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Kamal, N. ; Mun, T.* ; Reid, D.* ; Lin, J.S.* ; Akyol, T.Y.* ; Sandal, N.* ; Asp, T.* ; Hirakawa, H.* ; Stougaard, J.* ; Mayer, K.F.X. ; Sato, S.* ; Andersen, S.U.*

Insights into the evolution of symbiosis gene copy number and distribution from a chromosome-scale Lotus japonicus Gifu genome sequence.

DNA Res. 27:dsaa015 (2020)
Verlagsversion Forschungsdaten DOI PMC
Open Access Gold
Creative Commons Lizenzvertrag
Lotus japonicus is a herbaceous perennial legume that has been used extensively as a genetically tractable model system for deciphering the molecular genetics of symbiotic nitrogen fixation. Our aim is to improve the L. japonicus reference genome sequence, which has so far been based on Sanger and Illumina sequencing reads from the L. japonicus accession MG-20 and contained a large fraction of unanchored contigs. Here, we use long PacBio reads from L. japonicus Gifu combined with Hi-C data and new high-density genetic maps to generate a high-quality chromosome-scale reference genome assembly for L. japonicus. The assembly comprises 554 megabases of which 549 were assigned to six pseudomolecules that appear complete with telomeric repeats at their extremes and large centromeric regions with low gene density. The new L. japonicus Gifu reference genome and associated expression data represent valuable resources for legume functional and comparative genomics. Here, we provide a first example by showing that the symbiotic islands recently described in Medicago truncatula do not appear to be conserved in L. japonicus.
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Publikationstyp Artikel: Journalartikel
Dokumenttyp Wissenschaftlicher Artikel
Korrespondenzautor
Schlagwörter Legume ; Symbiosis ; Rhizobium ; Comparative Genomics ; Expression Atlas; Arbuscular Mycorrhiza; Provides Insights; Legume; Alignment; Annotation; Expression; Maps; Tool; Dna
ISSN (print) / ISBN 1340-2838
e-ISSN 1756-1663
Zeitschrift DNA Research
Quellenangaben Band: 27, Heft: 3, Seiten: , Artikelnummer: dsaa015 Supplement: ,
Verlag Oxford University Press
Verlagsort Great Clarendon St, Oxford Ox2 6dp, England
Nichtpatentliteratur Publikationen
Begutachtungsstatus Peer reviewed
Institut(e) Research Unit Plant Genome and Systems Biology (PGSB)
Förderungen Genome Information Upgrading Program of the National BioResource Project in 2015
Danish Council for Independent Research j Technology and Production Sciences
CRISBAR grant of the German Ministry for Education and Research (BMBF)
JST CREST
Genome Information Upgrading Program of the National BioResource Project in 2014
Danish National Research Foundation