The genome of Haberlea rhodopensis provides insights into the mechanisms for tolerance to multiple extreme environments

Saurabh Gupta; Veselin Petrov; Vanika Garg; Bernd Mueller-Roeber; Alisdair R Fernie; Zoran Nikoloski; Tsanko Gechev

doi:10.1007/s00018-024-05140-3

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The genome of Haberlea rhodopensis provides insights into the mechanisms for tolerance to multiple extreme environments

Journal article

Open access

Peer reviewed

The genome of Haberlea rhodopensis provides insights into the mechanisms for tolerance to multiple extreme environments

Saurabh Gupta, Veselin Petrov, Vanika Garg, Bernd Mueller-Roeber, Alisdair R Fernie, Zoran Nikoloski and Tsanko Gechev

Cellular and molecular life sciences : CMLS, Vol.81(1), 117

2024

DOI: https://doi.org/10.1007/s00018-024-05140-3

PMID: 38443747

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Abstract

Cold Temperature

Crops, Agricultural

Extreme Environments

Gene Expression Profiling

Genomics

Haberlea rhodopensis, a resurrection species, is the only plant known to be able to survive multiple extreme environments, including desiccation, freezing temperatures, and long-term darkness. However, the molecular mechanisms underlying tolerance to these stresses are poorly studied. Here, we present a high-quality genome of Haberlea and found that ~ 23.55% of the 44,306 genes are orphan. Comparative genomics analysis identified 89 significantly expanded gene families, of which 25 were specific to Haberlea. Moreover, we demonstrated that Haberlea preserves its resurrection potential even in prolonged complete darkness. Transcriptome profiling of plants subjected to desiccation, darkness, and low temperatures revealed both common and specific footprints of these stresses, and their combinations. For example, PROTEIN PHOSPHATASE 2C (PP2C) genes were substantially induced in all stress combinations, while PHYTOCHROME INTERACTING FACTOR 1 (PIF1) and GROWTH RESPONSE FACTOR 4 (GRF4) were induced only in darkness. Additionally, 733 genes with unknown functions and three genes encoding transcription factors specific to Haberlea were specifically induced/repressed upon combination of stresses, rendering them attractive targets for future functional studies. The study provides a comprehensive understanding of the genomic architecture and reports details of the mechanisms of multi-stress tolerance of this resurrection species that will aid in developing strategies that allow crops to survive extreme and multiple abiotic stresses.

Details

Title: The genome of Haberlea rhodopensis provides insights into the mechanisms for tolerance to multiple extreme environments
Authors/Creators: Saurabh Gupta - Curtin University
Veselin Petrov - Agricultural University Plovdiv
Vanika Garg - Murdoch University, Centre for Crop and Food Innovation
Bernd Mueller-Roeber - Max Planck Institute of Molecular Plant Physiology
Alisdair R Fernie - Max Planck Institute of Molecular Plant Physiology
Zoran Nikoloski - Max Planck Institute of Molecular Plant Physiology
Tsanko Gechev - Plovdiv University
Publication Details: Cellular and molecular life sciences : CMLS, Vol.81(1), 117
Publisher: Springer Nature
Grant note: 739582 / Horizon 2020
Identifiers: 991005648769507891
Murdoch Affiliation: Centre for Crop and Food Innovation; State Agricultural Biotechnology Centre
Language: English
Resource Type: Journal article

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Collaboration types: Domestic collaboration; International collaboration
Citation topics: 1 Clinical & Life Sciences; 1.54 Molecular & Cell Biology - Genetics; 1.54.1543 Flow Cytometry
Web Of Science research areas: Biochemistry & Molecular Biology; Cell Biology
ESI research areas: Molecular Biology & Genetics