Category | Details | Description |
---|---|---|
Assembly | Nuclear genome assembly | Three species |
Organelle genome assembly | 89 species, five mitochondrion genomes, 221 chloroplast genomes | |
Transcriptome assembly | Four species | |
Gene family | Flavor-related genes | 90 genes in A. sativum, 109 genes in A. cepa, 115 genes in A. fistulosum |
Transcription factors / Transcription regulators | 2,600 genes in A. sativum, 2,698 genes in A. cepa, 2,801 genes in A. fistulosum | |
Protein kinases | 1,537 genes in A. sativum, 1,253 genes in A. cepa, 1,318 genes in A. fistulosum | |
CYP450s | 604 genes in A. sativum, 437 genes in A. cepa, 477 genes in A. fistulosum | |
Functional annotations | GO | 28,317 genes in A. sativum, 23,748 genes in A. cepa, 29,984 genes in A. fistulosum |
KEGG | 39,000 genes in A. sativum, 24,261 genes in A. cepa, 14,203 genes in A. fistulosum | |
Pfam domains | 37,090 genes in A. sativum, 41,882 genes in A. cepa, 35,013 genes in A. fistulosum | |
Nr | 49,428 annotations in A. sativum, 73,318 annotations in A. cepa, 44,770 annotations in A. fistulosum | |
Swiss-prot | 38,809 annotations in A. sativum, 37,730 annotations in A. cepa, 33,130 annotations in A. fistulosum | |
trEMBL | 49,483 annotations in A. sativum, 72,679 annotations in A. cepa, 44,678 annotations in A. fistulosum | |
Ortholog group | 21,254 groups | |
Ortholog in Arabidopsis | 47,736 genes in A. sativum, 46,762 genes in A. cepa, 40,072 genes in A. fistulosum | |
ncRNA | 21,920 targets in A. sativum, 17,740 targets in A. cepa, 12,034 targets in A. fistulosum | |
Co-expression | 405,196 positive and 141,360 negative gene pairs in A. sativum, 6,977,016 positive and 193,968 negative gene pairs in A. cepa, 673,005 positive and 197,756 negative gene pairs in A. fistulosum | |
Comparative genomics | Collinear blocks | 111 blocks in A. sativum vs. A. cepa, 647 blocks in A. sativum vs. A. fistulosum, 260 blocks in A. cepa vs. A. fistulosum |
Omics data | Transcriptome | 746 samples from seven species |
Proteome | Source from seven publications | |
Variations | 336 accessions | |
Germplasms | Germplasms | 423 Allium germplasms from 33 countries, 17 species |
Photographs | 1,317 photographs | |
Traits | Nine traits (tillering, leaf wax, bolting, leaf shape, leaf gesture, orientation of leaf, node density, length of pseudostem, germination rate) |