PMID- 32552738
OWN - NLM
STAT- MEDLINE
DCOM- 20210112
LR  - 20210112
IS  - 1471-2229 (Electronic)
IS  - 1471-2229 (Linking)
VI  - 20
IP  - 1
DP  - 2020 Jun 17
TI  - Comparative analyses of DNA repeats and identification of a novel Fesreba 
      centromeric element in fescues and ryegrasses.
PG  - 280
LID - 10.1186/s12870-020-02495-0 [doi]
LID - 280
AB  - BACKGROUND: Cultivated grasses are an important source of food for domestic 
      animals worldwide. Increased knowledge of their genomes can speed up the 
      development of new cultivars with better quality and greater resistance to biotic 
      and abiotic stresses. The most widely grown grasses are tetraploid ryegrass 
      species (Lolium) and diploid and hexaploid fescue species (Festuca). In this 
      work, we characterized repetitive DNA sequences and their contribution to genome 
      size in five fescue and two ryegrass species as well as one fescue and two 
      ryegrass cultivars. RESULTS: Partial genome sequences produced by Illumina 
      sequencing technology were used for genome-wide comparative analyses with the 
      RepeatExplorer pipeline. Retrotransposons were the most abundant repeat type in 
      all seven grass species. The Athila element of the Ty3/gypsy family showed the 
      most striking differences in copy number between fescues and ryegrasses. The 
      sequence data enabled the assembly of the long terminal repeat (LTR) element 
      Fesreba, which is highly enriched in centromeric and (peri)centromeric regions in 
      all species. A combination of fluorescence in situ hybridization (FISH) with a 
      probe specific to the Fesreba element and immunostaining with centromeric histone 
      H3 (CENH3) antibody showed their co-localization and indicated a possible role of 
      Fesreba in centromere function. CONCLUSIONS: Comparative repeatome analyses in a 
      set of fescues and ryegrasses provided new insights into their genome 
      organization and divergence, including the assembly of the LTR element Fesreba. A 
      new LTR element Fesreba was identified and found in abundance in centromeric 
      regions of the fescues and ryegrasses. It may play a role in the function of 
      their centromeres.
FAU - Zwyrtkova, Jana
AU  - Zwyrtkova J
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic.
FAU - Nemeckova, Alzbeta
AU  - Nemeckova A
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic.
FAU - Cizkova, Jana
AU  - Cizkova J
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic.
FAU - Holusova, Katerina
AU  - Holusova K
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic.
FAU - Kapustova, Veronika
AU  - Kapustova V
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic.
FAU - Svacina, Radim
AU  - Svacina R
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic.
FAU - Kopecky, David
AU  - Kopecky D
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic.
FAU - Till, Bradley John
AU  - Till BJ
AD  - Centro de Genomica Nutricional Agroacuicola, Las Heras 350, Temuco, Chile.
FAU - Dolezel, Jaroslav
AU  - Dolezel J
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic.
FAU - Hribova, Eva
AU  - Hribova E
AUID- ORCID: 0000-0002-6868-4344
AD  - Institute of Experimental Botany, Czech Academy of Sciences, Centre of the Region 
      Hana for Biotechnological and Agricultural Research, Slechtitelu 31, CZ-77900, 
      Olomouc, Czech Republic. hribova@ueb.cas.cz.
LA  - eng
PT  - Journal Article
DEP - 20200617
PL  - England
TA  - BMC Plant Biol
JT  - BMC plant biology
JID - 100967807
SB  - IM
MH  - Centromere/genetics
MH  - *Chromosomes, Plant
MH  - Festuca/*genetics
MH  - Genome, Plant/*genetics
MH  - Lolium/*genetics
MH  - *Repetitive Sequences, Nucleic Acid
PMC - PMC7302162
OTO - NOTNLM
OT  - Centromere organization
OT  - Festuca
OT  - Illumina sequencing
OT  - Lolium
OT  - Repetitive DNA
COIS- The authors declare that they have no competing interests.
EDAT- 2020/06/20 06:00
MHDA- 2021/01/13 06:00
PMCR- 2020/06/17
CRDT- 2020/06/20 06:00
PHST- 2020/01/16 00:00 [received]
PHST- 2020/06/15 00:00 [accepted]
PHST- 2020/06/20 06:00 [entrez]
PHST- 2020/06/20 06:00 [pubmed]
PHST- 2021/01/13 06:00 [medline]
PHST- 2020/06/17 00:00 [pmc-release]
AID - 10.1186/s12870-020-02495-0 [pii]
AID - 2495 [pii]
AID - 10.1186/s12870-020-02495-0 [doi]
PST - epublish
SO  - BMC Plant Biol. 2020 Jun 17;20(1):280. doi: 10.1186/s12870-020-02495-0.