Li H, Handsaker B, Wysoker A, Fennell T, Ruan J,
Homer N, Marth G, Abecasis G, Durbin R, 1000
Genome Project Data Processing Subgroup (2009)
The sequence alignment/map (SAM) format and
SAMtools. Bioinformatics 25(16):2078–2079. https://
doi.org/10.1093/bioinformatics/btp352
McKenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, Altschuler D,
Gabriel S, Daly M, DePristo MA (2010) The genome
analysis toolkit: a MapReduce framework for analyzing
next-generation DNA sequencing data. Genome Res
20:1297–1303. https://doi.org/10.1101/gr.107524.110
Philippi RA (1864) Linnaea—Ein Journal für die Botanik
in ihrem ganzen Umfange, vol 33. DFL von Schlechtendal, Halle, p 239
Poland JA, Brown PJ, Sorrells ME, Jannink JL (2012)
Development of high-density genetic maps for barley
and wheat using a novel two-enzyme genotypingby-sequencing approach. PLoS ONE 7(2):e32253.
https://doi.org/10.1371/journal.pone.0032253
R Core Team (2017) R: a language and environment for
statistical computing. R Foundation for Statistical Computing, Vienna, Austria. https://www.R-project.org/
Schubert M, Lindgreen S, Orlando L (2016) AdapterRemoval v2: rapid adapter trimming, identification,
and read merging. BMC Res Notes 9:88. https://doi.
org/10.1186/s13104-016-1900-2
Sree KS, Bog M, Appenroth KJ (2016) Taxonomy of
duckweeds (Lemnaceae), potential new crop plants.
Emirates J Food Agric 28(5):291–302. https://doi.org/
10.9755/ejfa.2016-01-038
Tippery NP, Les DH, Crawford DJ (2015) Evaluation of
phylogenetic relationships in Lemnaceae using nuclear
ribosomal data. Plant Biol 17(Suppl1):50–58. https://
doi.org/10.1111/plb.12203
Valledor L, Escandón M, Meijón M, Nukarinen E,
Canal MJ, Weckwerth W (2014) A universal protocol
for the combined isolation of metabolites, DNA, long
RNAs, small RNAs, and proteins from plants and
microorganisms. Plant J 79:173–180. https://doi.org/
10.1111/tpj.12546
Van Hoeck A, Horemans N, Monsieurs P, Cao HX,
Vandenhove H, Blust R (2015) The first draft genome
of the aquatic model plant Lemna minor opens the
route for future stress physiology research and
biotechnological applications. Biotechnol Biofuels
8:188. https://doi.org/10.1186/s13068-015-0381-1
Wang W, Wu Y, Yan Y, Ermakova M, Kerstetter R,
Messing J (2010) DNA barcoding of the Lemnaceae, a
family of aquatic monocots. BMC Plant Biol 10:205–
214. https://doi.org/10.1186/1471-2229-10-205
Wendler N, Mascher M, Nöh C, Himmelbach A,
Scholz U, Ruge-Wehling B, Stein N (2014) Unlocking
the secondary gene-pool of barley with nextgeneration sequencing. Plant Biotechnol J 12(8):
1122–1131. https://doi.org/10.1111/pbi.12219
11 Genotyping-by-Sequencing for Species Delimitation …
123
Homer N, Marth G, Abecasis G, Durbin R, 1000
Genome Project Data Processing Subgroup (2009)
The sequence alignment/map (SAM) format and
SAMtools. Bioinformatics 25(16):2078–2079. https://
doi.org/10.1093/bioinformatics/btp352
McKenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, Altschuler D,
Gabriel S, Daly M, DePristo MA (2010) The genome
analysis toolkit: a MapReduce framework for analyzing
next-generation DNA sequencing data. Genome Res
20:1297–1303. https://doi.org/10.1101/gr.107524.110
Philippi RA (1864) Linnaea—Ein Journal für die Botanik
in ihrem ganzen Umfange, vol 33. DFL von Schlechtendal, Halle, p 239
Poland JA, Brown PJ, Sorrells ME, Jannink JL (2012)
Development of high-density genetic maps for barley
and wheat using a novel two-enzyme genotypingby-sequencing approach. PLoS ONE 7(2):e32253.
https://doi.org/10.1371/journal.pone.0032253
R Core Team (2017) R: a language and environment for
statistical computing. R Foundation for Statistical Computing, Vienna, Austria. https://www.R-project.org/
Schubert M, Lindgreen S, Orlando L (2016) AdapterRemoval v2: rapid adapter trimming, identification,
and read merging. BMC Res Notes 9:88. https://doi.
org/10.1186/s13104-016-1900-2
Sree KS, Bog M, Appenroth KJ (2016) Taxonomy of
duckweeds (Lemnaceae), potential new crop plants.
Emirates J Food Agric 28(5):291–302. https://doi.org/
10.9755/ejfa.2016-01-038
Tippery NP, Les DH, Crawford DJ (2015) Evaluation of
phylogenetic relationships in Lemnaceae using nuclear
ribosomal data. Plant Biol 17(Suppl1):50–58. https://
doi.org/10.1111/plb.12203
Valledor L, Escandón M, Meijón M, Nukarinen E,
Canal MJ, Weckwerth W (2014) A universal protocol
for the combined isolation of metabolites, DNA, long
RNAs, small RNAs, and proteins from plants and
microorganisms. Plant J 79:173–180. https://doi.org/
10.1111/tpj.12546
Van Hoeck A, Horemans N, Monsieurs P, Cao HX,
Vandenhove H, Blust R (2015) The first draft genome
of the aquatic model plant Lemna minor opens the
route for future stress physiology research and
biotechnological applications. Biotechnol Biofuels
8:188. https://doi.org/10.1186/s13068-015-0381-1
Wang W, Wu Y, Yan Y, Ermakova M, Kerstetter R,
Messing J (2010) DNA barcoding of the Lemnaceae, a
family of aquatic monocots. BMC Plant Biol 10:205–
214. https://doi.org/10.1186/1471-2229-10-205
Wendler N, Mascher M, Nöh C, Himmelbach A,
Scholz U, Ruge-Wehling B, Stein N (2014) Unlocking
the secondary gene-pool of barley with nextgeneration sequencing. Plant Biotechnol J 12(8):
1122–1131. https://doi.org/10.1111/pbi.12219
11 Genotyping-by-Sequencing for Species Delimitation …
123