Supplemental Table 1. Species of wheat (Triticum-Aegilops group) used for relative quantification

Species / Genome / Accession1 / Origin
Aegilops searsii / BB / 599124 / Kohav HaShahar, Judean Desert (Israel)
599140 / 10 km east of Rashadiya, Tafila (Jordan)
599149 / Yattir Forest, Judean Mountains (Israel)
599173 / Yattir Forest, Judean Mountains (Israel)
AEG-1589-3 / Gabagib (Syria)
Aegilops speltoides / BB / Clae45 / N/A
542274 / 20 km west of Damlacik village, 9 km north of Kahta junction, Adiyaman (Turkey)
TS01 / Berekhya (Israel)
TS02 / Zikhron Ya'akov (Israel)
TS118 / Syria
TS41 / Wadi Hilazon (Israel)
TS46 / Izmir (Turkey)
TS47 / N/A
6008 / Israel
Aegilops tauschii / DD / TQ27 / N/A
Triticum urartu / AuAu / TMU382 / N/A
TMU062 / N/A
Aegilops sharonensis / BB / TH02 / Acre (Israel)
Aegilops longissima / BB / TL05 / Nahariya-Rosh Hanikra (Israel)
Triticum dicoccoides / AABB / N/A3 / Tabgha (Israel)
Triticum turgidum ssp. durum / AABB / TTR19 / N/A
Triticum aestivum / AABBDD / TAA01 / N/A

1 Accessions refer to Plant IDs or USDA inventory numbers.

2 Only one of the T. urartu accessions was used for each element.

3 T. dicoccoides plants were collected from a natural population in Tabgha, northern Israel.

Seed material was kindly provided by Moshe Feldman, the Weziamnn Institute of Science and the United States Department of Agriculture (http://www.arsgrin.gov/npgs/acc/acc_queries.html).

Supplemental Table 2. List of all transposable elements analyzed in the study, their qPCR primer sequences and primer efficiencies1

1 Primer efficiency was determined by producing a standard curve through serial dilutions of a template mix and using the slope (y) in the equation Efficiency = [(10-1/y) – 1] × 100%.

2 All primers were designed from unique regions of the transposable element.

Supplemental Table 3. Coefficient of variation (CV) between/within the analyzed species for each transposable element

Classification / Family / All species1 / Ae. speltoides2 / Ae. searsii2
Gypsy / Sabrina / 0.419 / 0.464 / 0.198
Fatima / 1.568 / 0.426 / 0.565
Latidu / 1.064 / 0.672 / 0.196
Erika / 1.661 / 0.658 / 0.905
BAGY2 / 0.728 / 0.231 / 0.366
Geneva / 0.9084 / 0.366 / 0.2044
Copia / Angela-A / 0.417 / 0.646 / 0.102
Barbara / 0.354 / 0.670 / 0.246
WIS-A / 0.364 / 0.856 / 0.049
BARE1C / 1.109 / 0.329 / 0.657
Copia-like / Veju / 0.450 / 0.424 / 0.135
DNA / Balduin / 0.662 / 0.322 / 0.315
Rong / 1.100 / 1.203 / 0.905
Charon / 0.851 / 2.415 / 0.681
non-LTR / Ramona / 1.326 / 0.541 / 0.413
Paula / 1.232 / 1.084 / 1.022

1 CV for the average RQ of all accessions in all species.

2 CV for all accessions of Ae. speltoides or Ae. searsii.

3 The colors represent a value scale (heat map) from the lowest (green) to the highest (red) values.

4 The outlier RQ value for accession AEG-1589-3 (Aegilops searsii) was excluded from the CV calculation of Geneva.