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The physical map of wheat chromosome 5DS revealed gene duplications and small rearrangements

Overview of attention for article published in BMC Genomics, June 2015
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  • Above-average Attention Score compared to outputs of the same age (61st percentile)

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6 tweeters

Citations

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41 Mendeley
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Title
The physical map of wheat chromosome 5DS revealed gene duplications and small rearrangements
Published in
BMC Genomics, June 2015
DOI 10.1186/s12864-015-1641-y
Pubmed ID
Authors

Bala Ani Akpinar, Federica Magni, Meral Yuce, Stuart J. Lucas, Hana Šimková, Jan Šafář, Sonia Vautrin, Hélène Bergès, Federica Cattonaro, Jaroslav Doležel, Hikmet Budak

Abstract

The substantially large bread wheat genome, organized into highly similar three sub-genomes, renders genomic research challenging. The construction of BAC-based physical maps of individual chromosomes reduces the complexity of this allohexaploid genome, enables elucidation of gene space and evolutionary relationships, provides tools for map-based cloning, and serves as a framework for reference sequencing efforts. In this study, we constructed the first comprehensive physical map of wheat chromosome arm 5DS, thereby exploring its gene space organization and evolution. The physical map of 5DS was comprised of 164 contigs, of which 45 were organized into 21 supercontigs, covering 176 Mb with an N50 value of 2,173 kb. Fifty-eight of the contigs were larger than 1 Mb, with the largest contig spanning 6,649 kb. A total of 1,864 molecular markers were assigned to the map at a density of 10.5 markers/Mb, anchoring 100 of the 120 contigs (>5 clones) that constitute ~95 % of the cumulative length of the map. Ordering of 80 contigs along the deletion bins of chromosome arm 5DS revealed small-scale breaks in syntenic blocks. Analysis of the gene space of 5DS suggested an increasing gradient of genes organized in islands towards the telomere, with the highest gene density of 5.17 genes/Mb in the 0.67-0.78 deletion bin, 1.4 to 1.6 times that of all other bins. Here, we provide a chromosome-specific view into the organization and evolution of the D genome of bread wheat, in comparison to one of its ancestors, revealing recent genome rearrangements. The high-quality physical map constructed in this study paves the way for the assembly of a reference sequence, from which breeding efforts will greatly benefit.

Twitter Demographics

The data shown below were collected from the profiles of 6 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 41 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Iran, Islamic Republic of 1 2%
United Kingdom 1 2%
Germany 1 2%
Unknown 38 93%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 13 32%
Researcher 9 22%
Other 4 10%
Professor 4 10%
Student > Doctoral Student 3 7%
Other 4 10%
Unknown 4 10%
Readers by discipline Count As %
Agricultural and Biological Sciences 29 71%
Biochemistry, Genetics and Molecular Biology 5 12%
Chemical Engineering 1 2%
Unknown 6 15%

Attention Score in Context

This research output has an Altmetric Attention Score of 3. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 30 June 2015.
All research outputs
#8,929,225
of 17,041,326 outputs
Outputs from BMC Genomics
#3,628
of 9,186 outputs
Outputs of similar age
#92,285
of 241,536 outputs
Outputs of similar age from BMC Genomics
#1
of 1 outputs
Altmetric has tracked 17,041,326 research outputs across all sources so far. This one is in the 47th percentile – i.e., 47% of other outputs scored the same or lower than it.
So far Altmetric has tracked 9,186 research outputs from this source. They receive a mean Attention Score of 4.3. This one has gotten more attention than average, scoring higher than 59% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 241,536 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 61% of its contemporaries.
We're also able to compare this research output to 1 others from the same source and published within six weeks on either side of this one. This one has scored higher than all of them