Development of SRAP markers to evaluate the genetic variability in Brachypodium distachyon complex

References

• Bakker EG, Montgomery B, Nguyen T, Eide K, Chang J, Mockler TC, Liston A, Seablooms E, Borers ET. 2009. Strong population structure characterizes weediness gene evolution in the invasive grass species Brachypodium distachyon. Mol Ecol. 18(12):2588–2601. doi:10.1111/j.1365-294X.2009.04225.x.
   PubMed Web of Science ®Google Scholar
• Bassam BJ, Caetano-Anolles G, Gresshoff PM. 1991. Fast and sensitive silver staining of DNA in polyacrylamide gels. Anal Biochem. 196(1):80–83. doi:10.1016/0003-2697(91)90120-I.
   PubMed Web of Science ®Google Scholar
• Boyes DC, Nam J, Dangl JL. 1998. The Arabidopsis thaliana RPM1 disease resistance gene product is a peripheral plasma membrane protein that is degraded coincident with the hypersensitive response. PNAS. 95(26):15849–15854. doi:10.1073/pnas.95.26.15849.
   PubMed Web of Science ®Google Scholar
• Catalan P. 1995. Molecular phylogeny of the grass genus Brachypodium P. Beauv. based on RFLP and RAPD analysis. Bot J Linn Soc. 117:263–280. doi:10.1111/j.1095-8339.1995.tb02590.x
   Web of Science ®Google Scholar
• Catalan P, Müller J, Hasterok R, Jenkins G, Mur LAJ, Langdon T, Betekhtin A, Siwinska D, Pimentel M, López-Alvarez D. 2012. Evolution and taxonomic split of the model grass Brachypodium distachyon. Ann Bot. 109(2):385–405. doi:10.1093/aob/mcr294.
   PubMed Web of Science ®Google Scholar
• Draper J, Mur LAJ, Jenkins G, Glosh-Diswas GD, Bablak P, Hasterok R, Routledge PM. 2001. Brachypodium distachyon . A new model system for functional genomics in grasses. Plant Physiol. 127(4):1539–1555. doi:10.1104/pp.010196.
   PubMed Web of Science ®Google Scholar
• Excoffier L, Laval G, Schneider S. 2005. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol Bioinform. 1:47–50. doi:10.1177/117693430500100003.
   PubMed Web of Science ®Google Scholar
• Filiz E, Ozdemir BS, Tuna M, Budak H. 2009. Diploid brachypodium distachyon of Turkey: molecular and morphologic analysis. In Molecular breeding of forage and turf. New York (NY): Springer; p. 83–90. doi:10.1007/978-0-387-79144-9_7.
   Google Scholar
• Hammami R, Jouve N, Soler C, Frieiro E, González JM. 2014. Genetic diversity of SSR and ISSR markers in wild populations of Brachypodium distachyon and its close relatives B. stacei and B. hybridum. Plant Syst Evol. 300(9):2029–2040. doi:10.1007/s00606-014-1021-0.
   Web of Science ®Google Scholar
• Hogers R, Bleeker M, Reijans M, Lee TVD, Hornes M, Friters A, Pot J, Paleman J, Vos P, Kuiper M. 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res. 23(21):4407–4414. doi:10.1093/nar/23.21.4407.
   PubMed Web of Science ®Google Scholar
• Jaroszewicz AM, Kosina R, Stankiewicz PR. 2012. RAPD, karyology and selected morphological variation in a model grass, Brachypodium distachyon. Weed Res. 52(3):204–216. doi:10.1111/j.1365-3180.2012.00916.x.
   Web of Science ®Google Scholar
• Li G, Quiros CF. 2001. Sequence-related amplified polymorphism (SRAP), a new marker system based on a simple PCR reaction: its application to mapping and gene tagging in Brassica. Theor Appl Genet. 103(2–3):455–461. doi:10.1007/s001220100570.
   Web of Science ®Google Scholar
• Lopez Alvarez D, Lopez Herranz ML, Betelchtin A, Catalan P, Schiefelbein J. 2012. A DNA barcoding method to discriminate between the model plant Brachypodium distachyon and its close relatives B. stacei and B. hybridum (Poaceae). PLoS One. 7(12):e51058. doi:10.1371/journal.pone.0051058.
   PubMed Web of Science ®Google Scholar
• Lopez Alvarez D, Manzaneda AJ, Rey PJ, Giraldo P, Benavente E, Allainguillaume J, Mur L, Caicedo AL, Hazen SP, Breiman A, et al. 2015. Environmental niche variation and evolutionary diversification of the Brachypodium distachyon grass complex species in their native circum-Mediterranean range. Am J Bot. 102(7):1–16. doi:10.3732/ajb.1500128.
   Web of Science ®Google Scholar
• Marques I, Shiposha V, López-Alvarez D, Manzaneda AJ, Hernandez P, Olonova M, Catalán P. 2017. Environmental isolation explains Iberian genetic diversity in the highly homozygous model grass Brachypodium distachyon. BMC Evol Biol. 17(1):139. doi:10.1186/s12862-017-0996-x.
   PubMedGoogle Scholar
• Mueller UG, Wolfenbarger LL. 1999. AFLP genotyping and fingerprinting. Trends Ecol Evol. 14(10):389–394. doi:10.1016/s0169-5347(99)01659-6.
   PubMed Web of Science ®Google Scholar
• Shiposha V, Catalán P, Olonova M, Marques I. 2016. Genetic structure and diversity of the selfing model grass Brachypodium stacei (Poaceae) in Western Mediterranean: out of the Iberian peninsula and into the islands. PeerJ. 4:e2407. doi:10.7717/peerj.2407
   PubMed Web of Science ®Google Scholar
• Shiposha V, Marques I, López-Alvarez D, Manzaneda AJ, Hernandez P, Olonova M, Catalán P. 2020. Multiple founder events explain the genetic diversity and structure of the model allopolyploid grass Brachypodium hybridum in the Iberian Peninsula hotspot. Ann Bot. 125(4):625–638. doi:10.1093/aob/mcz169.
   Web of Science ®Google Scholar
• Stenglein SA, Balatti PA. 2006. Genetic diversity of Phaeoisariopsis griseola in Argentina as revealed by pathogenic and molecular markers. Physiol Mol Plant Pathol. 68(4–6):158–167. doi:10.1016/j.pmpp.2006.10.001.
   Web of Science ®Google Scholar
• Tyler L, Lee SJ, Young ND, DeIulio GA, Benavente E, Reagon M, Caicedo AL. 2016. Population Structure in the Model Grass Brachypodium distachyon Is Highly Correlated with Flowering Differences across Broad Geographic Areas. Plant Genome. 9(2):2. doi:10.3835/plantgenome2015.08.0074.
   Web of Science ®Google Scholar
• Uniprot. 2019. UniProt: a worldwide hub of protein knowledge. Nucleic Acids Res. 47(D1):506–515. doi:10.1093/nar/gky1049.
   PubMed Web of Science ®Google Scholar
• Vain P. 2011. Brachypodium as a model system for grass research. J Cereal Sci. 54(1):1–7. doi:10.1016/j.jcs.2011.04.002.
   Web of Science ®Google Scholar
• Vogel J, Bragg J. 2009. Brachypodium distachyon, a New Model for the Triticeae. In: Muehlbauer, G., Feuillet, C. (eds) Genetics and Genomics of the Triticeae. Plant Genetics and Genomics: Crops and Models, vol 7. Springer, New York, NY.doi:10.1007/978-0-387-77489-3_16.
   Google Scholar
• Wang Y, Sun X, Tan B, Zhang B, Xu L, Huang M, Wang M. 2010. A genetic linkage map of Populus adenopoda Maxim. X P. alba L. hybrid based on SSR and SRAP markers. Euphytica. 173(2):193–205. doi:10.1007/s10681-009-0085-3.
   Web of Science ®Google Scholar
• Williams JG, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV. 1990. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acid Res. 25(22):6531–6535. doi:10.1093/nar/18.22.6531.
   Google Scholar
• Zietkiewicz E, Rafalski A, Labuda D. 1994. Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification. Genomics. 20(2):176–183. doi:10.1006/geno.1994.1151.
   PubMed Web of Science ®Google Scholar