• Je něco špatně v tomto záznamu ?

LTR retrotransposon dynamics in the evolution of the olive (Olea europaea) genome

E. Barghini, L. Natali, T. Giordani, RM. Cossu, S. Scalabrin, F. Cattonaro, H. Šimková, J. Vrána, J. Doležel, M. Morgante, A. Cavallini,

. 2015 ; 22 (1) : 91-100. [pub] 20141126

Jazyk angličtina Země Anglie, Velká Británie

Typ dokumentu časopisecké články, práce podpořená grantem

Perzistentní odkaz   https://www.medvik.cz/link/bmc15031697

Improved knowledge of genome composition, especially of its repetitive component, generates important information for both theoretical and applied research. The olive repetitive component is made up of two main classes of sequences: tandem repeats and retrotransposons (REs). In this study, we provide characterization of a sample of 254 unique full-length long terminal repeat (LTR) REs. In the sample, Ty1-Copia elements were more numerous than Ty3-Gypsy elements. Mapping a large set of Illumina whole-genome shotgun reads onto the identified retroelement set revealed that Gypsy elements are more redundant than Copia elements. The insertion time of intact retroelements was estimated based on sister LTR's divergence. Although some elements inserted relatively recently, the mean insertion age of the isolated retroelements is around 18 million yrs. Gypsy and Copia retroelements showed different waves of transposition, with Gypsy elements especially active between 10 and 25 million yrs ago and nearly inactive in the last 7 million yrs. The occurrence of numerous solo-LTRs related to isolated full-length retroelements was ascertained for two Gypsy elements and one Copia element. Overall, the results reported in this study show that RE activity (both retrotransposition and DNA loss) has impacted the olive genome structure in more ancient times than in other angiosperms.

Citace poskytuje Crossref.org

000      
00000naa a2200000 a 4500
001      
bmc15031697
003      
CZ-PrNML
005      
20151009110754.0
007      
ta
008      
151005s2015 enk f 000 0|eng||
009      
AR
024    7_
$a 10.1093/dnares/dsu042 $2 doi
035    __
$a (PubMed)25428895
040    __
$a ABA008 $b cze $d ABA008 $e AACR2
041    0_
$a eng
044    __
$a enk
100    1_
$a Barghini, Elena $u Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Pisa I-56124, Italy.
245    10
$a LTR retrotransposon dynamics in the evolution of the olive (Olea europaea) genome / $c E. Barghini, L. Natali, T. Giordani, RM. Cossu, S. Scalabrin, F. Cattonaro, H. Šimková, J. Vrána, J. Doležel, M. Morgante, A. Cavallini,
520    9_
$a Improved knowledge of genome composition, especially of its repetitive component, generates important information for both theoretical and applied research. The olive repetitive component is made up of two main classes of sequences: tandem repeats and retrotransposons (REs). In this study, we provide characterization of a sample of 254 unique full-length long terminal repeat (LTR) REs. In the sample, Ty1-Copia elements were more numerous than Ty3-Gypsy elements. Mapping a large set of Illumina whole-genome shotgun reads onto the identified retroelement set revealed that Gypsy elements are more redundant than Copia elements. The insertion time of intact retroelements was estimated based on sister LTR's divergence. Although some elements inserted relatively recently, the mean insertion age of the isolated retroelements is around 18 million yrs. Gypsy and Copia retroelements showed different waves of transposition, with Gypsy elements especially active between 10 and 25 million yrs ago and nearly inactive in the last 7 million yrs. The occurrence of numerous solo-LTRs related to isolated full-length retroelements was ascertained for two Gypsy elements and one Copia element. Overall, the results reported in this study show that RE activity (both retrotransposition and DNA loss) has impacted the olive genome structure in more ancient times than in other angiosperms.
650    12
$a mapování chromozomů $7 D002874
650    12
$a celogenomová asociační studie $7 D055106
650    _2
$a Olea $x genetika $7 D031658
650    12
$a retroelementy $7 D018626
650    12
$a koncové repetice $7 D020079
655    _2
$a časopisecké články $7 D016428
655    _2
$a práce podpořená grantem $7 D013485
700    1_
$a Natali, Lucia $u Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Pisa I-56124, Italy.
700    1_
$a Giordani, Tommaso $u Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Pisa I-56124, Italy.
700    1_
$a Cossu, Rosa Maria $u Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Pisa I-56124, Italy Institute of Life Sciences, Scuola Superiore Sant'Anna, Pisa, Italy.
700    1_
$a Scalabrin, Simone $u IGA Technology Service, Udine, Italy.
700    1_
$a Cattonaro, Federica $u IGA Technology Service, Udine, Italy.
700    1_
$a Šimková, Hana $u Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czech Republic.
700    1_
$a Vrána, Jan $u Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czech Republic.
700    1_
$a Doležel, Jaroslav $u Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Olomouc, Czech Republic.
700    1_
$a Morgante, Michele $u Department of Crop and Environmental Sciences, University of Udine, Udine, Italy Institute of Applied Genomics, Udine, Italy.
700    1_
$a Cavallini, Andrea $u Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Pisa I-56124, Italy andrea.cavallini@unipi.it.
773    0_
$w MED00165920 $t DNA research an international journal for rapid publication of reports on genes and genomes $x 1756-1663 $g Roč. 22, č. 1 (2015), s. 91-100
856    41
$u https://pubmed.ncbi.nlm.nih.gov/25428895 $y Pubmed
910    __
$a ABA008 $b sig $c sign $y a $z 0
990    __
$a 20151005 $b ABA008
991    __
$a 20151009110940 $b ABA008
999    __
$a ok $b bmc $g 1092573 $s 914823
BAS    __
$a 3
BAS    __
$a PreBMC
BMC    __
$a 2015 $b 22 $c 1 $d 91-100 $e 20141126 $i 1756-1663 $m DNA research $n DNA Res $x MED00165920
LZP    __
$a Pubmed-20151005

Najít záznam

Citační ukazatele

Možnosti archivace