BAL31-NGS approach for identification of telomeres de novo in large genomes

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F68081707%3A_____%2F17%3A00485749" target="_blank" >RIV/68081707:_____/17:00485749 - isvavai.cz</a>

Alternative codes found

RIV/00216224:14740/17:00095506

Result on the web

<a href="http://dx.doi.org/10.1016/j.ymeth.2016.08.017" target="_blank" >http://dx.doi.org/10.1016/j.ymeth.2016.08.017</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1016/j.ymeth.2016.08.017" target="_blank" >10.1016/j.ymeth.2016.08.017</a>

Result language

angličtina

Original language name

BAL31-NGS approach for identification of telomeres de novo in large genomes

Original language description

This article describes a novel method to identify as yet undiscovered telomere sequences, which combines next generation sequencing (NGS) with BAL31 digestion of high molecular weight DNA. The method was applied to two groups of plants: i) dicots, genus Cestrum, and ii) monocots, Allium species (e.g. A. ursinum and A. cepa). Both groups consist of species with large genomes (tens of Gb) and a low number of chromosomes (2n =14-16), full of repeat elements. Both genera lack typical telomeric repeats and multiple studies have attempted to characterize alternative telomeric sequences. However, despite interesting hypotheses and suggestions of alternative candidate telomeres (retrotransposons, rDNA, satellite repeats) these studies have not resolved the question. In a novel approach based on the two most general features of eukaryotic telomeres, their repetitive character and sensitivity to BAL31 nuclease digestion, we have taken advantage of the capacity and current affordability of NGS in combination with the robustness of classical BAL31 nuclease digestion of chromosomal termini. While representative samples of most repeat elements were ensured by low-coverage (less than 5%) genomic shot-gun NGS, candidate telomeres were identified as under-represented sequences in BAL31-treated samples. (C) 2016 Elsevier Inc. All rights reserved.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

10608 - Biochemistry and molecular biology

Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year

2017

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Methods

ISSN

1046-2023

e-ISSN

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Volume of the periodical

114

Issue of the periodical within the volume

FEB2017

Country of publishing house

US - UNITED STATES

Number of pages

12

Pages from-to

16-27

UT code for WoS article

000393251500003

EID of the result in the Scopus database

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