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Segmental duplications: evolution and impact among the current Lepidoptera genomes

Overview of attention for article published in BMC Ecology and Evolution, July 2017
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Title
Segmental duplications: evolution and impact among the current Lepidoptera genomes
Published in
BMC Ecology and Evolution, July 2017
DOI 10.1186/s12862-017-1007-y
Pubmed ID
Authors

Qian Zhao, Dongna Ma, Liette Vasseur, Minsheng You

Abstract

Structural variation among genomes is now viewed to be as important as single nucleoid polymorphisms in influencing the phenotype and evolution of a species. Segmental duplication (SD) is defined as segments of DNA with homologous sequence. Here, we performed a systematic analysis of segmental duplications (SDs) among five lepidopteran reference genomes (Plutella xylostella, Danaus plexippus, Bombyx mori, Manduca sexta and Heliconius melpomene) to understand their potential impact on the evolution of these species. We find that the SDs content differed substantially among species, ranging from 1.2% of the genome in B. mori to 15.2% in H. melpomene. Most SDs formed very high identity (similarity higher than 90%) blocks but had very few large blocks. Comparative analysis showed that most of the SDs arose after the divergence of each linage and we found that P. xylostella and H. melpomene showed more duplications than other species, suggesting they might be able to tolerate extensive levels of variation in their genomes. Conserved ancestral and species specific SD events were assessed, revealing multiple examples of the gain, loss or maintenance of SDs over time. SDs content analysis showed that most of the genes embedded in SDs regions belonged to species-specific SDs ("Unique" SDs). Functional analysis of these genes suggested their potential roles in the lineage-specific evolution. SDs and flanking regions often contained transposable elements (TEs) and this association suggested some involvement in SDs formation. Further studies on comparison of gene expression level between SDs and non-SDs showed that the expression level of genes embedded in SDs was significantly lower, suggesting that structure changes in the genomes are involved in gene expression differences in species. The results showed that most of the SDs were "unique SDs", which originated after species formation. Functional analysis suggested that SDs might play different roles in different species. Our results provide a valuable resource beyond the genetic mutation to explore the genome structure for future Lepidoptera research.

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 24 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 24 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 4 17%
Other 3 13%
Student > Doctoral Student 3 13%
Student > Bachelor 3 13%
Researcher 3 13%
Other 3 13%
Unknown 5 21%
Readers by discipline Count As %
Agricultural and Biological Sciences 11 46%
Biochemistry, Genetics and Molecular Biology 7 29%
Engineering 1 4%
Unknown 5 21%
Attention Score in Context

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 03 December 2017.
All research outputs
#14,918,049
of 25,382,440 outputs
Outputs from BMC Ecology and Evolution
#2,489
of 3,714 outputs
Outputs of similar age
#165,554
of 326,018 outputs
Outputs of similar age from BMC Ecology and Evolution
#59
of 83 outputs
Altmetric has tracked 25,382,440 research outputs across all sources so far. This one is in the 40th percentile – i.e., 40% of other outputs scored the same or lower than it.
So far Altmetric has tracked 3,714 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 12.5. This one is in the 31st percentile – i.e., 31% of its peers scored the same or lower than it.
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