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Monat, C.* ; Padmarasu, S.* ; Lux, T. ; Wicker, T.* ; Gundlach, H. ; Himmelbach, A.* ; Ens, J.* ; Li, C.* ; Muehlbauer, G.J.* ; Schulman, A.H.* ; Waugh, R.* ; Braumann, I.* ; Pozniak, C.* ; Scholz, U.* ; Mayer, K.F.X. ; Spannagl, M. ; Stein, N.* ; Mascher, M.*

TRITEX: Chromosome-scale sequence assembly of Triticeae genomes with open-source tools.

Genome Biol. 20:284 (2019)
Verlagsversion Forschungsdaten DOI PMC
Open Access Gold
Creative Commons Lizenzvertrag
Chromosome-scale genome sequence assemblies underpin pan-genomic studies. Recent genome assembly efforts in the large-genome Triticeae crops wheat and barley have relied on the commercial closed-source assembly algorithm DeNovoMagic. We present TRITEX, an open-source computational workflow that combines paired-end, mate-pair, 10X Genomics linked-read with chromosome conformation capture sequencing data to construct sequence scaffolds with megabase-scale contiguity ordered into chromosomal pseudomolecules. We evaluate the performance of TRITEX on publicly available sequence data of tetraploid wild emmer and hexaploid bread wheat, and construct an improved annotated reference genome sequence assembly of the barley cultivar Morex as a community resource.
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Publikationstyp Artikel: Journalartikel
Dokumenttyp Wissenschaftlicher Artikel
Korrespondenzautor
Schlagwörter Rust Resistance Genes; Wheat; Progenitor; Alignment; Rna; Annotation; Diversity; Database; Program
ISSN (print) / ISBN 1474-760X
e-ISSN 1465-6906
Zeitschrift Genome Biology
Quellenangaben Band: 20, Heft: 1, Seiten: , Artikelnummer: 284 Supplement: ,
Verlag BioMed Central
Verlagsort Campus, 4 Crinan St, London N1 9xw, England
Nichtpatentliteratur Publikationen
Begutachtungsstatus Peer reviewed
Institut(e) Research Unit Plant Genome and Systems Biology (PGSB)