PMID- 23955173
OWN - NLM
STAT- MEDLINE
DCOM- 20140326
LR  - 20211021
IS  - 1573-6849 (Electronic)
IS  - 0967-3849 (Linking)
VI  - 21
IP  - 5
DP  - 2013 Aug
TI  - Sequence organization and evolutionary dynamics of Brachypodium-specific 
      centromere retrotransposons.
PG  - 507-21
LID - 10.1007/s10577-013-9378-4 [doi]
AB  - Brachypodium distachyon is a wild annual grass belonging to the Pooideae, more 
      closely related to wheat, barley, and forage grasses than rice and maize. As an 
      experimental model, the completed genome sequence of B. distachyon provides a 
      unique opportunity to study centromere evolution during the speciation of 
      grasses. Centromeric satellite sequences have been identified in B. distachyon, 
      but little is known about centromeric retrotransposons in this species. In the 
      present study, bacterial artificial chromosome (BAC)-fluorescence in situ 
      hybridization was conducted in maize, rice, barley, wheat, and rye using B. 
      distachyon (Bd) centromere-specific BAC clones. Eight Bd centromeric BAC clones 
      gave no detectable fluorescence in situ hybridization (FISH) signals on the 
      chromosomes of rice and maize, and three of them also did not yield any FISH 
      signals in barley, wheat, and rye. In addition, four of five Triticeae 
      centromeric BAC clones did not hybridize to the B. distachyon centromeres, 
      implying certain unique features of Brachypodium centromeres. Analysis of 
      Brachypodium centromeric BAC sequences identified a long terminal repeat 
      (LTR)-centromere retrotransposon of B. distachyon (CRBd1). This element was found 
      in high copy number accounting for 1.6 % of the B. distachyon genome, and is 
      enriched in Brachypodium centromeric regions. CRBd1 accumulated in active 
      centromeres, but was lost from inactive ones. The LTR of CRBd1 appears to be 
      specific to B. distachyon centromeres. These results reveal different 
      evolutionary events of this retrotransposon family across grass species.
FAU - Qi, L L
AU  - Qi LL
AD  - Northern Crop Science Laboratory, USDA-ARS, 1605 Albrecht Blvd N, Fargo, ND 
      58102-2765, USA. lili.qi@ars.usda.gov
FAU - Wu, J J
AU  - Wu JJ
FAU - Friebe, B
AU  - Friebe B
FAU - Qian, C
AU  - Qian C
FAU - Gu, Y Q
AU  - Gu YQ
FAU - Fu, D L
AU  - Fu DL
FAU - Gill, B S
AU  - Gill BS
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, Non-P.H.S.
DEP - 20130817
PL  - Netherlands
TA  - Chromosome Res
JT  - Chromosome research : an international journal on the molecular, supramolecular 
      and evolutionary aspects of chromosome biology
JID - 9313452
RN  - 0 (Retroelements)
SB  - IM
MH  - Base Sequence
MH  - Brachypodium/*genetics
MH  - *Centromere
MH  - Chromosomes, Artificial, Bacterial
MH  - *Chromosomes, Plant
MH  - *Evolution, Molecular
MH  - Gene Order
MH  - Genome, Plant
MH  - In Situ Hybridization, Fluorescence
MH  - *Retroelements
MH  - Sequence Alignment
MH  - Terminal Repeat Sequences
EDAT- 2013/08/21 06:00
MHDA- 2014/03/29 06:00
CRDT- 2013/08/20 06:00
PHST- 2013/05/31 00:00 [received]
PHST- 2013/07/30 00:00 [accepted]
PHST- 2013/07/30 00:00 [revised]
PHST- 2013/08/20 06:00 [entrez]
PHST- 2013/08/21 06:00 [pubmed]
PHST- 2014/03/29 06:00 [medline]
AID - 10.1007/s10577-013-9378-4 [doi]
PST - ppublish
SO  - Chromosome Res. 2013 Aug;21(5):507-21. doi: 10.1007/s10577-013-9378-4. Epub 2013 
      Aug 17.