• Je něco špatně v tomto záznamu ?

Repeat Composition of CenH3-chromatin and H3K9me2-marked heterochromatin in Sugar Beet (Beta vulgaris)

T. Kowar, F. Zakrzewski, J. Macas, A. Kobližková, P. Viehoever, B. Weisshaar, T. Schmidt,

. 2016 ; 16 (1) : 120. [pub] 20160526

Jazyk angličtina Země Anglie, Velká Británie

Typ dokumentu časopisecké články

Perzistentní odkaz   https://www.medvik.cz/link/bmc17031701

BACKGROUND: Sugar beet (Beta vulgaris) is an important crop of temperate climate zones, which provides nearly 30 % of the world's annual sugar needs. From the total genome size of 758 Mb, only 567 Mb were incorporated in the recently published genome sequence, due to the fact that regions with high repetitive DNA contents (e.g. satellite DNAs) are only partially included. Therefore, to fill these gaps and to gain information about the repeat composition of centromeres and heterochromatic regions, we performed chromatin immunoprecipitation followed by sequencing (ChIP-Seq) using antibodies against the centromere-specific histone H3 variant of sugar beet (CenH3) and the heterochromatic mark of dimethylated lysine 9 of histone H3 (H3K9me2). RESULTS: ChIP-Seq analysis revealed that active centromeres containing CenH3 consist of the satellite pBV and the Ty3-gypsy retrotransposon Beetle7, while heterochromatin marked by H3K9me2 exhibits heterogeneity in repeat composition. H3K9me2 was mainly associated with the satellite family pEV, the Ty1-copia retrotransposon family Cotzilla and the DNA transposon superfamily of the En/Spm type. In members of the section Beta within the genus Beta, immunostaining using the CenH3 antibody was successful, indicating that orthologous CenH3 proteins are present in closely related species within this section. CONCLUSIONS: The identification of repetitive genome portions by ChIP-Seq experiments complemented the sugar beet reference sequence by providing insights into the repeat composition of poorly characterized CenH3-chromatin and H3K9me2-heterochromatin. Therefore, our work provides the basis for future research and application concerning the sugar beet centromere and repeat-rich heterochromatic regions characterized by the presence of H3K9me2.

Citace poskytuje Crossref.org

000      
00000naa a2200000 a 4500
001      
bmc17031701
003      
CZ-PrNML
005      
20171030123559.0
007      
ta
008      
171025s2016 enk f 000 0|eng||
009      
AR
024    7_
$a 10.1186/s12870-016-0805-5 $2 doi
035    __
$a (PubMed)27230558
040    __
$a ABA008 $b cze $d ABA008 $e AACR2
041    0_
$a eng
044    __
$a enk
100    1_
$a Kowar, Teresa $u Department of Plant Cell and Molecular Biology, TU Dresden, Dresden, D-01062, Germany.
245    10
$a Repeat Composition of CenH3-chromatin and H3K9me2-marked heterochromatin in Sugar Beet (Beta vulgaris) / $c T. Kowar, F. Zakrzewski, J. Macas, A. Kobližková, P. Viehoever, B. Weisshaar, T. Schmidt,
520    9_
$a BACKGROUND: Sugar beet (Beta vulgaris) is an important crop of temperate climate zones, which provides nearly 30 % of the world's annual sugar needs. From the total genome size of 758 Mb, only 567 Mb were incorporated in the recently published genome sequence, due to the fact that regions with high repetitive DNA contents (e.g. satellite DNAs) are only partially included. Therefore, to fill these gaps and to gain information about the repeat composition of centromeres and heterochromatic regions, we performed chromatin immunoprecipitation followed by sequencing (ChIP-Seq) using antibodies against the centromere-specific histone H3 variant of sugar beet (CenH3) and the heterochromatic mark of dimethylated lysine 9 of histone H3 (H3K9me2). RESULTS: ChIP-Seq analysis revealed that active centromeres containing CenH3 consist of the satellite pBV and the Ty3-gypsy retrotransposon Beetle7, while heterochromatin marked by H3K9me2 exhibits heterogeneity in repeat composition. H3K9me2 was mainly associated with the satellite family pEV, the Ty1-copia retrotransposon family Cotzilla and the DNA transposon superfamily of the En/Spm type. In members of the section Beta within the genus Beta, immunostaining using the CenH3 antibody was successful, indicating that orthologous CenH3 proteins are present in closely related species within this section. CONCLUSIONS: The identification of repetitive genome portions by ChIP-Seq experiments complemented the sugar beet reference sequence by providing insights into the repeat composition of poorly characterized CenH3-chromatin and H3K9me2-heterochromatin. Therefore, our work provides the basis for future research and application concerning the sugar beet centromere and repeat-rich heterochromatic regions characterized by the presence of H3K9me2.
650    _2
$a Beta vulgaris $x genetika $x metabolismus $7 D027461
650    _2
$a centromera $x metabolismus $7 D002503
650    _2
$a chromatin $x genetika $x metabolismus $7 D002843
650    _2
$a chromatinová imunoprecipitace $7 D047369
650    _2
$a heterochromatin $x genetika $x metabolismus $7 D006570
650    _2
$a histony $x metabolismus $7 D006657
650    _2
$a lysin $x metabolismus $7 D008239
650    _2
$a rostlinné proteiny $x genetika $x metabolismus $7 D010940
650    _2
$a sekvenční analýza DNA $7 D017422
655    _2
$a časopisecké články $7 D016428
700    1_
$a Zakrzewski, Falk $u Department of Plant Cell and Molecular Biology, TU Dresden, Dresden, D-01062, Germany.
700    1_
$a Macas, Jiří $u Biology Centre ASCR, Institute of Plant Molecular Biology, Branišovská 31, Česke Budějovice, CZ-37005, Czech Republic.
700    1_
$a Kobližková, Andrea $u Biology Centre ASCR, Institute of Plant Molecular Biology, Branišovská 31, Česke Budějovice, CZ-37005, Czech Republic.
700    1_
$a Viehoever, Prisca $u CeBiTec & Faculty of Biology, Bielefeld University, Universitätsstr. 25, Bielefeld, D-33615, Germany.
700    1_
$a Weisshaar, Bernd $u CeBiTec & Faculty of Biology, Bielefeld University, Universitätsstr. 25, Bielefeld, D-33615, Germany. bernd.weisshaar@uni-bielefeld.de.
700    1_
$a Schmidt, Thomas $u Department of Plant Cell and Molecular Biology, TU Dresden, Dresden, D-01062, Germany.
773    0_
$w MED00006798 $t BMC plant biology $x 1471-2229 $g Roč. 16, č. 1 (2016), s. 120
856    41
$u https://pubmed.ncbi.nlm.nih.gov/27230558 $y Pubmed
910    __
$a ABA008 $b sig $c sign $y a $z 0
990    __
$a 20171025 $b ABA008
991    __
$a 20171030123648 $b ABA008
999    __
$a ok $b bmc $g 1255294 $s 992728
BAS    __
$a 3
BAS    __
$a PreBMC
BMC    __
$a 2016 $b 16 $c 1 $d 120 $e 20160526 $i 1471-2229 $m Bmc plant biology $n BMC Plant Biol $x MED00006798
LZP    __
$a Pubmed-20171025

Najít záznam

Citační ukazatele

Možnosti archivace