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Additional file 1 of Cytogenetic screening of a Canadian swine breeding nucleus using a newly developed karyotyping method named oligo-banding
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Poisson, William; Bastien, Alexandre; Gilbert, Isabelle; Carrier, Alexandra; Prunier, Julien; Robert, Claude — 2023 Additional file 1: Table S1. Oligonucleotide information. This Excel file contains four spreadsheets containing oligonucleotide libraries 1 to 4 and one giving the conversion between colour ID and the attributed fluorophore. Each library contains a description of the chromosome, probe and colour attributions for each oligo used in this study. The genome-homologous 39mer are also listed with their respective genomic positions. The “Seq_fin” column contains the final 79mer oligo sequences ordered from Genscript. https://creativecommons.org/licenses/by/4.0/legalcode
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Additional file 2 of Cytogenetic screening of a Canadian swine breeding nucleus using a newly developed karyotyping method named oligo-banding
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Poisson, William; Bastien, Alexandre; Gilbert, Isabelle; Carrier, Alexandra; Prunier, Julien; Robert, Claude — 2023 Additional file 2: Table S2. Primers and detection oligo sequences. This Excel file contains each primer sequence linked to the 3’ end of their attributed specific fluorophore “handle”, the chromosome-specific reverse primers containing the T7 sequence at the 5’ end, and each detection oligo sequence with its attributed fluorophore at the 3’ end. All sequences were purchased from IDT DNA as standard purified oligos except for the detection oligos, which were purchased as HPLC-purified oligos. https://creativecommons.org/licenses/by/4.0/legalcode
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Additional file 6 of Cytogenetic screening of a Canadian swine breeding nucleus using a newly developed karyotyping method named oligo-banding
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Poisson, William; Bastien, Alexandre; Gilbert, Isabelle; Carrier, Alexandra; Prunier, Julien; Robert, Claude — 2023 Additional file 6: Table S3. Correspondence between oligo-banding probes and G-bands and their positions on pig chromosomes. Oligo-banding probe positions are specified starting at the first nucleotide of the first oligonucleotide and ending at the last nucleotide of the last oligonucleotide. G-band positions were estimated by Donaldson et al. [1]. The centromere position relative to oligo-banding probes was confirmed on each chromosome pair. Discrepancy with Donaldson et al. [1] was observed on SSC6, SSC7 and Y. However, our centromere positions match those of Warr et al. [44]. When available, the regions closest to our positioning were included in the Predicted centromere region (start–end)** columns based on Warr et al. [44] results. A discrepancy was observed also for the SSC17 centromere position as Warr et al. [44] have detected it at the SSC17 end compared to our results. https://creativecommons.org/licenses/by/4.0/legalcode
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Additional file 7 of Cytogenetic screening of a Canadian swine breeding nucleus using a newly developed karyotyping method named oligo-banding
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Poisson, William; Bastien, Alexandre; Gilbert, Isabelle; Carrier, Alexandra; Prunier, Julien; Robert, Claude — 2023 Additional file 7: Table S4. Estimated cost of the oligo-banding method. Economic estimation of the main steps associated with the oligo-banding method which are Oligo pool cost, PCR step, in vitro transcription (IVT) step, reverse transcription (RT) step and hybridization total cost including all steps (Total). Costs are expressed in Canadian dollars (CAD) and for the hybridization of one sample (slide). Consumable material costs for each step are included but salaries and laboratory and microscopy basics are not included as they may change between laboratories. https://creativecommons.org/licenses/by/4.0/legalcode

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(Author: Bastien, Alexandre)

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