Chicken rRNA Gene Cluster Structure

Alexander G Dyomin; Elena I Koshel; Artem M Kiselev; Alsu F Saifitdinova; Svetlana A Galkina; Tatsuo Fukagawa; Anna A Kostareva; Elena R Gaginskaya

doi:10.1371/journal.pone.0157464

Chicken rRNA Gene Cluster Structure

PLoS One. 2016 Jun 14;11(6):e0157464. doi: 10.1371/journal.pone.0157464. eCollection 2016.

Authors

Alexander G Dyomin¹, Elena I Koshel¹, Artem M Kiselev^{2

3}, Alsu F Saifitdinova¹, Svetlana A Galkina¹, Tatsuo Fukagawa⁴, Anna A Kostareva^{2

3}, Elena R Gaginskaya¹

Affiliations

¹ Saint Petersburg State University, Saint Petersburg, 199034, Russia.
² Almazov Federal Medical Research Centre, Saint Petersburg, 197341, Russia.
³ ITMO University, Saint Petersburg, 197101, Russia.
⁴ Osaka University, Suita, Osaka, 565-0871, Japan.

Abstract

Ribosomal RNA (rRNA) genes, whose activity results in nucleolus formation, constitute an extremely important part of genome. Despite the extensive exploration into avian genomes, no complete description of avian rRNA gene primary structure has been offered so far. We publish a complete chicken rRNA gene cluster sequence here, including 5'ETS (1836 bp), 18S rRNA gene (1823 bp), ITS1 (2530 bp), 5.8S rRNA gene (157 bp), ITS2 (733 bp), 28S rRNA gene (4441 bp) and 3'ETS (343 bp). The rRNA gene cluster sequence of 11863 bp was assembled from raw reads and deposited to GenBank under KT445934 accession number. The assembly was validated through in situ fluorescent hybridization analysis on chicken metaphase chromosomes using computed and synthesized specific probes, as well as through the reference assembly against de novo assembled rRNA gene cluster sequence using sequenced fragments of BAC-clone containing chicken NOR (nucleolus organizer region). The results have confirmed the chicken rRNA gene cluster validity.

MeSH terms

Animals
Chickens / genetics*
Multigene Family*
RNA, Ribosomal, 18S / genetics*
RNA, Ribosomal, 28S / genetics*
RNA, Ribosomal, 5.8S / genetics*

Substances

RNA, Ribosomal, 18S
RNA, Ribosomal, 28S
RNA, Ribosomal, 5.8S

Grants and funding

The research has been financed by 1. Saint-Petersburg State University Grant #1.50.1043. 2014 (AD EK) http://english.spbu.ru/; 2. Russian Basic Research Foundation Grant #15-04-05684 (EG SG AD EK) http://www.rfbr.ru/rffi/eng; 3. RF Government Grant #074-U01 (AnK ArK) http://government.ru/en/. The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript.