The Sphagnum Genome Project. A New Model for Ecological and Evolutionary Genomics.

A. J. Shaw; J. Schmutz; N. Devos; S. Shu; A. A. Carrell; D. J. Weston

doi:10.1016/bs.abr.2016.01.003

The Sphagnum Genome Project. A New Model for Ecological and Evolutionary Genomics.

A. J. Shaw, J. Schmutz, N. Devos, S. Shu, A. A. Carrell, D. J. Weston

Plant Systems Biology

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

24 Scopus citations

Abstract

The inception of the Sphagnum (peat moss) genome project marks the first plant-based sequencing project aimed specifically at carbon cycling genomics in a plant system relevant to ecological and evolutionary genomics. Sphagnum provides considerable intra- and interspecific variation at the nucleotide level, and in physiology, morphology, net production, decomposition and carbon accumulation (peat formation). Because of the large number of peat moss species, their diversity in mating systems, and clear patterns of niche differentiation, Sphagnum provides an exceptionally valuable complement to Physcomitrella patens and Ceratodon purpureus as moss models for genomic research. Here we review the organismal biology of Sphagnum including phylogeny,. life cycle, mating systems, ecology and niche differentiation. We include the current state of Sphagnum genomic resources, in vitro methods and germplasm. A use-case is provided to address questions concerning epigenetics and reproduction.

Original language	English
Title of host publication	Genomes and Evolution of Charophytes, Bryophytes, Lycophytes and Ferns, 2016
Editors	Stefan A. Rensing
Publisher	Academic Press Inc.
Pages	167-187
Number of pages	21
ISBN (Print)	9780128011027
DOIs	https://doi.org/10.1016/bs.abr.2016.01.003
State	Published - 2016

Publication series

Name	Advances in Botanical Research
Volume	78
ISSN (Print)	0065-2296

Funding

The time and resources to produce this chapter were supported by U.S. Department of Energy, Office of Science, Biological and Environmental Research, including the SPRUCE project ( http://mnspruce.ornl.gov/ ) and the Laboratory Directed Research and Development Program of Oak Ridge National Laboratory. Oak Ridge National Laboratory is managed by UT-Battelle, LLC, for the US Department of Energy under contract DE-AC05- 00OR22725. The work conducted by the U.S. Department of Energy Joint Genome Institute was supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.

Funders	Funder number
U.S. Department of Energy	DE-AC02-05CH11231, DE-AC05- 00OR22725
Office of Science
Biological and Environmental Research
Oak Ridge National Laboratory

Keywords

Carbon cycling
Ecological genomics
Peat moss
Sphagnum

Access to Document

10.1016/bs.abr.2016.01.003

Cite this

Shaw, A. J., Schmutz, J., Devos, N., Shu, S., Carrell, A. A., & Weston, D. J. (2016). The Sphagnum Genome Project. A New Model for Ecological and Evolutionary Genomics. In S. A. Rensing (Ed.), Genomes and Evolution of Charophytes, Bryophytes, Lycophytes and Ferns, 2016 (pp. 167-187). (Advances in Botanical Research; Vol. 78). Academic Press Inc.. https://doi.org/10.1016/bs.abr.2016.01.003

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abstract = "The inception of the Sphagnum (peat moss) genome project marks the first plant-based sequencing project aimed specifically at carbon cycling genomics in a plant system relevant to ecological and evolutionary genomics. Sphagnum provides considerable intra- and interspecific variation at the nucleotide level, and in physiology, morphology, net production, decomposition and carbon accumulation (peat formation). Because of the large number of peat moss species, their diversity in mating systems, and clear patterns of niche differentiation, Sphagnum provides an exceptionally valuable complement to Physcomitrella patens and Ceratodon purpureus as moss models for genomic research. Here we review the organismal biology of Sphagnum including phylogeny,. life cycle, mating systems, ecology and niche differentiation. We include the current state of Sphagnum genomic resources, in vitro methods and germplasm. A use-case is provided to address questions concerning epigenetics and reproduction.",

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Shaw, AJ, Schmutz, J, Devos, N, Shu, S, Carrell, AA & Weston, DJ 2016, The Sphagnum Genome Project. A New Model for Ecological and Evolutionary Genomics. in SA Rensing (ed.), Genomes and Evolution of Charophytes, Bryophytes, Lycophytes and Ferns, 2016. Advances in Botanical Research, vol. 78, Academic Press Inc., pp. 167-187. https://doi.org/10.1016/bs.abr.2016.01.003

The Sphagnum Genome Project. A New Model for Ecological and Evolutionary Genomics. / Shaw, A. J.; Schmutz, J.; Devos, N. et al.
Genomes and Evolution of Charophytes, Bryophytes, Lycophytes and Ferns, 2016. ed. / Stefan A. Rensing. Academic Press Inc., 2016. p. 167-187 (Advances in Botanical Research; Vol. 78).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

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The Sphagnum Genome Project. A New Model for Ecological and Evolutionary Genomics.

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