The Leibniz Institute for the Analysis of Biodiversity Change

is a research museum of the Leibniz Association

Sebastian Martin

Scientific Programmer

Computational Genomics

Tel: +49 228 9122-428

Fax: +49 228 9122-212

Mail: s.martin [at] leibniz-zfmk.de

Tabs

Profile

Field of work

I am employed as a scientific programmer at the ZFMK since April 2019. I am involved in the data management of molecular sequences, development of data processing pipelines and benchmarking of bioinformatic tools.

Research interests

Genome evolution
Evolution of gene families
Genome and transcriptome assemblies
Automated and manual annoation
Phylogeny

Projects

2019

FOGS - Forensic Genetics for Species Protection

The FOGS project develops DNA-based tools to combat illegal trade in protected animal species.

Unit:

Biobank, Directorate, Chair Systematic Zoology, Experimental and Applied Ecology, Biodiversity Informatics, Herpetology, Administration, Computational Genomics, Department Arthropoda

Project lead:

Dr. Jonas Astrin

Funding:

Federal Ministry of Education and Research

2017

Sequencing museum material

In this project we investigate how we efficiently can use old, dried, museum materil for phylogenomic studies. A hybrid enrichment kit for Lepidoptera is being designed and first test are promising, indicating that hundreds of genes can be successfully seqeunced for over 130 year old material.

Unit:

Lepidoptera, Statistical Phylogenetics and Phylogenomics, Centre for Molecular Biodiversity Research (zmb)

Project lead:

Dr. Marianne Espeland

Funding:

Zoological Research Museum Alexander Koenig

Publications

Published in

2024

Hofmann, S., Podsiadlowski, L., Andermann, T., Matschiner, M., Baniya, C. B., Litvinchuk, S. L., Martin, S., et al. (2024): The last of their kind: Is the genus Scutiger (Anura: Megophryidae) a relict element of the paleo-Transhimalaya biota? – Molecular Phylogenetics and Evolution 201(2024)108166; https://doi.org/10.1016/j.ympev.2024.108166

[more]

2023

Flury JM, Meusemann K, Martin S, Hilgers L, Spanke T, Böhne A, Herder F, Mokodongan D, Altmüller J, Wowor D, Misof B, Nolte AW, Schwarzer J. (2023) Potential contribution of ancient introgression to the evolution of a derived reproductive strategy in ricefishes. Genome Biology and Evolution: evad138, doi: 10.1093/gbe/evad138

[more]

Links:

Potential contribution of ancient introgression to the evolution of a derived reproductive strategy in ricefishes.

Böhne A, Oğuzhan Z, Chrysostomakis I, Vitt S, Meuthen D, Martin S, Kukowka S and Thünken T. (2023) Evidence for selfing in a vertebrate from whole-genome sequencing. Genome Research: 33: 2133-2142, doi:10.1101/gr.277368.122.

[more]

Links:

Evidence for selfing in a vertebrate from whole-genome sequencing

Bourlat, S. J., Tschan, G. F., Martin, S., Iqram, M., Leidenberger, S. (2023): A red listing gap analysis of molluscs and crustaceans in Northern Europe: What has happened in the last 10 years? - Biological Conservation 286: 110247.

[more]

Links:

https://doi.org/10.1016/j.biocon.2023.110247

Moris, V.C., Podsiadlowski, L., Martin, S., Oeyen, J.P., Donath, A., Petersen, M., Wilbrandt, J., Misof, B., Liedtke, D., Thamm, M., Scheiner, R., Schmitt, T., Niehuis, O. (2023). Intrasexual cuticular hydrocarbon dimorphism in a wasp sheds light on hydrocarbon biosynthesis genes in Hymenoptera. Communications Biology 6: 147

[more]

Pyrcz, T., Lachowska-Cierlik, D., Willmott, K. R., Mrozek, A., Mahecha-Jimenez, O., Fåhraeus ,C., Boyer, P., Martin, S., Espeland, M. (2023): A new genus in the diverse Andean Pedaliodes complex uncovered using target enrichment (Lepidoptera, Nymphalidae). Systematic Entomology, 48, 163-177.

[more]

Oriowo T, Chrysostomakis I, Martin S, Kukowka S, Brown T, Winkler S, Myers EW, Böhne A and Stange M. (2023) A chromosome-level, haplotype-resolved genome assembly and annotation for the Eurasian minnow (Leuciscidae - Phoxinus phoxinus) provide evidence of haplotype diversity. bioRxiv 2023.11.30.569369. doi: 10.1101/2023.11.30.569369

[more]

Links:

A chromosome-level, haplotype-resolved genome assembly and annotation for the Eurasian minnow (Leuciscidae - Phoxinus phoxinus)

2022

Joshi, M., Espeland, M., Dincă, V., Vila, R., Tahami, M.S., Dietz, L., Mayer, C., Martin, S., Dapporto, L. and Mutanen, M., (2022): Delimiting Continuity: Comparison of Target Enrichment and ddRAD for Delineating Admixing Parapatric Melitaea Butterflies. Systematic Entomology

[more]

Martin, S., Lesny, P., Glenner, H., Hecht, J., Vilcinskas, A., Bartolomaeus, T., Podsiadlowski, L. (2022). Genomic adaptations to an endoparasitic lifestyle in a morphologically aberrant crustacean, Sacculina carcini (Cirripedia: Rhizocephala). Genome Biology & Evolution 14: evac149

[more]

2021

Mayer, C., Dietz, L., Call, E., Kukowka, S., Martin, S., Espeland, M., 2021. Adding leaves to the Lepidoptera tree: capturing hundreds of nuclear genes from old museum specimens. Systematic Entomology 46, 649-671 https://doi.org/10.1111/syen.12481

[more]

Vasilikopoulos, A., Balke, M., Kukowka, S., Pflug, J. M., Martin, S., Meusemann, K., Hendrich, L., Mayer, C., Maddison, D. R., Niehuis, O., Beutel, R. G. Misof, B. (2021): Phylogenomic analyses clarify the pattern of evolution of Adephaga (Coleoptera) and highlight phylogenetic artefacts due to model misspecification and excessive data trimming. - Systematic Entomoly 46: 991-1018. https://doi.org/10.1111/syen.12508.

[more]

Links:

https://doi.org/10.1111/syen.12508

Presentations

Poster

„Repeat landscapes in the genomes of Cirripedia (Crustacea)“, DZG conference Bielefeld 2017

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Sebastian Martin

Tabs

Field of work

Research interests

2019

FOGS - Forensic Genetics for Species Protection

2017

Sequencing museum material

2024

2023

2022

2021

Poster

Staff search