)
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