Isolation of high-quality RNA from recalcitrant leaves of variegated and resurrection plants
Abstract
Resurrection plant Ramonda serbica is a suitable model to investigate mechanisms of desiccation tolerance, while variegated Pelargonium zonale has been proven to serve as an excellent model for the metabolite allocation between sink tissue and source tissue within the same organ. However, the genomes of these plants are still not sequenced, limiting their application in molecular studies. To investigate the transcript abundance by next-generation sequencing, high-quality RNA input is required. Leaves of both P. zonale and R. serbica are rich in polyphenols that interfere with high-quality RNA extraction by common protocols. Moreover, low water content and high amount of sugars and other osmoprotectants in desiccated R. serbica leaves present the additional challenge in total RNA extraction. Here, we evaluated and compared several already established TRIzol- and CTAB-based protocols aiming to develop the efficient, simple and low-cost methods for the extraction of the satisfactory yield... RNA of great purity and integrity, required for the construction of high-quality cDNA libraries. Our results show that the CTAB-based protocol (i.e. CTAB 1b) enabled the extraction of high-quality RNA from photosynthetically active and non-photosynthetically active leaf sectors of P. zonale, with high RIN values. On the other hand, TRIzol-based protocol provided a high RNA yield with low contamination and high RNA integrity even in desiccated leaves of R. serbica. We envisage that the proposed protocol would be suitable for the RNA extractions from other desiccated organs (e.g. seeds, grains, pollen grains).
Keywords:
Variegated Pelargonium zonale / Recalcitrant plant material / Ramonda serbica / polyphenols / Desiccated leavesSource:
3 Biotech, 2020, 10, 6Publisher:
- Springer Heidelberg, Heidelberg
Funding / projects:
- Centre for Green Technologies, University of Belgrade
- Ministry of Education, Science and Technological Development, Republic of Serbia, Grant no. 200053 (University of Belgrade, Institute for Multidisciplinary Research) (RS-200053)
- 451-03-01963/2017-09/09
DOI: 10.1007/s13205-020-02279-1
ISSN: 2190-572X
PubMed: 32550105
WoS: 000538108300004
Scopus: 2-s2.0-85086000547
Collections
Institution/Community
Institut za multidisciplinarna istraživanjaTY - JOUR AU - Vidović, Marija AU - Cuković, Katarina PY - 2020 UR - http://rimsi.imsi.bg.ac.rs/handle/123456789/1339 AB - Resurrection plant Ramonda serbica is a suitable model to investigate mechanisms of desiccation tolerance, while variegated Pelargonium zonale has been proven to serve as an excellent model for the metabolite allocation between sink tissue and source tissue within the same organ. However, the genomes of these plants are still not sequenced, limiting their application in molecular studies. To investigate the transcript abundance by next-generation sequencing, high-quality RNA input is required. Leaves of both P. zonale and R. serbica are rich in polyphenols that interfere with high-quality RNA extraction by common protocols. Moreover, low water content and high amount of sugars and other osmoprotectants in desiccated R. serbica leaves present the additional challenge in total RNA extraction. Here, we evaluated and compared several already established TRIzol- and CTAB-based protocols aiming to develop the efficient, simple and low-cost methods for the extraction of the satisfactory yield RNA of great purity and integrity, required for the construction of high-quality cDNA libraries. Our results show that the CTAB-based protocol (i.e. CTAB 1b) enabled the extraction of high-quality RNA from photosynthetically active and non-photosynthetically active leaf sectors of P. zonale, with high RIN values. On the other hand, TRIzol-based protocol provided a high RNA yield with low contamination and high RNA integrity even in desiccated leaves of R. serbica. We envisage that the proposed protocol would be suitable for the RNA extractions from other desiccated organs (e.g. seeds, grains, pollen grains). PB - Springer Heidelberg, Heidelberg T2 - 3 Biotech T1 - Isolation of high-quality RNA from recalcitrant leaves of variegated and resurrection plants IS - 6 VL - 10 DO - 10.1007/s13205-020-02279-1 ER -
@article{ author = "Vidović, Marija and Cuković, Katarina", year = "2020", abstract = "Resurrection plant Ramonda serbica is a suitable model to investigate mechanisms of desiccation tolerance, while variegated Pelargonium zonale has been proven to serve as an excellent model for the metabolite allocation between sink tissue and source tissue within the same organ. However, the genomes of these plants are still not sequenced, limiting their application in molecular studies. To investigate the transcript abundance by next-generation sequencing, high-quality RNA input is required. Leaves of both P. zonale and R. serbica are rich in polyphenols that interfere with high-quality RNA extraction by common protocols. Moreover, low water content and high amount of sugars and other osmoprotectants in desiccated R. serbica leaves present the additional challenge in total RNA extraction. Here, we evaluated and compared several already established TRIzol- and CTAB-based protocols aiming to develop the efficient, simple and low-cost methods for the extraction of the satisfactory yield RNA of great purity and integrity, required for the construction of high-quality cDNA libraries. Our results show that the CTAB-based protocol (i.e. CTAB 1b) enabled the extraction of high-quality RNA from photosynthetically active and non-photosynthetically active leaf sectors of P. zonale, with high RIN values. On the other hand, TRIzol-based protocol provided a high RNA yield with low contamination and high RNA integrity even in desiccated leaves of R. serbica. We envisage that the proposed protocol would be suitable for the RNA extractions from other desiccated organs (e.g. seeds, grains, pollen grains).", publisher = "Springer Heidelberg, Heidelberg", journal = "3 Biotech", title = "Isolation of high-quality RNA from recalcitrant leaves of variegated and resurrection plants", number = "6", volume = "10", doi = "10.1007/s13205-020-02279-1" }
Vidović, M.,& Cuković, K.. (2020). Isolation of high-quality RNA from recalcitrant leaves of variegated and resurrection plants. in 3 Biotech Springer Heidelberg, Heidelberg., 10(6). https://doi.org/10.1007/s13205-020-02279-1
Vidović M, Cuković K. Isolation of high-quality RNA from recalcitrant leaves of variegated and resurrection plants. in 3 Biotech. 2020;10(6). doi:10.1007/s13205-020-02279-1 .
Vidović, Marija, Cuković, Katarina, "Isolation of high-quality RNA from recalcitrant leaves of variegated and resurrection plants" in 3 Biotech, 10, no. 6 (2020), https://doi.org/10.1007/s13205-020-02279-1 . .