PMID- 25169019
OWN - NLM
STAT- MEDLINE
DCOM- 20150713
LR  - 20220129
IS  - 1095-8290 (Electronic)
IS  - 0305-7364 (Print)
IS  - 0305-7364 (Linking)
VI  - 114
IP  - 8
DP  - 2014 Dec
TI  - Differential amplification of satellite PaB6 in chromosomally hypervariable 
      Prospero autumnale complex (Hyacinthaceae).
PG  - 1597-608
LID - 10.1093/aob/mcu178 [doi]
AB  - BACKGROUND AND AIMS: Chromosomal evolution, including numerical and structural 
      changes, is a major force in plant diversification and speciation. This study 
      addresses genomic changes associated with the extensive chromosomal variation of 
      the Mediterranean Prospero autumnale complex (Hyacinthaceae), which includes four 
      diploid cytotypes each with a unique combination of chromosome number (x = 5, 6, 
      7), rDNA loci and genome size. METHODS: A new satellite repeat PaB6 has 
      previously been identified, and monomers were reconstructed from next-generation 
      sequencing (NGS) data of P. autumnale cytotype B(6)B(6) (2n = 12). Monomers of 
      all other Prospero cytotypes and species were sequenced to check for 
      lineage-specific mutations. Copy number, restriction patterns and methylation 
      levels of PaB6 were analysed using Southern blotting. PaB6 was localized on 
      chromosomes using fluorescence in situ hybridization (FISH). KEY RESULTS: The 
      monomer of PaB6 is 249 bp long, contains several intact and truncated 
      vertebrate-type telomeric repeats and is highly methylated. PaB6 is exceptional 
      because of its high copy number and unprecedented variation among diploid 
      cytotypes, ranging from 10(4) to 10(6) copies per 1C. PaB6 is always located in 
      pericentromeric regions of several to all chromosomes. Additionally, two lineages 
      of cytotype B(7)B(7) (x = 7), possessing either a single or duplicated 5S rDNA 
      locus, differ in PaB6 copy number; the ancestral condition of a single locus is 
      associated with higher PaB6 copy numbers. CONCLUSIONS: Although present in all 
      Prospero species, PaB6 has undergone differential amplification only in 
      chromosomally variable P. autumnale, particularly in cytotypes B(6)B(6) and 
      B(5)B(5). These arose via independent chromosomal fusions from x = 7 to x = 6 and 
      5, respectively, accompanied by genome size increases. The copy numbers of 
      satellite DNA PaB6 are among the highest in angiosperms, and changes of PaB6 are 
      exceptionally dynamic in this group of closely related cytotypes of a single 
      species. The evolution of the PaB6 copy numbers is discussed, and it is suggested 
      that PaB6 represents a recent and highly dynamic system originating from a small 
      pool of ancestral repeats.
CI  - (c) The Author 2014. Published by Oxford University Press on behalf of the Annals 
      of Botany Company.
FAU - Emadzade, Khatere
AU  - Emadzade K
AD  - Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, 
      A-1030 Vienna, Austria.
FAU - Jang, Tae-Soo
AU  - Jang TS
AD  - Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, 
      A-1030 Vienna, Austria.
FAU - Macas, Jiri
AU  - Macas J
AD  - Czech Academy of Sciences, Institute of Plant Molecular Biology, Ceske 
      Budejovice, Czech Republic.
FAU - Kovarik, Ales
AU  - Kovarik A
AD  - Czech Academy of Sciences, Institute of Biophysics, Brno, Czech Republic.
FAU - Novak, Petr
AU  - Novak P
AD  - Czech Academy of Sciences, Institute of Plant Molecular Biology, Ceske 
      Budejovice, Czech Republic.
FAU - Parker, John
AU  - Parker J
AD  - Cambridge University Botanic Garden, Cambridge CB2 1JF, UK.
FAU - Weiss-Schneeweiss, Hanna
AU  - Weiss-Schneeweiss H
AD  - Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, 
      A-1030 Vienna, Austria hanna.schneeweiss@univie.ac.at.
LA  - eng
SI  - GENBANK/KF897587
SI  - GENBANK/KF897588
SI  - GENBANK/KF897589
SI  - GENBANK/KF897590
SI  - GENBANK/KF897591
SI  - GENBANK/KF897592
SI  - GENBANK/KF897593
SI  - GENBANK/KF897594
SI  - GENBANK/KF897595
SI  - GENBANK/KF897596
SI  - GENBANK/KF897597
SI  - GENBANK/KF897598
SI  - GENBANK/KF897599
SI  - GENBANK/KF897600
SI  - GENBANK/KF897601
SI  - GENBANK/KF897602
SI  - GENBANK/KF897603
SI  - GENBANK/KF897604
SI  - GENBANK/KF897605
SI  - GENBANK/KF897606
SI  - GENBANK/KF897607
SI  - GENBANK/KF897608
SI  - GENBANK/KF897609
SI  - GENBANK/KF897610
SI  - GENBANK/KF897611
SI  - GENBANK/KF897612
SI  - GENBANK/KF897613
SI  - GENBANK/KF897614
SI  - GENBANK/KF897615
SI  - GENBANK/KF897616
SI  - GENBANK/KF897617
SI  - GENBANK/KF897618
SI  - GENBANK/KF897619
SI  - GENBANK/KF897620
SI  - GENBANK/KF897621
SI  - GENBANK/KF897622
SI  - GENBANK/KF897623
SI  - GENBANK/KF897624
SI  - GENBANK/KF897625
SI  - GENBANK/KF897626
SI  - GENBANK/KF897627
SI  - GENBANK/KF897628
SI  - GENBANK/KF897629
SI  - GENBANK/KF897630
SI  - GENBANK/KF897631
SI  - GENBANK/KF897632
SI  - GENBANK/KF897633
SI  - GENBANK/KF897634
SI  - GENBANK/KF897635
SI  - GENBANK/KF897636
SI  - GENBANK/KF897637
SI  - GENBANK/KF897638
SI  - GENBANK/KF897639
SI  - GENBANK/KF897640
SI  - GENBANK/KF897641
SI  - GENBANK/KF897642
SI  - GENBANK/KF897643
SI  - GENBANK/KF897644
SI  - GENBANK/KF897645
SI  - GENBANK/KF897646
SI  - GENBANK/KF897647
SI  - GENBANK/KF897648
SI  - GENBANK/KF897649
SI  - GENBANK/KF897650
SI  - GENBANK/KF897651
SI  - GENBANK/KF897652
GR  - P 21440/FWF_/Austrian Science Fund FWF/Austria
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20140828
PL  - England
TA  - Ann Bot
JT  - Annals of botany
JID - 0372347
RN  - 0 (DNA, Plant)
RN  - 0 (DNA, Satellite)
SB  - IM
MH  - Base Sequence
MH  - Chromosomes, Plant/*genetics
MH  - DNA Copy Number Variations
MH  - DNA, Plant/*genetics
MH  - DNA, Satellite/*genetics
MH  - Diploidy
MH  - Evolution, Molecular
MH  - Genome, Plant
MH  - Liliaceae/*genetics
MH  - Models, Genetic
MH  - Molecular Sequence Data
MH  - Phylogeny
MH  - *Polymerase Chain Reaction
MH  - Repetitive Sequences, Nucleic Acid/genetics
MH  - Sequence Analysis, DNA
MH  - Telomere/metabolism
PMC - PMC4273535
MID - EMS61552
OID - NLM: EMS61552
OTO - NOTNLM
OT  - Hyacinthaceae
OT  - PaB6
OT  - Prospero autumnale
OT  - chromosomal evolution
OT  - copy number
OT  - differential amplification
OT  - fluorescence in situ hybridization (FISH)
OT  - genome size
OT  - next-generation sequencing
OT  - pericentric satellite DNA
EDAT- 2014/08/30 06:00
MHDA- 2015/07/15 06:00
PMCR- 2014/08/28
CRDT- 2014/08/30 06:00
PHST- 2014/08/30 06:00 [entrez]
PHST- 2014/08/30 06:00 [pubmed]
PHST- 2015/07/15 06:00 [medline]
PHST- 2014/08/28 00:00 [pmc-release]
AID - mcu178 [pii]
AID - 10.1093/aob/mcu178 [doi]
PST - ppublish
SO  - Ann Bot. 2014 Dec;114(8):1597-608. doi: 10.1093/aob/mcu178. Epub 2014 Aug 28.