476
the natural distribution of Nothofagus species in Argentina and/or natural forests
assays along environmental gradients (Arias Rios (N. alpina), Cagnacci (N. pumilio
and N. obliqua) and Sekely (N. pumilio) PhD theses).
Furthermore, the use of massive genotyping for population genomics studies in
Nothofagus species has been also validated, combining Ion Torrent PGM sequencing with the Fluidigm platform (48 individuals × 48 amplicons) as a cost-effective
strategy to produce re-sequencing data (El Mujtar et al. 2015). In total, ~50 barcoded libraries were sequenced on an Ion Torrent PGM across 4 runs, each being
either a single individual or different sizes (6 or 12 individuals) pools. Variation
between runs, techniques (either tagged individuals after mixing single PCR amplicons versus Fluidigm multiple PCRs) and single or pooled libraries for the same
technique and the impact of primer purification (desalting/PAGE) and of concentration of amplicons (equimolar/non-equimolar) were tested.
All these projects suggest that high-throughput sequencing and genotyping techniques could be more frequently used in Argentina for genome-wide association
studies (GWAS) and genomic selection (GS) in the near future accelerating forest
tree breeding of native Argentinean species.
References
Adams J (2008) DNA sequencing technologies. Nature Education 1:1931
Aguirre N, Filippi C, Zaina G, Rivas J, Acuña C, Villalba P et al (2019) Optimizing ddRADseq in
non-model species: a case study in Eucalyptus dunnii. Agronomy 9:484
Alvarez M, Mosquera T, Blair M (2014) The use of association genetics approaches in plant breeding. In: Janick J (ed) Plant breeding reviews, vol 38. Wiley, Hoboken, pp 17–68
Andrews K, Good J, Miller M, Luikart G, Hohenlohe P (2016) Harnessing the power of RADseq
for ecological and evolutionary genomics. Nat Rev Genet 17:81–92
Aranzana M, Kim S, Zhao K, Bakker E, Horton M et al (2005) Genome-wide association mapping in Arabidopsis identifies previously known flowering time and pathogen resistance genes.
PLoS Genet 1:e60
Azpilicueta M, Caron H, Bodénès C, Gallo L (2004) SSR markers for analyzing South American
Nothofagus species. Silvae Genet 53:240–243
Azpilicueta M, Soliani C, Gallo L, van Zonneveld M, Thomas E, Moreno C, Marchelli P (2013)
Definición de zonas genéticas en cuatro especies de Nothofagus de los bosques andinopatagónicos IV Congreso Forestal Argentino y Latinoamericano. Iguazú, 23–27 September
Azpilicueta M, El Mujtar V, Gallo L (2016) Searching for molecular insight on hybridization in
Nothofagus spp. forests at Lagunas de Epulauquen, Argentina. Bosque 37:591–601
Badenes M, Fernández I, Ríos G, Rubio-Cabetas M (2016) Application of genomic technologies
to the breeding of trees. Front Genet 7:198
Baird N, Etter P, Atwood T, Currey M, Shiver A, Lewis Z et al (2008) Rapid SNP discovery and
genetic mapping using sequenced RAD markers. PLoS One 3:e3376
Barros V, Boninsegna J, Camilloni I, Chidiak M, Magrín G, Rusticucci M (2015) Climate change
in Argentina: trends, projections, impacts and adaptation. Wiley Interdiscip Rev Clim Change
6:151–169
Bartholomé J, Van Heerwaarden J, Isik F, Boury C, Vidal M, Plomion C, Bouffier L (2016)
Performance of genomic prediction within and across generations in maritime pine. BMC
genomics 17:604
S. L. Torales et al.
the natural distribution of Nothofagus species in Argentina and/or natural forests
assays along environmental gradients (Arias Rios (N. alpina), Cagnacci (N. pumilio
and N. obliqua) and Sekely (N. pumilio) PhD theses).
Furthermore, the use of massive genotyping for population genomics studies in
Nothofagus species has been also validated, combining Ion Torrent PGM sequencing with the Fluidigm platform (48 individuals × 48 amplicons) as a cost-effective
strategy to produce re-sequencing data (El Mujtar et al. 2015). In total, ~50 barcoded libraries were sequenced on an Ion Torrent PGM across 4 runs, each being
either a single individual or different sizes (6 or 12 individuals) pools. Variation
between runs, techniques (either tagged individuals after mixing single PCR amplicons versus Fluidigm multiple PCRs) and single or pooled libraries for the same
technique and the impact of primer purification (desalting/PAGE) and of concentration of amplicons (equimolar/non-equimolar) were tested.
All these projects suggest that high-throughput sequencing and genotyping techniques could be more frequently used in Argentina for genome-wide association
studies (GWAS) and genomic selection (GS) in the near future accelerating forest
tree breeding of native Argentinean species.
References
Adams J (2008) DNA sequencing technologies. Nature Education 1:1931
Aguirre N, Filippi C, Zaina G, Rivas J, Acuña C, Villalba P et al (2019) Optimizing ddRADseq in
non-model species: a case study in Eucalyptus dunnii. Agronomy 9:484
Alvarez M, Mosquera T, Blair M (2014) The use of association genetics approaches in plant breeding. In: Janick J (ed) Plant breeding reviews, vol 38. Wiley, Hoboken, pp 17–68
Andrews K, Good J, Miller M, Luikart G, Hohenlohe P (2016) Harnessing the power of RADseq
for ecological and evolutionary genomics. Nat Rev Genet 17:81–92
Aranzana M, Kim S, Zhao K, Bakker E, Horton M et al (2005) Genome-wide association mapping in Arabidopsis identifies previously known flowering time and pathogen resistance genes.
PLoS Genet 1:e60
Azpilicueta M, Caron H, Bodénès C, Gallo L (2004) SSR markers for analyzing South American
Nothofagus species. Silvae Genet 53:240–243
Azpilicueta M, Soliani C, Gallo L, van Zonneveld M, Thomas E, Moreno C, Marchelli P (2013)
Definición de zonas genéticas en cuatro especies de Nothofagus de los bosques andinopatagónicos IV Congreso Forestal Argentino y Latinoamericano. Iguazú, 23–27 September
Azpilicueta M, El Mujtar V, Gallo L (2016) Searching for molecular insight on hybridization in
Nothofagus spp. forests at Lagunas de Epulauquen, Argentina. Bosque 37:591–601
Badenes M, Fernández I, Ríos G, Rubio-Cabetas M (2016) Application of genomic technologies
to the breeding of trees. Front Genet 7:198
Baird N, Etter P, Atwood T, Currey M, Shiver A, Lewis Z et al (2008) Rapid SNP discovery and
genetic mapping using sequenced RAD markers. PLoS One 3:e3376
Barros V, Boninsegna J, Camilloni I, Chidiak M, Magrín G, Rusticucci M (2015) Climate change
in Argentina: trends, projections, impacts and adaptation. Wiley Interdiscip Rev Clim Change
6:151–169
Bartholomé J, Van Heerwaarden J, Isik F, Boury C, Vidal M, Plomion C, Bouffier L (2016)
Performance of genomic prediction within and across generations in maritime pine. BMC
genomics 17:604
S. L. Torales et al.