Kjellin, Jonas and Avesson, Lotta and Reimegard, Johan and Liao, Zhen and Eichinger, Ludwig and Noegel, Angelika and Glockner, Gernot and Schaap, Pauline and Soderbom, Fredrik
(2021).
Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas.
Genome Research. 31
, 436-447
[Research article]
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Abstract
Aggregative multicellularity has evolved multiple times in diverse groups of eukaryotes, exemplified by the well-studied development of dictyostelid social amoebas, for example, Dictyostelium discoideum. However, it is still poorly understood why multicellularity emerged in these amoebas while the majority of other members of Amoebozoa are unicellular. Previously, a novel type of noncoding RNA, Class I RNAs, was identified in D. discoideum and shown to be important for normal multicellular development. Here, we investigated Class I RNA evolution and its connection to multicellular development. We identified a large number of new Class I RNA genes by constructing a covariance model combined with a scoring system based on conserved upstream sequences. Multiple genes were predicted in representatives of each major group of Dictyostelia and expression analysis confirmed that our search approach identifies expressed Class I RNA genes with high accuracy and sensitivity and that the RNAs are developmentally regulated. Further studies showed that Class I RNAs are ubiquitous in Dictyostelia and share highly conserved structure and sequence motifs. In addition, Class I RNA genes appear to be unique to dictyostelid social amoebas because they could not be identified in outgroup genomes, including their closest known relatives. Our results show that Class I RNA is an ancient class of ncRNAs, likely to have been present in the last common ancestor of Dictyostelia dating back at least 600 million years. Based on previous functional analyses and the presented evolutionary investigation, we hypothesize that Class I RNAs were involved in evolution of multicellularity in Dictyostelia.
Authors/Creators: | Kjellin, Jonas and Avesson, Lotta and Reimegard, Johan and Liao, Zhen and Eichinger, Ludwig and Noegel, Angelika and Glockner, Gernot and Schaap, Pauline and Soderbom, Fredrik | ||||||
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Title: | Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas | ||||||
Series Name/Journal: | Genome Research | ||||||
Year of publishing : | 2021 | ||||||
Volume: | 31 | ||||||
Page range: | 436-447 | ||||||
Number of Pages: | 12 | ||||||
Publisher: | COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT | ||||||
ISSN: | 1088-9051 | ||||||
Language: | English | ||||||
Publication Type: | Research article | ||||||
Article category: | Scientific peer reviewed | ||||||
Version: | Published version | ||||||
Copyright: | Creative Commons: Attribution 4.0 | ||||||
Full Text Status: | Public | ||||||
Subjects: | (A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Genetics (medical genetics to be 30107 and agricultural genetics to be 40402) (A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Evolutionary Biology | ||||||
URN:NBN: | urn:nbn:se:slu:epsilon-p-111359 | ||||||
Permanent URL: | http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-111359 | ||||||
Additional ID: |
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ID Code: | 23261 | ||||||
Faculty: | NJ - Fakulteten för naturresurser och jordbruksvetenskap | ||||||
Department: | (NL, NJ) > Dept. of Molecular Biology (until 131231) | ||||||
Deposited By: | SLUpub Connector | ||||||
Deposited On: | 13 Apr 2021 19:03 | ||||||
Metadata Last Modified: | 14 Apr 2021 05:01 |
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