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WeightNameValue
1000 Titel
  • Sequencing of BAC pools by different next generation sequencing platforms and strategies
1000 Autor/in
  1. Taudien, Stefan |
  2. Steuernagel, Burkhard |
  3. Ariyadasa, Ruvini |
  4. Schulte, Daniela |
  5. Schmutzer, Thomas |
  6. Groth, Marco |
  7. Felder, Marius |
  8. Petzold, Andreas |
  9. Scholz, Uwe |
  10. Mayer, Klaus |
  11. Stein, Nils |
  12. Platzer, Matthias |
1000 Erscheinungsjahr 2011
1000 Art der Datei
1000 Publikationstyp
  1. Artikel |
1000 Online veröffentlicht
  • 2011-10-14
1000 Erschienen in
1000 Quellenangabe
  • 4: 411
1000 FRL-Sammlung
1000 Copyrightjahr
  • 2011
1000 Lizenz
1000 Verlagsversion
  • https://dx.doi.org/10.1186/1756-0500-4-411 |
  • https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3213688/ |
1000 Ergänzendes Material
  • http://bmcresnotes.biomedcentral.com/articles/10.1186/1756-0500-4-411#Declarations |
1000 Publikationsstatus
1000 Begutachtungsstatus
1000 Sprache der Publikation
1000 Abstract/Summary
  • BACKGROUND: Next generation sequencing of BACs is a viable option for deciphering the sequence of even large and highly repetitive genomes. In order to optimize this strategy, we examined the influence of read length on the quality of Roche/454 sequence assemblies, to what extent Illumina/Solexa mate pairs (MPs) improve the assemblies by scaffolding and whether barcoding of BACs is dispensable. RESULTS: Sequencing four BACs with both FLX and Titanium technologies revealed similar sequencing accuracy, but showed that the longer Titanium reads produce considerably less misassemblies and gaps. The 454 assemblies of 96 barcoded BACs were improved by scaffolding 79% of the total contig length with MPs from a non-barcoded library. Assembly of the unmasked 454 sequences without separation by barcodes revealed chimeric contig formation to be a major problem, encompassing 47% of the total contig length. Masking the sequences reduced this fraction to 24%. CONCLUSION: Optimal BAC pool sequencing should be based on the longest available reads, with barcoding essential for a comprehensive assessment of both repetitive and non-repetitive sequence information. When interest is restricted to non-repetitive regions and repeats are masked prior to assembly, barcoding is non-essential. In any case, the assemblies can be improved considerably by scaffolding with non-barcoded BAC pool MPs.
1000 Sacherschließung
lokal 454
lokal scaffolding
lokal next generation sequencing
lokal BAC pools
lokal barcoding
lokal barley
lokal Illumina
lokal mate pairs
1000 Fachgruppe
  1. Biologie |
1000 Fächerklassifikation (DDC)
1000 Liste der Beteiligten
  1. https://frl.publisso.de/adhoc/creator/VGF1ZGllbiwgU3RlZmFu|http://orcid.org/0000-0002-8284-7728|https://frl.publisso.de/adhoc/creator/QXJpeWFkYXNhLCBSdXZpbmk=|https://frl.publisso.de/adhoc/creator/U2NodWx0ZSwgRGFuaWVsYQ==|http://orcid.org/0000-0003-1073-6719|http://orcid.org/0000-0002-9199-8990|https://frl.publisso.de/adhoc/creator/RmVsZGVyLCBNYXJpdXM=|https://frl.publisso.de/adhoc/creator/UGV0em9sZCwgQW5kcmVhcw==|http://orcid.org/0000-0001-6113-3518|https://frl.publisso.de/adhoc/creator/TWF5ZXIsIEtsYXVz|http://orcid.org/0000-0003-3011-8731|http://orcid.org/0000-0003-0596-8582
1000 Label
1000 Förderer
  1. German Ministry of Education and Research (BMBF) |
1000 Fördernummer
  1. GABI-BARLEX FKZ0314000
1000 Förderprogramm
  1. -
1000 Dateien
1000 Förderung
  1. 1000 joinedFunding-child
    1000 Förderer German Ministry of Education and Research (BMBF) |
    1000 Förderprogramm -
    1000 Fördernummer GABI-BARLEX FKZ0314000
1000 Objektart article
1000 Beschrieben durch
1000 @id frl:6403064.rdf
1000 Erstellt am 2017-06-14T11:53:51.822+0200
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1000 Bearbeitet von 218
1000 Zuletzt bearbeitet Thu Jan 30 17:54:01 CET 2020
1000 Objekt bearb. Wed Jun 20 12:15:08 CEST 2018
1000 Vgl. frl:6403064
1000 Oai Id
  1. oai:frl.publisso.de:frl:6403064 |
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