Table 1 Datasets used in this study. Geneset sources correspond to Ensembl Plants releases (EP) and the barley gene annotation from IPK [13]. Wheat genotypes are all Triticum aestivum. Barley genotypes are Hordeum vulgare landraces and cultivars, except B1K-04–12, which is H. vulgare subsp. spontaneum
From: GET_PANGENES: calling pangenes from plant genome alignments confirms presence-absence variation
Dataset | Species/genotype | INSDC accession | Geneset | Size (MB) | # Genes |
|---|---|---|---|---|---|
ACK2 | Arabidopsis thaliana | GCA_000001735.1 | EP52 | 116 | 27,655 |
Arabidopsis lyrata | GCA_000004255.1 | EP52 | 200 | 32,667 | |
rice3 | Oryza sativa Nipponbare | GCA_001433935.1 | EP54 | 363 | 37,960 |
Oryza sativa indica 93–11 | GCA_000004655.2 | EP54 | 414 | 40,745 | |
Oryza nivara IRGC:100I897 | GCA_000576065.1 | EP54 | 327 | 36,313 | |
chr1wheat10 | Chinese Spring | GCA_900519105.1 | EP52 | 1,736 | 18,017 |
Arinalrfor | GCA_903993985.1 | EP52 | 1,725 | 13,542 | |
Jagger | GCA_903993795.1 | EP52 | 1,740 | 17,810 | |
Julius | GCA_903994195.1 | EP52 | 1,729 | 17,669 | |
Lancer | GCA_903993975.1 | EP52 | 1,721 | 17,951 | |
Landmark | GCA_903995565.1 | EP52 | 1,738 | 17,792 | |
Mace | GCA_903994175.1 | EP52 | 1,713 | 17,724 | |
Sy Mattis | GCA_903994185.1 | EP52 | 1,718 | 17,941 | |
Norin61 | GCA_904066035.1 | EP52 | 1,726 | 18,091 | |
Stanley | GCA_903994155.1 | EP52 | 1,737 | 17,767 | |
barley20 | MorexV2 | LR722616-LR722623 | IPK2020 | 4,210 | 46,294 |
Akashinriki | ERS4201448 | IPK2020 | 4,401 | 44,446 | |
B1K-04–12 | ERS4201449 | IPK2020 | 4,142 | 44,566 | |
Barke | ERS4201450 | IPK2020 | 4,073 | 45,999 | |
Golden Promise | GCA_902500625.1 | IPK2020 | 3,946 | 42,464 | |
HOR10350 | ERS4201451 | IPK2020 | 4,086 | 45,810 | |
HOR13821 | ERS4201452 | IPK2020 | 4,324 | 44,714 | |
HOR13942 | ERS4201453 | IPK2020 | 4,249 | 44,718 | |
HOR21599 | ERS4201454 | IPK2020 | 4,344 | 44,456 | |
HOR3081 | ERS4201455 | IPK2020 | 4,201 | 45,146 | |
HOR3365 | ERS4201456 | IPK2020 | 4,722 | 47,588 | |
HOR7552 | ERS4201457 | IPK2020 | 4,228 | 44,641 | |
HOR8148 | ERS4201458 | IPK2020 | 4,212 | 45,026 | |
HOR9043 | ERS4201459 | IPK2020 | 4,270 | 45,028 | |
Hockett | ERS4201460 | IPK2020 | 4,201 | 46,450 | |
Igri | ERS4201461 | IPK2020 | 4,202 | 45,213 | |
OUN333 | ERS4201462 | IPK2020 | 4,392 | 44,699 | |
RGT Planet | ERS4201463 | IPK2020 | 4,213 | 45,413 | |
ZDM01467 | ERS4201447 | IPK2020 | 4,540 | 44,746 | |
ZDM02064 | ERS4201446 | IPK2020 | 4,153 | 45,050 |