Publications of the Plant Genomics Group

Covers

Cover of our protocol book "Plant Cytogenetics and Cytogenomics in the "Methods in Molecular Biology" series. Learn more

Cover zu unserem Artikel über Cassandra-Retrotransposons: Dies sindtransponible Elemente, welche die Promoter-Struktur der 5S-rDNA eingefangen haben und mitnutzen.

Cover to our article on Cassandra retrotransposons: These are transposable elements that have captured the promoter structure of the 5S rDNA. Learn more

Cover zu unserem Artikel zur Herkunft des Safran-Krokus.

Cover for our article that unravels the genetic origin of saffron crocus. Learn more

Preprints and articles in press

A. El-nagish, S. Liedtke, S. Breitenbach and T. Heitkam (2024): "Preparing high-quality chromosome spreads from Crocus species for karyotyping and FISH", bioRxiv, doi: 10.1101/2024.11.18.624136. read preprint

N. Schmidt, S. Maiwald, L. Mann, B. Weber, K. M. Seibt, S. Breitenbach, S. Liedtke, G. Menzel, B. Weisshaar, D. Holtgräwe, T. Heitkam (2024): “BeetRepeats: reference sequences for genome and polymorphism annotation in sugar beet and wild relatives”, in press at BMC Research Notes , doi: 10.1186/s13104-024-06993-4.
The database of beet repeat sequences can be already accessed via Zenodo: 10.5281/zenodo.8255813.

S. Ishiguro, S. Taniguchi, N. Schmidt, M. Jost, S. Wanke, T. Heitkam, N. Ohmido (2024): "Repeatome landscapes and cytogenetics of hortensias provide a framework to trace Hydrangea evolution and domestication", in press at Annals of Botany.
Read the corresponding preprint: bioRxiv, doi: 10.1101/2024.06.05.597687.

Sielemann K., Schmidt N., Guzik J., Kalina N., Pucker B., Viehöver P., Breitenbach S., Weisshaar B., Heitkam T.and Holtgräwe D. (2023): "Pangenome of cultivated beet and crop wild relatives reveals parental relationships of a tetraploid wild beet", bioRxiv, doi: 10.1101/2023.06.28.546919.

Publications

37 Entries

2022

Larix species range dynamics in Siberia since the Last Glacial captured from sedimentary ancient DNASchulte, L., Meucci, S., Stoof-Leichsenring, K. R., Heitkam, T., Schmidt, N., Hippel, B. V., Andreev, A. A. & 9 others, 9 Jun 2022, In: Communications Biology. 5, 1, 11 p., 570Electronic (full-text) versionResearch output: Contribution to journal > Research article
Ancient Artworks and Crocus Genetics Both Support Saffron's Origin in Early GreeceKazemi-Shahandashti, S., Mann, L., El-Nagish, A., Harpke, D., Nemati, Z., Usadel, B. & Heitkam, T., 25 Feb 2022, In: Frontiers in plant science. 13, p. 834416, 834416Electronic (full-text) versionResearch output: Contribution to journal > Review article
Complete pan-plastome sequences enable high resolution phylogenetic classification of sugar beet and closely related crop wild relativesSielemann, K., Pucker, B., Schmidt, N., Viehöver, P., Weisshaar, B., Heitkam, T. & Holtgräwe, D., 10 Feb 2022, In: BMC genomics. 23, 1, 17 p., 113Electronic (full-text) versionResearch output: Contribution to journal > Research article
ECCsplorer: a pipeline to detect extrachromosomal circular DNA (eccDNA) from next-generation sequencing dataMann, L., Seibt, K. M., Weber, B. & Heitkam, T., 14 Jan 2022, In: BMC bioinformatics. 23, 1, p. 23-40, 15 p., 40Electronic (full-text) versionResearch output: Contribution to journal > Research article

2021

Can we have it all?: Repurposing target capture for repeat genomics. A commentary on: 'Aiming off the target: recycling target capture sequencing reads for investigating repetitive DNA'Heitkam, T. & Garcia, S., 9 Nov 2021, In: Annals of Botany. 128, 7, p. iii-vElectronic (full-text) versionResearch output: Contribution to journal > Comment/Debate
Broken, silent, and in hiding: tamed endogenous pararetroviruses escape elimination from the genome of sugar beet (Beta vulgaris)Schmidt, N., Seibt, K. M., Weber, B., Schwarzacher, T., Schmidt, T. & Heitkam, T., 26 Aug 2021, In: Annals of Botany. 128, 3, p. 281-299, 19 p.Electronic (full-text) versionResearch output: Contribution to journal > Research article
Comparative Repeat Profiling of Two Closely Related Conifers (Larix decidua and Larix kaempferi) Reveals High Genome Similarity With Only Few Fast-Evolving Satellite DNAsHeitkam, T., Schulte, L., Weber, B., Liedtke, S., Breitenbach, S., Kögler, A., Morgenstern, K. & 5 others, 12 Jul 2021, In: Frontiers in genetics. 12, p. 683668, 683668Electronic (full-text) versionResearch output: Contribution to journal > Research article
TE Hub: a community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotationTE Hub Consortium, Elliott, T. A., Heitkam, T., Hubley, R., Quesneville, H., Suh, A. & Wheeler, T. J., 21 Jun 2021, In: Mobile DNA. 12, 1, p. 16, 16Electronic (full-text) versionResearch output: Contribution to journal > Research article
The Cassandra retrotransposon landscape in sugar beet (Beta vulgaris) and related Amaranthaceae: recombination and re-shuffling lead to a high structural variabilityMaiwald, S., Weber, B., Seibt, K. M., Schmidt, T. & Heitkam, T., 1 Jan 2021, In: Annals of Botany. 127, 1, p. 91-109, 19 p.Electronic (full-text) versionResearch output: Contribution to journal > Research article
Application of retrotransposon-based Inter-SINE Amplified Polymorphism (ISAP) markers for the differentiation of common poplar genotypesReiche, B., Kögler, A., Morgenstern, K., Brückner, M., Weber, B., Heitkam, T., Seibt, K. M. & 5 others, 2021, In: Canadian Journal of Forest Research. 51, 11, p. 1650-1663, 14 p.Electronic (full-text) versionResearch output: Contribution to journal > Research article