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Madagascar ground gecko genome analysis characterizes asymmetric fates of duplicated genes

Overview of attention for article published in BMC Biology, April 2018
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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 (92nd percentile)

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62 tweeters

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Title
Madagascar ground gecko genome analysis characterizes asymmetric fates of duplicated genes
Published in
BMC Biology, April 2018
DOI 10.1186/s12915-018-0509-4
Pubmed ID
Authors

Yuichiro Hara, Miki Takeuchi, Yuka Kageyama, Kaori Tatsumi, Masahiko Hibi, Hiroshi Kiyonari, Shigehiro Kuraku

Abstract

Conventionally, comparison among amniotes - birds, mammals, and reptiles - has often been approached through analyses of mammals and, for comparison, birds. However, birds are morphologically and physiologically derived and, moreover, some parts of their genomes are recognized as difficult to sequence and/or assemble and are thus missing in genome assemblies. Therefore, sequencing the genomes of reptiles would aid comparative studies on amniotes by providing more comprehensive coverage to help understand the molecular mechanisms underpinning evolutionary changes. Herein, we present the whole genome sequences of the Madagascar ground gecko (Paroedura picta), a promising study system especially in developmental biology, and used it to identify changes in gene repertoire across amniotes. The genome-wide analysis of the Madagascar ground gecko allowed us to reconstruct a comprehensive set of gene phylogenies comprising 13,043 ortholog groups from diverse amniotes. Our study revealed 469 genes retained by some reptiles but absent from available genome-wide sequence data of both mammals and birds. Importantly, these genes, herein collectively designated as 'elusive' genes, exhibited high nucleotide substitution rates and uneven intra-genomic distribution. Furthermore, the genomic regions flanking these elusive genes exhibited distinct characteristics that tended to be associated with increased gene density, repeat element density, and GC content. This highly continuous and nearly complete genome assembly of the Madagascar ground gecko will facilitate the use of this species as an experimental animal in diverse fields of biology. Gene repertoire comparisons across amniotes further demonstrated that the fate of a duplicated gene can be affected by the intrinsic properties of its genomic location, which can persist for hundreds of millions of years.

Twitter Demographics

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Mendeley readers

The data shown below were compiled from readership statistics for 47 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 47 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 8 17%
Student > Ph. D. Student 8 17%
Student > Master 7 15%
Student > Bachelor 6 13%
Student > Doctoral Student 5 11%
Other 9 19%
Unknown 4 9%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 19 40%
Agricultural and Biological Sciences 18 38%
Neuroscience 2 4%
Environmental Science 1 2%
Earth and Planetary Sciences 1 2%
Other 1 2%
Unknown 5 11%

Attention Score in Context

This research output has an Altmetric Attention Score of 35. 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 12 June 2020.
All research outputs
#792,661
of 19,152,125 outputs
Outputs from BMC Biology
#212
of 1,657 outputs
Outputs of similar age
#17,945
of 237,682 outputs
Outputs of similar age from BMC Biology
#1
of 1 outputs
Altmetric has tracked 19,152,125 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 95th percentile: it's in the top 5% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 1,657 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 20.1. This one has done well, scoring higher than 87% 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 237,682 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 92% of its contemporaries.
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