A pseudomolecule-scale genome assembly of the liverwort Marchantia polymorpha.
DNA methylation
bryophytes
evolution
large-scale genome structure
pseudomolecule
recombination rate
Journal
The Plant journal : for cell and molecular biology
ISSN: 1365-313X
Titre abrégé: Plant J
Pays: England
ID NLM: 9207397
Informations de publication
Date de publication:
03 2020
03 2020
Historique:
received:
14
03
2019
accepted:
28
10
2019
pubmed:
7
11
2019
medline:
12
1
2021
entrez:
7
11
2019
Statut:
ppublish
Résumé
Marchantia polymorpha has recently become a prime model for cellular, evo-devo, synthetic biological, and evolutionary investigations. We present a pseudomolecule-scale assembly of the M. polymorpha genome, making comparative genome structure analysis and classical genetic mapping approaches feasible. We anchored 88% of the M. polymorpha draft genome to a high-density linkage map resulting in eight pseudomolecules. We found that the overall genome structure of M. polymorpha is in some respects different from that of the model moss Physcomitrella patens. Specifically, genome collinearity between the two bryophyte genomes and vascular plants is limited, suggesting extensive rearrangements since divergence. Furthermore, recombination rates are greatest in the middle of the chromosome arms in M. polymorpha like in most vascular plant genomes, which is in contrast with P. patens where recombination rates are evenly distributed along the chromosomes. Nevertheless, some other properties of the genome are shared with P. patens. As in P. patens, DNA methylation in M. polymorpha is spread evenly along the chromosomes, which is in stark contrast with the angiosperm model Arabidopsis thaliana, where DNA methylation is strongly enriched at the centromeres. Nevertheless, DNA methylation and recombination rate are anticorrelated in all three species. Finally, M. polymorpha and P. patens centromeres are of similar structure and marked by high abundance of retroelements unlike in vascular plants. Taken together, the highly contiguous genome assembly we present opens unexplored avenues for M. polymorpha research by linking the physical and genetic maps, making novel genomic and genetic analyses, including map-based cloning, feasible.
Banques de données
figshare
['10.6084/m9.figshare.7803626.v1']
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.
Langues
eng
Sous-ensembles de citation
IM
Pagination
1378-1396Subventions
Organisme : Swiss National Science Foundation
ID : 160004
Pays : Switzerland
Organisme : Swiss National Science Foundation
ID : 131726
Pays : Switzerland
Organisme : Swiss National Science Foundation
ID : 31003A_179553
Pays : Switzerland
Informations de copyright
© 2019 The Authors The Plant Journal © 2019 John Wiley & Sons Ltd.
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