Caroline Marcon 400x400
© Barbara Frommann/ University of Bonn

PD Dr. Caroline Marcon

INRES - Crop Functional Genomics

Friedrich-Ebert-Allee 144
D-53113 Bonn, +49 228 73-60334
Research website: BonnMu

Research focus

My research interest is the identification of novel maize mutants by transposon mutagenesis. Forward and reverse genetics i.e., the generation of a mutant database are combined to discover mutant phenotypes, covering a multitude of plant traits.

Academic CV

Positions and academic experience

since 2023

Habilitation and venia legendi in Genetics, Agricultural Faculty, University of Bonn

since 2012

Research associate at the chair of Crop Functional Genomics, Institute of Crop Science and Resource Conservation, Faculty of Agriculture, Rheinische Friedrich-Wilhelm-University of Bonn


Dr. rer. nat. at the Center for Plant Molecular Biology (ZMBP), Department of General Genetics, University of Tübingen


Diploma, Biology, University of Tübingen

Other function

  • Deputy of Biological Safety (BBS) at the University of Bonn
  • Coordinator of maize seed storage and external distribution
  • Lecturer of following student courses at the Agricultural Faculty, University of Bonn:
    • Lecture: „Klassische und molekulare Genetik“ (BSc)
    • Seminar: Concepts in genetics and genomics (MSc; BIGS)
    • Practical courses:
      • „Grundlagen molekulargenetischer Praxis“ (BSc; AGR-070)
      • Molecular crop science I (MSc; MA-M-01-PM)
      • Molecular crop science II (MSc; MA-M-02-PM)


Win YN, Stöcker T, Du X, Brox A, Pitz M, Klaus A, Schoof H, Hochholdinger F, Marcon C (2024) Expanding the BonnMu sequence-indexed repository of transposon induced maize (Zea mays L.) mutations in dent and flint germplasm. bioRxiv 2024.02.24.581857. Free Article

He X, Wang D, Jiang Y, Li M, Delgado-Baquerizo M, McLaughlin C, Marcon C, Guo L, Baer M, Moya YAT, von Wirén N, Deichmann M, Schaaf G, Piepho H-P, Yang Z, Yang J, Yim B, Smalla K, Goormachtig S, de Vries FT, Hüging H, Baer M, Sawers RJH*, Reif JC*, Hochholdinger F*, Chen X*, Yu P* (2024) Heritable microbiome variation is correlated with source environment in locally adapted maize varieties. Nature Plants, in press.

Klaus A, Marcon C, Hochholdinger F (2024) Spatiotemporal transcriptomic plasticity in barley roots: Unravelling water deficit responses in distinct root zones. BMC Genomics 25: 79. PubMed   Free BMC Article  Free PMC Article

Zhao M, Peng Z, Qin Y, Tamang TM, Zhang L, Tian B, Chen Y, Liu Y, Zhang J, Lin G, Zheng H, He C, Lv K, Klaus A, Marcon C, Hochholdinger F, Trick HN, Liu Y, Cho M-J, Park S, Wie H, Zheng J, White FF, Liu S (2023) Bacterium-enabled transient gene activation by artificial transcription factors for resolving gene regulation in maize. The Plant Cell 35: 2736-2749. PubMed  Free Article

Stöcker T, Altrogge L, Marcon C, Win YN, Hochholdinger F, Schoof H (2022) MuWU: Mu-seq library analysis and annotation. Bioinformatics 38: 837-838. PubMed

Marcon C, Altrogge L, Win Y, Stöcker T, Gardiner J, Portwood J, Opitz N, Kortz A, Baldauf J, Hunter C, McCarty D, Koch K, Schoof H, Hochholdinger F (2020) BonnMu: a sequence-indexed resource of transposon induced maize mutations for functional genomics studies. Plant Physiol 184: 620-631. PubMed  Free Article

Haberer G, Kamal N, Bauer E, Gundlach H, Fischer I, Seidel MA, Spannagl M, Marcon C, Ruban A, Urbany C, Nemri A, Hochholdinger, F, Ouzunova, M, Houben A, Schön C-C, Mayer KFX (2020) European maize genomes highlight intra-species variation in repeat and gene content. Nature Genet 52: 950–957. PubMed  Free PMC Article

Vetterlein D, Lippold E, Schreiter S, Phalempin M, Fahrenkampf T, Hochholdinger F, Marcon C, Tarkka M, Oburger E, Ahmed M, Javaux M, Schlüter S (2020) Experimental platforms for the investigation of spatiotemporal patterns in the rhizosphere - laboratory and field scale. J Plant Nutr Soil Sc 184: 35-50. Free Article

Baldauf J, Marcon C, Lithio A, Vedder L, Altrogge L, Piepho H-P, Schoof H, Nettleton D, Hochholdinger F (2018) Single-parent expression is a general mechanism that drives extensive complementation of non-syntenic genes in maize (Zea mays L.) hybrids. Current Biol 28: 431-437.  PubMed  Free Article

Hochholdinger F, Marcon C, Baldauf J, Frey F, Yu P (2018) Proteomics of Maize Root Development. Front Plant Sci 9: 143. PubMed  Free PMC Article

Hochholdinger F, Yu P, Marcon C (2018) Genetic control of root system development in maize. Trends in Plant Sci 23:79-88. PubMed

Yu P, Marcon C, Baldauf JA, Frey F, Baer M, Hochholdinger F (2018) Transcriptomic dissection of maize root system development. Compendium of plant genomes: The Zea mays Genome. 1st ed. (eds. J. Bennetzen, S. Flint-Garcia, C. Hirsch and R. Tuberosa) pp. 247-257. Springer Nature.

Marcon C, Paschold A, Malik WA, Lithio A, Baldauf JA, Altrogge L, Opitz N, Lanz C, Schoof H, Nettleton D, Piepho H-P, Hochholdinger F (2017) Stability of single parent gene expression complementation in maize hybrids upon water deficit stress. Plant Physiol 173: 1247-1257. PubMed  Free Article

Unterseer S, Seidel MA, Bauer E, Haberer G, Hochholdinger F, Opitz N, Marcon C, Baruch K, Spannagl M, Mayer KFX, Schön C-C (2017) European Flint reference sequences complement the maize pan-genome. bioRxiv 103747.

Baldauf JA, Marcon C, Paschold A, Hochholdinger F (2016) Nonsyntenic genes drive tissue-specific dynamics of differential, nonadditive and allelic expression patterns in maize hybrids. Plant Physiol 171: 159-167. PubMed  Free PMC Article

Yu P, Baldauf JA, Lithio A, Marcon C, Nettleton D, Li C, Hochholdinger F (2016) Root type specific reprogramming of maize pericycle transcriptomes by local high nitrate results in disparate lateral root branching patterns. Plant Physiol 170: 1783-98. PubMed  Free PMC Article

Marcon C, Baldauf JA, Hochholdinger F (2016) Komplementation von Genexpressionsmustern in Maishybriden. Biospektrum 22: 603-605.

Li L, Hey S, Liu S, Liu Q, McNinch C, Hu HC, Wen TJ, Marcon C, Paschold A, Bruce W, Schnable PS, Hochholdinger F (2016) Characterization of maize roothairless6 which encodes a D-type cellulose synthase and controls the switch from bulge formation to tip growth. Sci Rep 6: 34395. Free Article

Zhang Y, Marcon C, Tai H, von Behrens I, Ludwig Y, Hey S, Berendzen KW, Hochholdinger F (2016) Conserved and unique features of the homeologous maize Aux/IAA proteins ROOTLESS WITH UNDETECTABLE MERISTEM 1 and RUM1-like 1. J Exp Bot 67: 1137-47. PubMed  Free PMC Article

Tai H, Lu X, Opitz N, Marcon C, Paschold A, Lithio A, Nettleton D, Hochholdinger F (2016) Transcriptomic and anatomic complexity of primary, seminal and crown roots highlight root type-specific functional diversity in maize (Zea mays L.). J Exp Bot 67: 1123-35. PubMed  Free PCM Article

Opitz N, Marcon C, Paschold A, Malik WA, Lithio A, Brandt R, Piepho H-P, Nettleton D, Hochholdinger F (2016) Extensive tissue-specific transcriptomic plasticity in maize primary roots upon water deficit. J Exp Bot 67: 1095-1107. PubMed  Free PCM Article

Marcon C, Malik WA, Walley JW, Shen Z, Paschold A, Smith LG, Piepho H-P, Briggs SP, Hochholdinger F (2015) A high resolution tissue-specific proteome and phosphoproteome atlas of maize primary roots reveals functional gradients along the root axis. Plant Physiol 168: 233-246. PubMed Free PMC Article

Paschold A, Larson NB, Marcon C, Schnable JC, Yeh CT, Lanz C, Nettleton D, Piepho H-P, Schnable PS, Hochholdinger F (2014) Non-syntenic genes drive highly dynamic complementation of gene expression in maize hybrids. Plant Cell 26: 3939-3948. PubMed Free PMC Article

Opitz N, Paschold A, Marcon C, Malik WA, Lanz C, Piepho H-P, Hochholdinger F (2014) Transcriptomic complexity in young maize primary roots in response to low water potentials. BMC Genomics 15: 741. PubMed  Free PMC Article

Nestler J, Liu S, Wen T-J, Paschold A, Marcon C, Tang HM, Li D, Li L, Meeley R, Sakai H, Bruce W, Schnable PS, Hochholdinger F (2014) Roothairless5, which functions in maize (Zea mays L.) root hair initiation and elongation encodes a monocot-specific NADPH oxidase. Plant J 79: 729-740.  PubMed

Zhang Y, Paschold A, Marcon C, Liu S, Tai H, Nestler J, Yeh CT, Opitz N, Lanz C, Schnable PS, Hochholdinger F (2014) The Aux/IAA gene rum1 involved in seminal and lateral root formation controls vascular patterning in maize (Zea mays L.)  primary roots. J Exp Bot 65: 4919-4930. PubMed  Free PMC Article

Marcon C, Lamkemeyer T, Malik WA, Ungrue D, Piepho H-P, Hochholdinger F (2013) Heterosis-associated proteome analyses of maize (Zea mays L.) seminal rotts by quantitative label-free LC-MS. J Proteomics 93: 295-302. PubMed

Marcon C, Paschold A, Hochholdinger F (2013) Genetic control of root organogenesis in cereals. Meth Mol Biol 959: 69-81. PubMed

Hochholdinger F, Paschold A, Marcon C (2013) Heterosis: Maishybride exprimieren mehr Gene als ihre Eltern. Biologie in unserer Zeit 43:11-12.

Paschold A, Jia Y, Marcon C, Lund S, Larson NB, Yeh CT, Ossowski S, Lanz C, Nettleton D, Schnable PS, Hochholdinger F (2012) Complementation contributes to transcriptome complexity in maize (Zea mays L.) hybrids relative to their inbred parents. Genome Res 22: 2445-2454.  PubMed

Marcon C, Schützenmeister A, Schütz W, Madlung J, Piepho H-P, Hochholdinger F (2010) Non-additive protein accumulation patterns in maize (Zea mays L.) hybrids during embryo development. J Proteome Res 9: 6511-6522. PubMed

Paschold A, Marcon C, Hoecker N, Hochholdinger F (2010) Molecular dissection of heterosis manifestation during early maize root development. Theor Appl Genet 120: 383-388. PubMed

Speth C, Jaspert N, Marcon C, Oecking C (2009) Regulation of the plant plasma membrane H+-ATPase by its C-terminal domain: what do we know for sure? Eur J Cell Biol 89: 145-151. PubMed

Ottmann C, Marco S, Jaspert N, Marcon C, Schauer N, Weyand M, Vandermeeren C, Duby G, Bountry M, Wittinghofer A, Rigaud JL, Oecking C (2007) Structure of a 14-3-3 coordinated hexamer of the plant plasma membrane H+-ATPase by combining X-ray crystallography and electron cryomicroscopy. Mol Cell 25: 427-440. PubMed

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