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Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes

Overview of attention for article published in Genome Biology (Online Edition), February 2016
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  • In the top 5% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (98th percentile)

Mentioned by

news
15 news outlets
blogs
1 blog
twitter
50 tweeters
facebook
4 Facebook pages

Citations

dimensions_citation
112 Dimensions

Readers on

mendeley
261 Mendeley
citeulike
3 CiteULike
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Title
Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes
Published in
Genome Biology (Online Edition), February 2016
DOI 10.1186/s13059-016-0883-6
Pubmed ID
Authors

Anna Vlasova, Salvador Capella-Gutiérrez, Martha Rendón-Anaya, Miguel Hernández-Oñate, André E. Minoche, Ionas Erb, Francisco Câmara, Pablo Prieto-Barja, André Corvelo, Walter Sanseverino, Gastón Westergaard, Juliane C. Dohm, Georgios J. Pappas, Soledad Saburido-Alvarez, Darek Kedra, Irene Gonzalez, Luca Cozzuto, Jessica Gómez-Garrido, María A. Aguilar-Morón, Nuria Andreu, O. Mario Aguilar, Jordi Garcia-Mas, Maik Zehnsdorf, Martín P. Vázquez, Alfonso Delgado-Salinas, Luis Delaye, Ernesto Lowy, Alejandro Mentaberry, Rosana P. Vianello-Brondani, José Luís García, Tyler Alioto, Federico Sánchez, Heinz Himmelbauer, Marta Santalla, Cedric Notredame, Toni Gabaldón, Alfredo Herrera-Estrella, Roderic Guigó

Abstract

Legumes are the third largest family of angiosperms and the second most important crop class. Legume genomes have been shaped by extensive large-scale gene duplications, including an approximately 58 million year old whole genome duplication shared by most crop legumes. We report the genome and the transcription atlas of coding and non-coding genes of a Mesoamerican genotype of common bean (Phaseolus vulgaris L., BAT93). Using a comprehensive phylogenomics analysis, we assessed the past and recent evolution of common bean, and traced the diversification of patterns of gene expression following duplication. We find that successive rounds of gene duplications in legumes have shaped tissue and developmental expression, leading to increased levels of specialization in larger gene families. We also find that many long non-coding RNAs are preferentially expressed in germ-line-related tissues (pods and seeds), suggesting that they play a significant role in fruit development. Our results also suggest that most bean-specific gene family expansions, including resistance gene clusters, predate the split of the Mesoamerican and Andean gene pools. The genome and transcriptome data herein generated for a Mesoamerican genotype represent a counterpart to the genomic resources already available for the Andean gene pool. Altogether, this information will allow the genetic dissection of the characters involved in the domestication and adaptation of the crop, and their further implementation in breeding strategies for this important crop.

Twitter Demographics

The data shown below were collected from the profiles of 50 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 261 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Spain 4 2%
Mexico 3 1%
Argentina 2 <1%
Colombia 1 <1%
Finland 1 <1%
Italy 1 <1%
Netherlands 1 <1%
Japan 1 <1%
United States 1 <1%
Other 0 0%
Unknown 246 94%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 45 17%
Researcher 44 17%
Student > Master 43 16%
Student > Doctoral Student 30 11%
Student > Bachelor 17 7%
Other 46 18%
Unknown 36 14%
Readers by discipline Count As %
Agricultural and Biological Sciences 149 57%
Biochemistry, Genetics and Molecular Biology 47 18%
Environmental Science 6 2%
Computer Science 3 1%
Medicine and Dentistry 3 1%
Other 11 4%
Unknown 42 16%

Attention Score in Context

This research output has an Altmetric Attention Score of 151. 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 15 December 2016.
All research outputs
#140,397
of 16,500,599 outputs
Outputs from Genome Biology (Online Edition)
#78
of 3,478 outputs
Outputs of similar age
#3,699
of 268,477 outputs
Outputs of similar age from Genome Biology (Online Edition)
#1
of 2 outputs
Altmetric has tracked 16,500,599 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 99th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 3,478 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 26.2. This one has done particularly well, scoring higher than 97% 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 268,477 tracked outputs that were published within six weeks on either side of this one in any source. This one has done particularly well, scoring higher than 98% of its contemporaries.
We're also able to compare this research output to 2 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