PuSH - Publication Server of Helmholtz Zentrum München: Insights into the evolution of symbiosis gene copy number and distribution from a chromosome-scale <em>Lotus japonicus</em> Gifu genome sequence.

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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)

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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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Publication type Article: Journal article

Document type Scientific Article

Corresponding Author

Keywords 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

Journal DNA Research

Quellenangaben Volume: 27, Issue: 3, Article Number: dsaa015

Publisher Oxford University Press

Publishing Place Great Clarendon St, Oxford Ox2 6dp, England

Non-patent literature Publications

Reviewing status Peer reviewed

Institute(s) Research Unit Plant Genome and Systems Biology (PGSB)

Grants 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