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Research article
Jiangwei Qiao
Oil Crops Research Institute of Chinese Academy of Agricultural Sciences
Corresponding Author
ORCiD: https://orcid.org/0000-0003-3094-9500
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background : The genus Brassica mainly comprises three diploid and three recently derived allotetraploid species, most of which are highly important vegetable, oil or ornamental crops cultivated worldwide. Despite being extensively studied, the origination of the allotetraploid crops and the overall phylogeny of Brassica genus are still far from completely resolved, which has greatly hindered the development of novel Brassica crops. Here, we target and integrate the chloroplast DNA and mitochondrial DNA to investigate the genetic diversity and relationships in large plant populations centering on Brassica genus.
Results : The phylogenetic analyses based on a data set including 72 de novo assembled whole chloroplast genomes, delineated a comprehensive evolutional atlas inside and around Brassica genus. The maternal origin of both B. juncea and B. carinata are monophyletic from cam-type B. rapa and B. nigra , respectively. Nonetheless, the current B. napus contains three major cytoplasmic haplotypes: the cam -type which directly inherited from B. rapa , polima -type which is close to cam -type as a sister, and the predominant nap -type. Intriguingly, nap -type seems phylogenetically integrated with certain sparse C-genome wild species, thus implying that which may have primarily contributed the cytoplasm and the corresponding C subgenome to B. napus . Human breeding creation of the B. napus cytoplasmic male sterile lines (e.g., mori and nsa ) dramatically disturbed the concurrent inheritance between mtDNA and cpDNA. Strong parallel evolution among genera Raphanus , Sinapis, Eruca , Moricandia with Brassica indicates their uncomplete divergence from each other.
Conclusions : The overall variation data and elaborated phylogenetic relationships obtained herein can substantially facilitate the development of novel Brassica crops, e.g. the allotetraploid rapeseed with new cytonuclear integrations and the allohexaploid rapeseed.
Keywords
Brassica, rapeseed, cytoplasmic DNA, maternal origin, evolutionary relationship, cytoplasmic male sterility
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CURRENT STATUS: Published
View the published article at BMC Genomics.
No community comments so far
Editorial decision: Accept
On 06 Jul, 2020
Reviewers invited
Invitations sent on 26 Jun, 2020
Editor assigned
On 22 Jun, 2020
Submission checks complete
On 21 Jun, 2020
Editor invited
On 21 Jun, 2020
No comments provided
Editorial decision: Major revision
On 22 Apr, 2020
Review #1 received
Received 20 Apr, 2020
Review #2 received
Received 20 Apr, 2020
Reviewer #1 agreed
On 31 Mar, 2020
Reviewer #2 agreed
On 31 Mar, 2020
Reviewers invited
Invitations sent on 30 Mar, 2020
Editor assigned
On 29 Mar, 2020
Submission checks complete
On 28 Mar, 2020
Editor invited
On 28 Mar, 2020
Version 1
Posted 21 Nov, 2019
No comments provided
Review #1 received
Received 23 Dec, 2019
Editorial decision: Major revision
On 23 Dec, 2019
Review #3 received
Received 11 Dec, 2019
Review #2 received
Received 11 Dec, 2019
Reviewer #3 agreed
On 02 Dec, 2019
Reviewer #2 agreed
On 01 Dec, 2019
Reviewers invited
Invitations sent on 28 Nov, 2019
Reviewer #1 agreed
On 28 Nov, 2019
Editor invited
On 18 Nov, 2019
Editor assigned
On 04 Nov, 2019
First submitted
On 03 Nov, 2019
Submission checks complete
On 03 Nov, 2019
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See the published version of this preprint at BMC Genomics.
This is a preprint, 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
Jiangwei Qiao
Oil Crops Research Institute of Chinese Academy of Agricultural Sciences
Corresponding Author
ORCiD: https://orcid.org/0000-0003-3094-9500
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: Published
View the published article at BMC Genomics.
No community comments so far
Editorial decision: Accept
On 06 Jul, 2020
Reviewers invited
Invitations sent on 26 Jun, 2020
Editor assigned
On 22 Jun, 2020
Submission checks complete
On 21 Jun, 2020
Editor invited
On 21 Jun, 2020
No comments provided
Editorial decision: Major revision
On 22 Apr, 2020
Review #1 received
Received 20 Apr, 2020
Review #2 received
Received 20 Apr, 2020
Reviewer #1 agreed
On 31 Mar, 2020
Reviewer #2 agreed
On 31 Mar, 2020
Reviewers invited
Invitations sent on 30 Mar, 2020
Editor assigned
On 29 Mar, 2020
Submission checks complete
On 28 Mar, 2020
Editor invited
On 28 Mar, 2020
Version 1
Posted 21 Nov, 2019
No comments provided
Review #1 received
Received 23 Dec, 2019
Editorial decision: Major revision
On 23 Dec, 2019
Review #3 received
Received 11 Dec, 2019
Review #2 received
Received 11 Dec, 2019
Reviewer #3 agreed
On 02 Dec, 2019
Reviewer #2 agreed
On 01 Dec, 2019
Reviewers invited
Invitations sent on 28 Nov, 2019
Reviewer #1 agreed
On 28 Nov, 2019
Editor invited
On 18 Nov, 2019
Editor assigned
On 04 Nov, 2019
First submitted
On 03 Nov, 2019
Submission checks complete
On 03 Nov, 2019
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at BMC Genomics.
Background : The genus Brassica mainly comprises three diploid and three recently derived allotetraploid species, most of which are highly important vegetable, oil or ornamental crops cultivated worldwide. Despite being extensively studied, the origination of the allotetraploid crops and the overall phylogeny of Brassica genus are still far from completely resolved, which has greatly hindered the development of novel Brassica crops. Here, we target and integrate the chloroplast DNA and mitochondrial DNA to investigate the genetic diversity and relationships in large plant populations centering on Brassica genus.
Results : The phylogenetic analyses based on a data set including 72 de novo assembled whole chloroplast genomes, delineated a comprehensive evolutional atlas inside and around Brassica genus. The maternal origin of both B. juncea and B. carinata are monophyletic from cam-type B. rapa and B. nigra , respectively. Nonetheless, the current B. napus contains three major cytoplasmic haplotypes: the cam -type which directly inherited from B. rapa , polima -type which is close to cam -type as a sister, and the predominant nap -type. Intriguingly, nap -type seems phylogenetically integrated with certain sparse C-genome wild species, thus implying that which may have primarily contributed the cytoplasm and the corresponding C subgenome to B. napus . Human breeding creation of the B. napus cytoplasmic male sterile lines (e.g., mori and nsa ) dramatically disturbed the concurrent inheritance between mtDNA and cpDNA. Strong parallel evolution among genera Raphanus , Sinapis, Eruca , Moricandia with Brassica indicates their uncomplete divergence from each other.
Conclusions : The overall variation data and elaborated phylogenetic relationships obtained herein can substantially facilitate the development of novel Brassica crops, e.g. the allotetraploid rapeseed with new cytonuclear integrations and the allohexaploid rapeseed.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
This is a list of supplementary files associated with this preprint. Click to download.
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