| Title |
CTCF binding landscape in jawless fish with reference to Hox cluster evolution
|
|---|---|
| Published in |
Scientific Reports, July 2017
|
| DOI | 10.1038/s41598-017-04506-x |
| Pubmed ID | |
| Authors |
Mitsutaka Kadota, Yuichiro Hara, Kaori Tanaka, Wataru Takagi, Chiharu Tanegashima, Osamu Nishimura, Shigehiro Kuraku |
| Abstract |
The nuclear protein CCCTC-binding factor (CTCF) contributes as an insulator to chromatin organization in animal genomes. Currently, our knowledge of its binding property is confined mainly to mammals. In this study, we identified CTCF homologs in extant jawless fishes and performed ChIP-seq for the CTCF protein in the Arctic lamprey. Our phylogenetic analysis suggests that the lamprey lineage experienced gene duplication that gave rise to its unique paralog, designated CTCF2, which is independent from the previously recognized duplication between CTCF and CTCFL. The ChIP-seq analysis detected comparable numbers of CTCF binding sites between lamprey, chicken, and human, and revealed that the lamprey CTCF protein binds to the two-part motif, consisting of core and upstream motifs previously reported for mammals. These findings suggest that this mode of CTCF binding was established in the last common ancestor of extant vertebrates (more than 500 million years ago). We analyzed CTCF binding inside Hox clusters, which revealed a reinforcement of CTCF binding in the region spanning Hox1-4 genes that is unique to lamprey. Our study provides not only biological insights into the antiquity of CTCF-based epigenomic regulation known in mammals but also a technical basis for comparative epigenomic studies encompassing the whole taxon Vertebrata. |
X Demographics
The data shown below were collected from the profiles of 15 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Japan | 2 | 13% |
| United Kingdom | 1 | 7% |
| France | 1 | 7% |
| Unknown | 11 | 73% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 12 | 80% |
| Scientists | 3 | 20% |
Mendeley readers
The data shown below were compiled from readership statistics for 52 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Unknown | 52 | 100% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 9 | 17% |
| Student > Ph. D. Student | 6 | 12% |
| Student > Master | 5 | 10% |
| Student > Bachelor | 4 | 8% |
| Other | 3 | 6% |
| Other | 9 | 17% |
| Unknown | 16 | 31% |
| Readers by discipline | Count | As % |
|---|---|---|
| Biochemistry, Genetics and Molecular Biology | 21 | 40% |
| Agricultural and Biological Sciences | 9 | 17% |
| Social Sciences | 2 | 4% |
| Unspecified | 1 | 2% |
| Sports and Recreations | 1 | 2% |
| Other | 1 | 2% |
| Unknown | 17 | 33% |
Attention Score in Context
This research output has an Altmetric Attention Score of 8. 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 27 April 2020.
All research outputs
#4,472,508
of 25,002,811 outputs
Outputs from Scientific Reports
#34,870
of 137,164 outputs
Outputs of similar age
#71,705
of 317,814 outputs
Outputs of similar age from Scientific Reports
#1,334
of 5,338 outputs
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We're also able to compare this research output to 5,338 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 74% of its contemporaries.