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New insights into the wheat chromosome 4D structure and virtual gene order, revealed by survey pyrosequencing.

Helguera M, Rivarola M, Clavijo B, Martis MM, Vanzetti LS, González S, Garbus I, Leroy P, Šimková H, Valárik M, Caccamo M, Doležel J, Mayer KF, Feuillet C, Tranquilli G, Paniego N, Echenique V - Plant Sci. (2014)

Bottom Line: The virtual order showed a higher collinearity with homeologous 4B compared to 4A.Additionally, a virtual map was constructed and ∼5700 genes (∼2200 on 4DS and ∼3500 on 4DL) predicted.The sequence and virtual order obtained here using the 454 platform were compared with the Illumina one used by the IWGSC, giving complementary information.

View Article: PubMed Central - PubMed

Affiliation: Estación Experimental Agropecuaria Marcos Juárez, Instituto Nacional de Tecnología Agropecuaria (INTA), Marcos Juárez, Córdoba, Argentina. Electronic address: helguera.marcelo@inta.gob.ar.

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Assembly validation using 4D bin-mapped ESTs. Green bars represent 4D short arm binned EST k-mers present in the 454 short and long arm assembly (all contigs), respectively. Black bars represent 4D long arm binned EST k-mers present in the 454 long and short arm assembly (all contigs), respectively. Legend of Bins: Bin1: 4DS2-0.82–1.00, Bin2: 4DS3-0.67–0.82, Bin3: 4DS1-0.53–0.67, Bin4: 4DS1-0.53, Bin5: 4DL9-0.31, Bin6: 4DL9-0.31–0.56, Bin7: 4DL13-0.56–0.71, Bin8: 4DL12-0.71–1.00.
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fig0025: Assembly validation using 4D bin-mapped ESTs. Green bars represent 4D short arm binned EST k-mers present in the 454 short and long arm assembly (all contigs), respectively. Black bars represent 4D long arm binned EST k-mers present in the 454 long and short arm assembly (all contigs), respectively. Legend of Bins: Bin1: 4DS2-0.82–1.00, Bin2: 4DS3-0.67–0.82, Bin3: 4DS1-0.53–0.67, Bin4: 4DS1-0.53, Bin5: 4DL9-0.31, Bin6: 4DL9-0.31–0.56, Bin7: 4DL13-0.56–0.71, Bin8: 4DL12-0.71–1.00.


New insights into the wheat chromosome 4D structure and virtual gene order, revealed by survey pyrosequencing.

Helguera M, Rivarola M, Clavijo B, Martis MM, Vanzetti LS, González S, Garbus I, Leroy P, Šimková H, Valárik M, Caccamo M, Doležel J, Mayer KF, Feuillet C, Tranquilli G, Paniego N, Echenique V - Plant Sci. (2014)

Assembly validation using 4D bin-mapped ESTs. Green bars represent 4D short arm binned EST k-mers present in the 454 short and long arm assembly (all contigs), respectively. Black bars represent 4D long arm binned EST k-mers present in the 454 long and short arm assembly (all contigs), respectively. Legend of Bins: Bin1: 4DS2-0.82–1.00, Bin2: 4DS3-0.67–0.82, Bin3: 4DS1-0.53–0.67, Bin4: 4DS1-0.53, Bin5: 4DL9-0.31, Bin6: 4DL9-0.31–0.56, Bin7: 4DL13-0.56–0.71, Bin8: 4DL12-0.71–1.00.
© Copyright Policy - CC BY
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4352925&req=5

fig0025: Assembly validation using 4D bin-mapped ESTs. Green bars represent 4D short arm binned EST k-mers present in the 454 short and long arm assembly (all contigs), respectively. Black bars represent 4D long arm binned EST k-mers present in the 454 long and short arm assembly (all contigs), respectively. Legend of Bins: Bin1: 4DS2-0.82–1.00, Bin2: 4DS3-0.67–0.82, Bin3: 4DS1-0.53–0.67, Bin4: 4DS1-0.53, Bin5: 4DL9-0.31, Bin6: 4DL9-0.31–0.56, Bin7: 4DL13-0.56–0.71, Bin8: 4DL12-0.71–1.00.
Bottom Line: The virtual order showed a higher collinearity with homeologous 4B compared to 4A.Additionally, a virtual map was constructed and ∼5700 genes (∼2200 on 4DS and ∼3500 on 4DL) predicted.The sequence and virtual order obtained here using the 454 platform were compared with the Illumina one used by the IWGSC, giving complementary information.

View Article: PubMed Central - PubMed

Affiliation: Estación Experimental Agropecuaria Marcos Juárez, Instituto Nacional de Tecnología Agropecuaria (INTA), Marcos Juárez, Córdoba, Argentina. Electronic address: helguera.marcelo@inta.gob.ar.

Show MeSH