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Research Article
Heterotrophic Euglenid Rhabdomonas Costata Resembles Its Phototrophic Relatives in Many Aspects of Molecular and Cell Biology
Vladimir Hampl
Charles University
Corresponding Author
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Euglenids represent a group of protists with diverse modes of feeding. To date, only a partial genomic sequence of Euglena gracilis and transcriptomes of several phototrophic and secondarily osmotrophic species are available, while primarily heterotrophic euglenids are seriously undersampled. In this work, we begin to fill this gap by presenting genomic and transcriptomic drafts of a primary osmotroph, Rhabdomonas costata. The current genomic assembly length of 100 Mbp is 14× smaller than that of E. gracilis. Despite being too fragmented for comprehensive gene prediction, comparison of the transcriptomic and genomic data revealed features of its introns, including several candidates for nonconventional introns. 16 % of transcripts bear a recognizable partial splice leader sequence. A set of 39,585 putative R. costata proteins were predicted from the transcriptome. Annotation of the mitochondrial core metabolism provides the first data on the facultatively anaerobic mitochondrion of R. costata, which in most respects resembles the mitochondrion of E. gracilis with certain level of streamlining. R. costata synthesises heme by a mitochondrial-cytoplasmatic C4 pathway with enzymes orthologous to those found in E. gracilis. The low percentage of green algae-affiliated genes, supports the ancestrally osmotrophic status of this species.
Keywords
Mitochondrial metabolism, nonconventional introns, genomic draft, transcriptome, heme synthesis, phylogeny
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This preprint is under consideration at Scientific Reports. A preprint is a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Learn more about In Review
Research Article
Heterotrophic Euglenid Rhabdomonas Costata Resembles Its Phototrophic Relatives in Many Aspects of Molecular and Cell Biology
Vladimir Hampl
Charles University
Corresponding Author
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Under Revision
Version 1
Posted 30 Nov, 2020
No community comments so far
Editorial decision: Major revision
On 01 Feb, 2021
Reviewer #5 agreed
On 19 Jan, 2021
Review #2 received
Received 26 Dec, 2020
Review #15 received
Received 26 Dec, 2020
Review #6 received
Received 26 Dec, 2020
Review #13 received
Received 26 Dec, 2020
Review #16 received
Received 26 Dec, 2020
Review #14 received
Received 26 Dec, 2020
Review #1 received
Received 26 Dec, 2020
Review #3 received
Received 26 Dec, 2020
Review #8 received
Received 26 Dec, 2020
Review #11 received
Received 26 Dec, 2020
Review #12 received
Received 26 Dec, 2020
Review #9 received
Received 26 Dec, 2020
Review #10 received
Received 26 Dec, 2020
Reviewer #7 agreed
On 24 Dec, 2020
Reviewer #14 agreed
On 24 Dec, 2020
Reviewer #17 agreed
On 24 Dec, 2020
Reviewer #15 agreed
On 24 Dec, 2020
Reviewer #12 agreed
On 18 Dec, 2020
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On 18 Dec, 2020
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On 18 Dec, 2020
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On 18 Dec, 2020
Reviewer #10 agreed
On 18 Dec, 2020
Reviewer #22 agreed
On 18 Dec, 2020
Reviewer #19 agreed
On 18 Dec, 2020
Reviewer #20 agreed
On 18 Dec, 2020
Reviewers invited
Invitations sent on 27 Nov, 2020
Editor assigned
On 27 Nov, 2020
Editor invited
On 24 Nov, 2020
Submission checks complete
On 24 Nov, 2020
First submitted
On 20 Nov, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Euglenids represent a group of protists with diverse modes of feeding. To date, only a partial genomic sequence of Euglena gracilis and transcriptomes of several phototrophic and secondarily osmotrophic species are available, while primarily heterotrophic euglenids are seriously undersampled. In this work, we begin to fill this gap by presenting genomic and transcriptomic drafts of a primary osmotroph, Rhabdomonas costata. The current genomic assembly length of 100 Mbp is 14× smaller than that of E. gracilis. Despite being too fragmented for comprehensive gene prediction, comparison of the transcriptomic and genomic data revealed features of its introns, including several candidates for nonconventional introns. 16 % of transcripts bear a recognizable partial splice leader sequence. A set of 39,585 putative R. costata proteins were predicted from the transcriptome. Annotation of the mitochondrial core metabolism provides the first data on the facultatively anaerobic mitochondrion of R. costata, which in most respects resembles the mitochondrion of E. gracilis with certain level of streamlining. R. costata synthesises heme by a mitochondrial-cytoplasmatic C4 pathway with enzymes orthologous to those found in E. gracilis. The low percentage of green algae-affiliated genes, supports the ancestrally osmotrophic status of this species.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
Figure 8
Figure 9
Due to technical limitations, full-text HTML conversion of this manuscript could not be completed. However, the manuscript can be downloaded and accessed as a PDF.