Integrated Genomic and Transcriptomic Analysis of the Peridinin Dinoflagellate Amphidinium carterae Plastid

Dorrell, Richard G.; Nisbet, R. Ellen R.; Barbrook, Adrian C.; Rowden, Stephen J.L.; Howe, Christopher J.

Abstract

The plastid genomes of peridinin-containing dinoflagellates are highly unusual, possessing very few genes, which are located on small chromosomal elements termed "minicircles". These minicircles may contain genes, or no recognisable coding information. Transcripts produced from minicircles may undergo unusual processing events, such as the addition of a 3' poly(U) tail. To date, little is known about the genetic or transcriptional diversity of non-coding sequences in peridinin dinoflagellate plastids. These sequences include empty minicircles, and regions of non-coding DNA in coding minicircles. Here, we present an integrated plastid genome and transcriptome for the model peridinin dinoflagellate Amphidinium carterae, identifying a previously undescribed minicircle. We also profile transcripts covering non-coding regions of the psbA and petB/atpA minicircles. We present evidence that antisense transcripts are produced within the A. carterae plastid, but show that these transcripts undergo different end cleavage events from sense transcripts, and do not receive 3' poly(U) tails. The difference in processing events between sense and antisense transcripts may enable the removal of non-coding transcripts from peridinin dinoflagellate plastid transcript pools.

Citation

Dorrell, R. G., Nisbet, R. E. R., Barbrook, A. C., Rowden, S. J., & Howe, C. J. (2019). Integrated Genomic and Transcriptomic Analysis of the Peridinin Dinoflagellate Amphidinium carterae Plastid. Protist, 170(4), 358-373. https://doi.org/10.1016/j.protis.2019.06.001

• Journal Article Type: Article
• Acceptance Date: Jun 14, 2019
• Online Publication Date: Jul 5, 2019
• Publication Date: 2019-08
• Deposit Date: Jun 12, 2020
• Journal: Protist
• Print ISSN: 1434-4610
• Electronic ISSN: 1618-0941
• Publisher: Elsevier
• Peer Reviewed: Peer Reviewed
• Volume: 170
• Issue: 4
• Pages: 358-373
• DOI: https://doi.org/10.1016/j.protis.2019.06.001
• Keywords: Microbiology
• Public URL: https://nottingham-repository.worktribe.com/output/4633451
• Publisher URL: The plastid genomes of peridinin-containing dinoflagellates are highly unusual, possessing very few genes, which are located on small chromosomal elements termed "minicircles". These minicircles may contain genes, or no recognisable coding information. Tr
• Additional Information: This article is maintained by: Elsevier; Article Title: Integrated Genomic and Transcriptomic Analysis of the Peridinin Dinoflagellate Amphidinium carterae Plastid; Journal Title: Protist; CrossRef DOI link to publisher maintained version: https://doi.org/10.1016/j.protis.2019.06.001; Content Type: article; Copyright: © 2019 Elsevier GmbH. All rights reserved.