Deep Sequencing of RNA from Ancient Maize Kernels

Sarah L. Fordyce; Maria C. Ávila-Arcos; Morten Rasmussen; Enrico Cappellini; J. Alberto Romero-Navarro; Nathan Wales; David E. Alquezar-Planas; Steven Penfield; Terence A. Brown; Jean Philippe Vielle-Calzada; Rafael Montiel; Tina Jørgensen; Nancy Odegaard; Michael Jacobs; Bernardo Arriaza; Thomas F G Higham; Christopher Bronk Ramsey; Eske Willerslev; M. Thomas P Gilbert

doi:10.1371/journal.pone.0050961

Deep Sequencing of RNA from Ancient Maize Kernels

Sarah L. Fordyce, Maria C. Ávila-Arcos, Morten Rasmussen, Enrico Cappellini, J. Alberto Romero-Navarro, Nathan Wales, David E. Alquezar-Planas, Steven Penfield, Terence A. Brown, Jean Philippe Vielle-Calzada, Rafael Montiel, Tina Jørgensen, Nancy Odegaard, Michael Jacobs, Bernardo Arriaza, Thomas F G Higham, Christopher Bronk Ramsey, Eske Willerslev, M. Thomas P Gilbert

Research output: Contribution to journal › Article › peer-review

Abstract

The characterization of biomolecules from ancient samples can shed otherwise unobtainable insights into the past. Despite the fundamental role of transcriptomal change in evolution, the potential of ancient RNA remains unexploited - perhaps due to dogma associated with the fragility of RNA. We hypothesize that seeds offer a plausible refuge for long-term RNA survival, due to the fundamental role of RNA during seed germination. Using RNA-Seq on cDNA synthesized from nucleic acid extracts, we validate this hypothesis through demonstration of partial transcriptomal recovery from two sources of ancient maize kernels. The results suggest that ancient seed transcriptomics may offer a powerful new tool with which to study plant domestication. © 2013 Fordyce et al.

Original language	English
Article number	e50961
Number of pages	9
Journal	PLoS ONE
Volume	8
Issue number	1
DOIs	https://doi.org/10.1371/journal.pone.0050961
Publication status	Published - 17 Jan 2013

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Fordyce, S. L., Ávila-Arcos, M. C., Rasmussen, M., Cappellini, E., Romero-Navarro, J. A., Wales, N., Alquezar-Planas, D. E., Penfield, S., Brown, T. A., Vielle-Calzada, J. P., Montiel, R., Jørgensen, T., Odegaard, N., Jacobs, M., Arriaza, B., Higham, T. F. G., Ramsey, C. B., Willerslev, E., & Gilbert, M. T. P. (2013). Deep Sequencing of RNA from Ancient Maize Kernels. PLoS ONE, 8(1), Article e50961. https://doi.org/10.1371/journal.pone.0050961

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title = "Deep Sequencing of RNA from Ancient Maize Kernels",

abstract = "The characterization of biomolecules from ancient samples can shed otherwise unobtainable insights into the past. Despite the fundamental role of transcriptomal change in evolution, the potential of ancient RNA remains unexploited - perhaps due to dogma associated with the fragility of RNA. We hypothesize that seeds offer a plausible refuge for long-term RNA survival, due to the fundamental role of RNA during seed germination. Using RNA-Seq on cDNA synthesized from nucleic acid extracts, we validate this hypothesis through demonstration of partial transcriptomal recovery from two sources of ancient maize kernels. The results suggest that ancient seed transcriptomics may offer a powerful new tool with which to study plant domestication. {\textcopyright} 2013 Fordyce et al.",

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Fordyce, SL, Ávila-Arcos, MC, Rasmussen, M, Cappellini, E, Romero-Navarro, JA, Wales, N, Alquezar-Planas, DE, Penfield, S, Brown, TA, Vielle-Calzada, JP, Montiel, R, Jørgensen, T, Odegaard, N, Jacobs, M, Arriaza, B, Higham, TFG, Ramsey, CB, Willerslev, E & Gilbert, MTP 2013, 'Deep Sequencing of RNA from Ancient Maize Kernels', PLoS ONE, vol. 8, no. 1, e50961. https://doi.org/10.1371/journal.pone.0050961

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T1 - Deep Sequencing of RNA from Ancient Maize Kernels

AU - Fordyce, Sarah L.

AU - Ávila-Arcos, Maria C.

AU - Rasmussen, Morten

AU - Cappellini, Enrico

AU - Romero-Navarro, J. Alberto

AU - Wales, Nathan

AU - Alquezar-Planas, David E.

AU - Penfield, Steven

AU - Brown, Terence A.

AU - Vielle-Calzada, Jean Philippe

AU - Montiel, Rafael

AU - Jørgensen, Tina

AU - Odegaard, Nancy

AU - Jacobs, Michael

AU - Arriaza, Bernardo

AU - Higham, Thomas F G

AU - Ramsey, Christopher Bronk

AU - Willerslev, Eske

AU - Gilbert, M. Thomas P

PY - 2013/1/17

Y1 - 2013/1/17

N2 - The characterization of biomolecules from ancient samples can shed otherwise unobtainable insights into the past. Despite the fundamental role of transcriptomal change in evolution, the potential of ancient RNA remains unexploited - perhaps due to dogma associated with the fragility of RNA. We hypothesize that seeds offer a plausible refuge for long-term RNA survival, due to the fundamental role of RNA during seed germination. Using RNA-Seq on cDNA synthesized from nucleic acid extracts, we validate this hypothesis through demonstration of partial transcriptomal recovery from two sources of ancient maize kernels. The results suggest that ancient seed transcriptomics may offer a powerful new tool with which to study plant domestication. © 2013 Fordyce et al.

AB - The characterization of biomolecules from ancient samples can shed otherwise unobtainable insights into the past. Despite the fundamental role of transcriptomal change in evolution, the potential of ancient RNA remains unexploited - perhaps due to dogma associated with the fragility of RNA. We hypothesize that seeds offer a plausible refuge for long-term RNA survival, due to the fundamental role of RNA during seed germination. Using RNA-Seq on cDNA synthesized from nucleic acid extracts, we validate this hypothesis through demonstration of partial transcriptomal recovery from two sources of ancient maize kernels. The results suggest that ancient seed transcriptomics may offer a powerful new tool with which to study plant domestication. © 2013 Fordyce et al.

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DO - 10.1371/journal.pone.0050961

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VL - 8

JO - PLoS ONE

JF - PLoS ONE

IS - 1

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ER -

Deep Sequencing of RNA from Ancient Maize Kernels

Abstract

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