Our Research
Research in the Hiller lab revolves around a central question in genomics and evolutionary biology: What is the genomic basis of phenotypic differences between species?
Our focus is explicitly on differences between species as opposed to differences within a species. We aim at discovering the genomic determinants of macroevolutionary trait differences, which is important to understand how nature’s spectacular phenotypic diversity has evolved. Our current focus is on studying the genomic basis of vertebrate traits that have potential applicants in biomedicine or other fields.
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To understand the molecular basis of biological diversity, we combine comparative genomics with genome sequencing and methods development. Our current research is interdisciplinary and includes
- sequencing reference-quality genomes and transcriptomes of selected species with interesting traits,
- developing new computational approaches to align genes and genomes, to annotate genes and infer orthologs, to accurately detect relevant evolutionary changes in functional genomic regions, and to discover associations between genotype and phenotype,
- running large-scale comparative genomic screens using existing and newly-sequenced genomes and our powerful methods toolbox to reveal the genomic basis of phenotypic adaptations and link phenotypic to genomic differences.
More information about our current projects:
- Genomic underpinnings of exceptional traits in bats
- Genomics of dietary adaptations
- Adaptive gene losses
- Forward Genomics: Linking phenotypic to genomic changes across species
- Development of comparative genomics methods
Videos
- Forward Genomics and linking phenotype to genotype (ESEB 2019; 10 min)
- Genomic determinants of adaptations in bats (PAG 2020; 26 min)
- Hat Evolution wirklich stattgefunden? (youtube in German)
News
07 / 2022
Welcome to our new PhD student Yury Malovichko.
05 / 2022
Huge congrats to Ekaterina Osipova, who did a great job defending her PhD.
04 / 2022
We welcome Bernhard Bein as a new PhD student in the lab.
04 / 2022
Welcome to our new Postdoc Shenglin Liu !!
03 / 2022
We contributed a high-quality gene annotation (BUSCO 99.4%) for the helmeted honeyeater.
03 / 2022
Our vampire bat gene loss paper is out in Science Advances. Some press
02 / 2022
Big congrats to Dimitris Kontopoulos for winning an EMBO Postdoc Fellowship.
01 / 2022
Juliana’s paper on convergent limb losses in reptiles is published in Cell Reports.
01 / 2022
Our assembly gap closing method DENTIST is published at GigaScience.
12 / 2021
LOEWE-TBG successfully got funding for the next 3 years !!
11 / 2021
Huge congrats to Bogdan Kirilenko, our TOGA master, for defending his PhD.
10 / 2021
Excellent blog on our preprint on gene losses
in vampire bats.
09 / 2021
Ekaterina Osipova gave a great talk @EMBOEvolAnimalGenomes on gene losses in hummingbirds and metabolic adaptation
08 / 2021
Welcome to our new Postdoc Leon Hilgers !!
05 / 2021
Lab move to TBG and Senckenberg in Frankfurt
Selected publications
- Jebb D, Huang Z, Pippel M, Hughes GM, Lavrichenko K, Devanna P, Winkler S, Jermiin LS, Skirmuntt EC, Katzourakis A, Burkitt-Gray L, Ray DA, Sullivan KAM, Roscito JG, Kirilenko BM, Dávalos LM, Corthals AP, Power ML, Jones G, Ransome RD, Dechmann D, Locatelli AG, Puechmaille SJ, Fedrigo O, Jarvis ED, Hiller M #, Vernes SC #, Myers EW #, Teeling EC #. Six reference-quality genomes reveal evolution of bat adaptations. Nature, 583, 578–584, 2020
- See also Nature Reviews Genetics highlight and Science feature. More press.
- Huelsmann M, Hecker N, Springer MS, Gatesy J, Sharma V, Hiller M #. Genes lost during the transition from land to water in cetaceans highlight genomic changes associated with aquatic adaptations. Science Adv, 5(9), eaaw6671, 2019 some press: New York Times, Science News, Discover Magazine, Smithsonian, Daily Herald, German Radio F1000 recommended
- Hecker N, Sharma V, Hiller M #. Convergent gene losses illuminate metabolic and physiological changes in herbivores and carnivores. PNAS, 116(8), 3036-3041, 2019
- Roscito JG, Sameith K, Parra G, Langer BE, Petzold A, Moebius C, Bickle M, Rodrigues MT, Hiller M #. Phenotype loss is associated with widespread divergence of the gene regulatory landscape in evolution. Nature Communications, 9:4737, 2018
- Jebb D, Hiller M #. Recurrent loss of HMGCS2 shows that ketogenesis is not essential for the evolution of large mammalian brains. Elife, 7, e38906, 2018
- Lee JH, Lewis KM, Moural TW, Kirilenko B, Bogdanova B, Prange G, Koessl M, Huggenberger S, Kang C, and Hiller M #. Molecular parallelism in fast-twitch muscle proteins in echolocating mammals. Science Adv, 4(9), eaat9660, 2018
- Sharma V, Lehmann T, Stuckas H, Funke L, and Hiller M #. Loss of RXFP2 and INSL3 genes in Afrotheria shows that testicular descent is the ancestral condition in placental mammals. PLoS Biology 16(6), e2005293, 2018 some Press: New York Times, Smithsonian Magazine, Inside Science, Scienmag
- Sharma V, Hecker N, Roscito JG, Foerster L, Langer BE, and Hiller M #. A genomics approach reveals insights into the importance of gene losses for mammalian adaptations. Nature Communications, 9(1), 1215, 2018
- Nowoshilow S, Schloissnig S #, Fei JF, Dahl A, Pang AWC, Pippel M, Winkler S, Hastie AR, Young G, Roscito JG, Falcon F, Knapp D, Powell S, Cruz A, Cao H, Habermann B, Hiller M #, Tanaka EM #, Myers E. The axolotl genome and the evolution of key tissue formation regulators. Nature, 554(7690), 50-55, 2018.
- Prudent X, Parra G, Schwede P, Roscito JG, Hiller M #. Controlling for phylogenetic relatedness and evolutionary rates improves the discovery of associations between species’ phenotypic and genomic differences. Mol Biol Evol, 33(8), 2135-5, 2016. See also MBE News.
- Hiller M, Schaar BT, Indjeian VB, Kingsley DM, Hagey LR, and Bejerano G. (2012): A “forward genomics” approach links genotype to phenotype using independent phenotypic losses among related species. Cell Reports, 2(4), 817-823. Read more on F1000
