The chromosome-level genome sequence and karyotypic evolution of Megadenia pygmaea (Brassicaceae).
Brassicaceae
Qinghai-Tibet Plateau
descending dysploidy
genome assembly
karyotype and chromosome evolution
Journal
Molecular ecology resources
ISSN: 1755-0998
Titre abrégé: Mol Ecol Resour
Pays: England
ID NLM: 101465604
Informations de publication
Date de publication:
Apr 2021
Apr 2021
Historique:
received:
28
06
2020
revised:
23
10
2020
accepted:
30
10
2020
pubmed:
6
11
2020
medline:
18
8
2021
entrez:
5
11
2020
Statut:
ppublish
Résumé
Karyotypic changes in chromosome number and structure are drivers in the divergent evolution of diverse plant species and lineages. This study aimed to reveal the origins of the unique karyotype (2n = 12) and phylogenetic relationships of the genus Megadenia (Brassicaceae). A high-quality chromosome-scale genome was assembled for Megadenia pygmaea using Nanopore long reads and high-throughput chromosome conformation capture (Hi-C). The assembled genome is 215.2 Mb and is anchored on six pseudochromosomes. We annotated a total of 25,607 high-confidence protein-coding genes and corroborated the phylogenetic affinity of Megadenia with the Brassicaceae expanded lineage II, containing numerous agricultural crops. We dated the divergence of Megadenia from its closest relatives to 27.04 (19.11-36.60) million years ago. A reconstruction of the chromosomal composition of the species was performed based on the de novo assembled genome and comparative chromosome painting analysis. The karyotype structure of M. pygmaea is very similar to the previously inferred proto-Calepineae karyotype (PCK; n = 7) of the lineage II. However, an end-to-end translocation between two ancestral chromosomes reduced the chromosome number from n = 7 to n = 6 in Megadenia. Our reference genome provides fundamental information for karyotypic evolution and evolutionary study of this genus.
Identifiants
pubmed: 33151630
doi: 10.1111/1755-0998.13291
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
871-879Subventions
Organisme : National Natural Science Foundation of China
ID : 41771055
Organisme : National Natural Science Foundation of China
ID : 31700323
Organisme : National Key Research and Development program
ID : 2017YFC0505203
Organisme : Central European Institute of Technology (CEITEC) 2020 project
ID : LQ1601
Informations de copyright
© 2020 John Wiley & Sons Ltd.
Références
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