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Sequencing complex ...
Sequencing complex plants on a budget: The development of Kalanchoë blossfeldiana as a C3, CAM comparative tool
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- Cowan-Turner, Daniel (författare)
- Newcastle Univ, England; Australian Natl Univ, Australia
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- Morris, Bethan A. (författare)
- Newcastle Univ, England
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- Sandéhn, Alexandra (författare)
- Linköpings universitet,Laboratoriet för organisk elektronik,Tekniska fakulteten
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- Bernacka Wojcik, Iwona (författare)
- Linköpings universitet,Laboratoriet för organisk elektronik,Tekniska fakulteten
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- Stavrinidou, Eleni (författare)
- Linköpings universitet,Laboratoriet för organisk elektronik,Tekniska fakulteten
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- Powell, Robyn F. (författare)
- Royal Bot Gardens, England
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- Leitch, Ilia J. (författare)
- Royal Bot Gardens, England
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- Taylor, Jessica (författare)
- Newcastle Univ, England
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- Walker, Max (författare)
- Newcastle Univ, England
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- Nwokeocha, Osita (författare)
- Newcastle Univ, England
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- Kapralov, Maxim V. (författare)
- Newcastle Univ, England
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- Borland, Anne M. (författare)
- Newcastle Univ, England
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(creator_code:org_t)
- 2024
- 2024
- Engelska.
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Ingår i: Plants, People, Planet. - : WILEY. - 2572-2611.
- Relaterad länk:
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Despite the increasing number of well-studied plant species with well-annotated genomes across plant life, there are few densely sampled genera with more than a couple of genome sequences representing the diversity of whole genera. Here, we develop an economic approach to full-genome sequencing that could be used to sequence many species within a genus. We made use of the Nanopore rapid sequencing kit to assist in plant genome assembly, dramatically reducing the cost. Here we applied this method to cost-effectively develop genomic resources for Kalancho & euml; blossfeldiana, a commercially important ornamental, in which Crassulacean Acid Metabolism (CAM), a water-conserving mode of photosynthesis can be induced. We present a physiological and biochemical characterisation of Kalanchoe blossfeldiana with its nuclear and chloroplastic genome and a comparative C3, CAM dusk transcriptome. We apply this approach to a complex tetraploid genome, making use of a relative species for chromosomal scaffolding to reduce assembly ploidy, we provide a resource for future gene expression studies. We highlight its limitations, e.g. the need for deeper sequencing to accurately resolve genome structure and haplotypes without using a relative species for scaffolding. T he study demonstrates the merits of K. blossfeldiana as a comparative system for studying C3 and CAM within a plant and has identified substantial changes in the dusk transcriptome between young C3 and mature CAM K. blossfeldiana leaves in response to age-induced CAM, and shows that in the absence of abiotic stress, CAM induction still involves the engagement of drought and abscisic acid (ABA) response pathways.
Ämnesord
- NATURVETENSKAP -- Biologi -- Biologisk systematik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biological Systematics (hsv//eng)
Nyckelord
- abscisic acid signalling; age inducible Crassulacean acid metabolism; Crassulacean acid metabolism (CAM); drought stress; genomics; Nanopore sequencings; transcriptomics
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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Cowan-Turner, Da ...
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Morris, Bethan A ...
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Sandéhn, Alexand ...
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Bernacka Wojcik, ...
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Stavrinidou, Ele ...
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Powell, Robyn F.
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visa fler...
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Leitch, Ilia J.
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Taylor, Jessica
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Walker, Max
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Nwokeocha, Osita
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Kapralov, Maxim ...
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Borland, Anne M.
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visa färre...
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- NATURVETENSKAP
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Plants, People, ...
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Linköpings universitet