| Name | Description |
|---|---|
Assembly deposited as NCBI GenBank accession MK036045 View this assembly in JBrowse by visiting this page | |
Assembly deposited as NCBI GenBank accession MK562755. Sequencing technology: Illumina; PacBio. Assembly method: SPAdes v. v3.10.1 View this assembly in JBrowse by visiting this page | |
Assembly deposited as NCBI GenBank accession MK562756. Sequencing technology: Illumina; PacBio. Assembly method: SPAdes v. v3.10.1 View this assembly in JBrowse by visiting this page | |
Assembly deposited as NCBI GenBank accession MK751398 View this assembly in JBrowse by visiting this page | |
Assembly deposited as NCBI GenBank accession MZ328720. Sequencing technology: Illumina. Assembly method: SPAdes v. v3.10.1 View this assembly in JBrowse by visiting this page | |
Assembly deposited as NCBI GenBank accession MZ328722. Sequencing technology: Illumina. Assembly method: SPAdes v. v3.10.1 View this assembly in JBrowse by visiting this page | |
Celery genome sequencing | |
Celery (Apium graveolens L. 2n = 2x = 22), a member of the Apiaceae family, is among the most important and globally grown vegetables. Here, we report a high-quality genome sequence assembly, anchored to 11 chromosomes, with total length of 3.33 Gb and N50 scaffold length of 289.78 Mb. Most (92.91%) of the genome is composed of repetitive sequences, with 62.12% of 31 326 annotated genes confined to the terminal 20% of chromosomes. Simultaneous bursts of shared long-terminal repeats (LTRs) in different Apiaceae plants suggest inter-specific exchanges. Two ancestral polyploidizations were inferred, one shared by Apiales taxa and the other confined to Apiaceae. We reconstructed 8 Apiales proto-chromosomes, inferring their evolutionary trajectories from the eudicot common ancestor to extant plants. Transcriptome sequencing in three tissues (roots, leaves and petioles), and varieties with different-coloured petioles, revealed 4 and 2 key genes in pathways regulating anthocyanin and coumarin biosynthesis, respectively. A remarkable paucity of NBS disease-resistant genes in celery (62) and other Apiales was explained by extensive loss and limited production of these genes during the last ~10 million years, raising questions about their biotic defence mechanisms and motivating research into effects of chemicals, for example coumarins, that give off distinctive odours. Celery genome sequencing and annotation facilitates further research into important gene functions and breeding, and comparative genomic analyses in Apiales. |
| Name | Description | Units |
|---|---|---|
Eight genes of celery (Apium graveolens) were characterized by classical segregation analyses: Adh-1, Adh-2, Pgm-2, Pgm-3, Pgi-3, Mdh-3, Sdh-1, and A-112. Among the pairwise cosegregation tests conducted, three linkages were detected: Adh-1-Pgm-3 (1.04), Pgi-3-Mdh 3 (9.07), and Pgm-2-Sdh-1 (39.10). Adh-1 and Adh-2 segregated independently. | cM | |
Eight genes of celery (Apium graveolens) were characterized by classical segregation analyses: Adh-1, Adh-2, Pgm-2, Pgm-3, Pgi-3, Mdh-3, Sdh-1, and A-112. Among the pairwise cosegregation tests conducted, three linkages were detected: Adh-1-Pgm-3 (1.04), Pgi-3-Mdh 3 (9.07), and Pgm-2-Sdh-1 (39.10). Adh-1 and Adh-2 segregated independently. | cM | |
Annual habit in celery is partially dominant over biennial and determined by a single gene designated Hb. Cosegregation studies of this trait with nine isozyme loci and a gene determining petiole anthocyanin pigmentation disclosed the following linkage relationships: Adh-1-Sdh-1-Mdh-1, and Got-1-Mdh-2-Hb-A . The recombination frequency observed for Hb and Mdh-2 was too
large to use the latter as a useful marker for annual habit. | cM | |
Linkage relationships are reported for 34 markers in celery (Apium graveolens L. var 'dulce') including 21 RFLP, 11 isozyme, and 2 morphological traits. The mapping was carried out in a cross between celery and an annual accession from Thailand, A143, and based on F₂ segregation of 136 plants. A total of 318 centiMorgans (cM) are covered by the markers distributed in 8 linkage groups. Probes for the identification of RFLPs were isolated from a celery cDNA library and were also obtained from heterologous sources. EcoRV, EcoRI, and HindIII were the most useful restriction enzymes in uncovering polymorphism. In our cross, 18% of the cDNA probes were found to be polymorphic for at least one of the enzymes used. Six of the markers showed significant
deviations from expected F₂ ratios. | cM | |
A F₂ population of two celery cultivated types (Apium graveolens L. var. rapaceum A112 celeriac, and A. graveolens L. var. secalinum A143 annual smallage) was used to construct a linkage map consisting of 29 RFLP (restriction fragment length polymorphism), 100 RAPD (random amplified polymorphic DNA), four isozyme, one disease resistance, and one growth habit markers. The map contains 11 major groups and 9 small groups and has a total length of 803 cM with an average distance of 6.4 cM between two adjacent loci. Ten percent of the RAPDs segregated as codominant markers and their allelic homologies were tested by Southern hybridization. One-quarter of the dominant RAPDs were linked in repulsion phase, whereas the majority of them were linked to either codominant or dominant markers in coupling phase. About 10% of the markers showed significant segregation distortion. The detectable level of duplications in the celery genome was relatively low. Accession A112 was the authors' designation for PI 169001, and accession A143 was the authors' designation for PI 257228. Note that in GRIN PI 257228 is listed as A. graveolens L. var. rapaceum. This F₂ population is designated as PI 169001 x PI 257228 in CarrotOmics. | cM |
| File | Type |
|---|---|
| NCBI FTP Download for GCA_009905375.1_ASM990537v1 | NCBI Data Download FTP Link |
| NCBI FTP Download for GCA_902728035.1_Apium_graveolens | NCBI Data Download FTP Link |
| Name | Tissue | Treatment | Description |
|---|---|---|---|
| SAMD00518105 | Young leaf | supplied with complete nutrients | Celery cultured in control medium for 4 days |
| SAMD00518106 | Young leaf | supplied with complete nutrients | Celery cultured in control medium for 7 days |
| SAMD00518107 | Young leaf | supplied with low Ca medium (1/10 of control) | Celery cultured in low Ca medium for 4 days |
| SAMD00518108 | Young leaf | supplied with low Ca medium (1/11 of control) | Celery cultured in low Ca medium for 7 days |
| SAMD00518113 | Young leaf | supplied with complete nutrients for 4 days | Celery cultured in control medium for 4 days |
| SAMD00518114 | Young leaf | supplied with complete nutrients for 4 days | Celery cultured in control medium for 4 days |
| SAMD00518115 | Young leaf | supplied with complete nutrients for 4 days | Celery cultured in control medium for 4 days |
| SAMD00518116 | Young leaf | supplied with complete nutrients for 7 days | Celery cultured in control medium for 7 days |
| SAMD00518117 | Young leaf | supplied with complete nutrients for 7 days | Celery cultured in control medium for 7 days |
| SAMD00518118 | Young leaf | supplied with complete nutrients for 7 days | Celery cultured in control medium for 7 days |
| Accession | Accession Type |
|---|---|
| G 33194 | Germplasm Accession |
| G 33195 | Germplasm Accession |
| G 22770 | Germplasm Accession |
| PI 4889 | Germplasm Accession |
| PI 49912 | Germplasm Accession |
| PI 120878 | Germplasm Accession |
| G 26733 | Germplasm Accession |
| PI 108826 | Germplasm Accession |
| PI 109197 | Germplasm Accession |
| PI 118196 | Germplasm Accession |