Abstract
The BARE-1 retrotransposon is a major, active component of the genome of barley (Hordeum vulgare L.) and other Hordeum species. Copia-like in its organization, it consists of 1.8-kb long terminal repeats bounding an internal domain of 5275 bp which encodes a predicted polyprotein of 1301 residues. The polyprotein contains the key residues, structural motifs, and conserved regions associated with retroviral and retrotransposon GAG, aspartic proteinase, integrase, reverse transcriptase, and RNaseH polypeptides. BARE-1 is actively transcribed and translated. As part of our effort to understand the evolution and function of BARE-1, we have examined its copy number and localization. Full-length members of the BARE-1 family constitute 2.8% of the barley genome. Globally, they are dispersed throughout the genome, excepting the centromeric, telomeric, and NOR regions. Locally, BARE-1 occurs more commonly in repetitive DNA than in coding regions, forming clusters of nested insertions. Both barley and other Hordeum genomes contain a high proportion of BARE-1 solo LTRs. New techniques have been developed which exploit the insertion site polymorphism generated by BARE-1 integration to produce molecular markers for breeding, biodiversity, and mapping applications.
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Claims 9
Claim · model-written summary
BARE-1 is a major active genomic component in barley and other Hordeum species.
- Taxon
- barley
.jpg?width=60)
Hordeum vulgaree0 - Gene
- BARE-1 retrotransposone0
- Outcome
- major, active component of the genomee0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
.jpg?width=500)
Verbatim
e0“The BARE-1 retrotransposon is a major, active component of the genome of barley (Hordeum vulgare L.) and other Hordeum species.”
Claim · model-written summary
BARE-1 has 1.8-kb terminal repeats surrounding a 5275 bp domain encoding a 1301-residue predicted polyprotein.
Not reportedTaxon
Verbatim
e0“Copia-like in its organization, it consists of 1.8-kb long terminal repeats bounding an internal domain of 5275 bp which encodes a predicted polyprotein of 1301 residues.”
Claim · model-written summary
The BARE-1 polyprotein contains conserved motifs of retroviral and retrotransposon proteins.
- Outcome
- key residues, structural motifs, and conserved regionse0
Not reportedTaxon
Verbatim
e0“The polyprotein contains the key residues, structural motifs, and conserved regions associated with retroviral and retrotransposon GAG, aspartic proteinase, integrase, reverse transcriptase, and RNaseH polypeptides.”
Claim · model-written summary
BARE-1 is transcribed and translated.
Not reportedTaxon
Verbatim
e0“BARE-1 is actively transcribed and translated.”
Claim · model-written summary
Full-length BARE-1 family members occupy 2.8% of the barley genome.
- Taxon
- barleyHordeum vulgaree0
- Outcome
- Full-length members of the BARE-1 familye0
- Value
- 2.8%e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Full-length members of the BARE-1 family constitute 2.8% of the barley genome.”
Claim · model-written summary
BARE-1 is dispersed except in centromeric, telomeric and NOR regions.
- Outcome
- dispersed throughout the genome, excepting the centromeric, telomeric, and NOR regionse0
Not reportedTaxon
Verbatim
e0“Globally, they are dispersed throughout the genome, excepting the centromeric, telomeric, and NOR regions.”
Claim · model-written summary
BARE-1 occurs more commonly in repetitive DNA than coding regions and forms nested insertion clusters.
Not reportedTaxon
Verbatim
e0“Locally, BARE-1 occurs more commonly in repetitive DNA than in coding regions, forming clusters of nested insertions.”
Claim · model-written summary
Barley and other Hordeum genomes have a high proportion of BARE-1 solo LTRs.
- Taxon
- barleyHordeum vulgaree0
- Outcome
- high proportion of BARE-1 solo LTRse0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Both barley and other Hordeum genomes contain a high proportion of BARE-1 solo LTRs.”
Claim · model-written summary
New marker techniques exploit BARE-1 insertion polymorphism for breeding, biodiversity and mapping.
- Outcome
- molecular markers for breeding, biodiversity, and mapping applicationse0
Not reportedTaxonComparatorValue
Verbatim
e0“New techniques have been developed which exploit the insertion site polymorphism generated by BARE-1 integration to produce molecular markers for breeding, biodiversity, and mapping applications.”