• Je něco špatně v tomto záznamu ?

Sequencing chromosome 5D of Aegilops tauschii and comparison with its allopolyploid descendant bread wheat (Triticum aestivum)

BA. Akpinar, SJ. Lucas, J. Vrána, J. Doležel, H. Budak,

. 2015 ; 13 (6) : 740-52. [pub] 20141216

Jazyk angličtina Země Anglie, Velká Británie

Typ dokumentu srovnávací studie, časopisecké články, práce podpořená grantem

Perzistentní odkaz   https://www.medvik.cz/link/bmc16021014

Flow cytometric sorting of individual chromosomes and chromosome-based sequencing reduces the complexity of large, repetitive Triticeae genomes. We flow-sorted chromosome 5D of Aegilops tauschii, the D genome donor of bread wheat and sequenced it by Roche 454 GS FLX platform to approximately 2.2x coverage. Repetitive sequences represent 81.09% of the survey sequences of this chromosome, and Class I retroelements are the prominent type, with a particular abundance of LTR/Gypsy superfamily. Nonrepetitive sequences were assembled to cover 17.76% of the total chromosome regions. Up to 6188 nonrepetitive gene loci were predicted to be encoded by the 5D chromosome. The numbers and chromosomal distribution patterns of tRNA genes suggest abundance in tRNA(L) (ys) and tRNA(M) (et) species, while the nonrepetitive assembly reveals tRNA(A) (la) species as the most abundant type. A comparative analysis of the genomic sequences of bread wheat and Aegilops chromosome 5D indicates conservation of gene content. Orthologous unique genes, matching Aegilops 5D sequences, numbered 3730 in barley, 5063 in Brachypodium, 4872 in sorghum and 4209 in rice. In this study, we provide a chromosome-specific view into the structure and organization of the 5D chromosome of Ae. tauschii, the D genome ancestor of bread wheat. This study contributes to our understanding of the chromosome-level evolution of the wheat genome and presents a valuable resource in wheat genomics due to the recent hybridization of Ae. tauschii genome with its tetraploid ancestor.

Citace poskytuje Crossref.org

000      
00000naa a2200000 a 4500
001      
bmc16021014
003      
CZ-PrNML
005      
20160727101359.0
007      
ta
008      
160722s2015 enk f 000 0|eng||
009      
AR
024    7_
$a 10.1111/pbi.12302 $2 doi
024    7_
$a 10.1111/pbi.12302 $2 doi
035    __
$a (PubMed)25516153
040    __
$a ABA008 $b cze $d ABA008 $e AACR2
041    0_
$a eng
044    __
$a enk
100    1_
$a Akpinar, Bala A $u Faculty of Engineering and Natural Sciences, Sabanci University, Tuzla, Istanbul, Turkey. $7 gn_A_00003035
245    10
$a Sequencing chromosome 5D of Aegilops tauschii and comparison with its allopolyploid descendant bread wheat (Triticum aestivum) / $c BA. Akpinar, SJ. Lucas, J. Vrána, J. Doležel, H. Budak,
520    9_
$a Flow cytometric sorting of individual chromosomes and chromosome-based sequencing reduces the complexity of large, repetitive Triticeae genomes. We flow-sorted chromosome 5D of Aegilops tauschii, the D genome donor of bread wheat and sequenced it by Roche 454 GS FLX platform to approximately 2.2x coverage. Repetitive sequences represent 81.09% of the survey sequences of this chromosome, and Class I retroelements are the prominent type, with a particular abundance of LTR/Gypsy superfamily. Nonrepetitive sequences were assembled to cover 17.76% of the total chromosome regions. Up to 6188 nonrepetitive gene loci were predicted to be encoded by the 5D chromosome. The numbers and chromosomal distribution patterns of tRNA genes suggest abundance in tRNA(L) (ys) and tRNA(M) (et) species, while the nonrepetitive assembly reveals tRNA(A) (la) species as the most abundant type. A comparative analysis of the genomic sequences of bread wheat and Aegilops chromosome 5D indicates conservation of gene content. Orthologous unique genes, matching Aegilops 5D sequences, numbered 3730 in barley, 5063 in Brachypodium, 4872 in sorghum and 4209 in rice. In this study, we provide a chromosome-specific view into the structure and organization of the 5D chromosome of Ae. tauschii, the D genome ancestor of bread wheat. This study contributes to our understanding of the chromosome-level evolution of the wheat genome and presents a valuable resource in wheat genomics due to the recent hybridization of Ae. tauschii genome with its tetraploid ancestor.
650    12
$a mapování chromozomů $7 D002874
650    12
$a chromozomy rostlin $7 D032461
650    _2
$a pořadí genů $7 D023061
650    _2
$a rostlinné geny $7 D017343
650    _2
$a biologické modely $7 D008954
650    _2
$a molekulární sekvence - údaje $7 D008969
650    12
$a polyploidie $7 D011123
650    _2
$a pšenice $x klasifikace $x genetika $7 D014908
655    _2
$a srovnávací studie $7 D003160
655    _2
$a časopisecké články $7 D016428
655    _2
$a práce podpořená grantem $7 D013485
700    1_
$a Lucas, Stuart J $u Sabanci University Nanotechnology Research and Application Centre (SUNUM), Sabanci University, Tuzla, Istanbul, Turkey.
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 Budak, Hikmet $u Faculty of Engineering and Natural Sciences, Sabanci University, Tuzla, Istanbul, Turkey. Sabanci University Nanotechnology Research and Application Centre (SUNUM), Sabanci University, Tuzla, Istanbul, Turkey.
773    0_
$w MED00007694 $t Plant biotechnology journal $x 1467-7652 $g Roč. 13, č. 6 (2015), s. 740-52
856    41
$u https://pubmed.ncbi.nlm.nih.gov/25516153 $y Pubmed
910    __
$a ABA008 $b sig $c sign $y a $z 0
990    __
$a 20160722 $b ABA008
991    __
$a 20160727101620 $b ABA008
999    __
$a ok $b bmc $g 1155684 $s 945542
BAS    __
$a 3
BAS    __
$a PreBMC
BMC    __
$a 2015 $b 13 $c 6 $d 740-52 $e 20141216 $i 1467-7652 $m Plant biotechnology journal $n Plant Biotechnol J $x MED00007694
LZP    __
$a Pubmed-20160722

Najít záznam

Citační ukazatele

Možnosti archivace