FoPGDB
a pan-genome database of Fusarium oxysporum
| Genome | Genome code | Race | Number of Chromosomes | Genome size | Number of scaffolds | Number of contigs | Contig N50 | Scaffold N50 | Number of genes | Hosted by |
Reference
|
|---|---|---|---|---|---|---|---|---|---|---|---|
| Fusarium oxysporum f. sp. basilici Amherst-33 v1.0 | Fob33 | - | - | 56.7Mb | 120 | 120 | 1.1Mb | 1.1Mb | 18076 | JGI | - |
| Fusarium oxysporum f. sp. basilici Amherst-23 v1.0 | Fob23 | - | - | 58.0Mb | 70 | 70 | 4.2Mb | 4.2Mb | 18527 | JGI | - |
| Fusarium oxysporum f. sp. pisi F23 v1.0 | FopF23 | - | - | 73.3Mb | 253 | 253 | - | 0.7Mb | 20063 | JGI | - |
| Fusarium oxysporum f. sp. pisi F79 v1.0 | FopF79 | - | - | 67.0Mb | 193 | 193 | - | 0.9Mb | 19180 | JGI | - |
| Fusarium oxysporum f. sp. pisi F109 v1.0 | FopF109 | - | - | 67.1Mb | 155 | 155 | 1.0Mb | 1.0Mb | 19272 | JGI | - |
| Fusarium oxysporum f. sp. pisi F105 v1.0 | FopF105 | - | - | 71.5Mb | 226 | 226 | 0.8Mb | 0.8Mb | 19358 | JGI | - |
| Fusarium oxysporum f.sp. cubense II5 v2.0 | FocII5 | race 4 | 11 | 49.4Mb | 53 | 53 | - | 4.5Mb | 16048 | JGI | Ma LJ, Zhang Y, Li C, Liu S, Liu C, Mostert D, Yu H, Haridas S, Webster K, Li M, Grigoriev I, Viljoen A, Yi G Accessory genes in tropical race 4 contributed to the recent resurgence of the devastating disease of Fusarium wilt of banana. Res Sq. 2023 Aug 8;():. doi: 10.21203/rs.3.rs-3197485/v1.URL: Link To PubMed |
| Fusarium oxysporum f. sp. albedinis isolate 9 v1.0 | Foa9 | - | - | 65.6Mb | 114 | 114 | 2.9Mb | 2.9Mb | 19411 | JGI | - |
| Fusarium oxysporum NRRL 26365 | FoNRRL26365 | - | - | 48.5Mb | 280 | 289 | 0.7Mb | 0.7Mb | 16047 | JGI | - |
| Fusarium oxysporum f. sp. matthiolae PHW726 | FomPHW726 | race 2 | - | 57.2Mb | 582 | 582 | - | 0.8Mb | 17996 | JGI | Yu H, Ayhan DH, Diener AC, Ma LJ. Genome Sequence of Fusarium oxysporum f. sp. matthiolae, a Brassicaceae Pathogen. Mol Plant Microbe Interact. 2020 Apr;33(4):569-572. doi: 10.1094/MPMI-11-19-0324-A. Epub 2020 Mar 3. PMID: 31967942; PMCID: PMC7233306. URL: Link To PubMed |
| Fusarium oxysporum MRL8996 v1.0 | FoMRL8996 | - | - | 50.1Mb | 250 | 250 | 5.3Mb | 1.7Mb | 16631 | JGI | Zhang, Y. et al. The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes. Commun. Biol. 3, 50 (2020).URL: Link To PubMed |
| Fusarium oxysporum F2-06 v1.0 | Fo2-06 | - | - | 55.3Mb | 32 | 32 | - | 4.8Mb | 17672 | JGI | - |
| Fusarium oxysporum F10-08 v1.0 | Fo10-08 | - | - | 56.0Mb | 27 | 27 | 4.3Mb | 4.3Mb | 17958 | JGI | - |
| Fusarium oxysporum F2-07 v1.0 | Fo2-07 | - | - | 54.0Mb | 40 | 40 | 4.7Mb | 4.7Mb | 17461 | JGI | - |
| Fusarium oxysporum F10-03 v1.0 | Fo10-03 | - | - | 56.6Mb | 22 | 22 | 4.6Mb | 4.6Mb | 17114 | JGI | - |
| Fusarium oxysporum F2-04 v1.0 | Fo2-04 | - | - | 56.6Mb | 35 | 35 | 4.5Mb | 4.5Mb | 17876 | JGI | - |
| Fusarium oxysporum F2-02 v1.0 | Fo2-02 | - | - | 55.4Mb | 28 | 28 | 5.3Mb | 5.3Mb | 17736 | JGI | - |
| Fusarium oxysporum F10-04 v1.0 | Fo10-04 | - | - | 57.9Mb | 51 | 51 | 5.8Mb | 5.8Mb | 18482 | JGI | - |
| Fusarium oxysporum F10-10 v1.0 | Fo10-10 | - | - | 53Mb | 16 | 16 | 3.9Mb | 3.9Mb | 16942 | JGI | - |
| Fusarium oxysporum F2-01 v1.0 | Fo2-01 | - | - | 56.6Mb | 33 | 33 | 3.6Mb | 3.6Mb | 17966 | JGI | - |
| Fusarium oxysporum f. sp. pisi T415 v1.0 | FopT415 | - | - | 55.8Mb | 463 | 463 | - | 3.6Mb | 18001 | JGI | - |
| Fusarium oxysporum MPI-CAGE-CH-0212 v1.0 | Fo0212 | - | - | 55.7Mb | 66 | 66 | 4.8Mb | 4.8Mb | 17726 | JGI | Mesny F, Miyauchi S, Thiergart T, Pickel B, Atanasova L, Karlsson M, Hüttel B, Barry KW, Haridas S, Chen C, Bauer D, Andreopoulos W, Pangilinan J, LaButti K, Riley R, Lipzen A, Clum A, Drula E, Henrissat B, Kohler A, Grigoriev IV, Martin FM, Hacquard S. Genetic determinants of endophytism in the Arabidopsis root mycobiome. Nat Commun. 2021 Dec 10;12(1):7227. doi: 10.1038/s41467-021-27479-y. PMID: 34893598; PMCID: PMC8664821. URL: Link To PubMed |
| Fusarium oxysporum MPI-SDFR-AT-0094 v1.0 | Fo0094 | - | - | 52.2Mb | 128 | 128 | 1.6Mb | 1.6Mb | 17445 | JGI | Mesny F, Miyauchi S, Thiergart T, Pickel B, Atanasova L, Karlsson M, Hüttel B, Barry KW, Haridas S, Chen C, Bauer D, Andreopoulos W, Pangilinan J, LaButti K, Riley R, Lipzen A, Clum A, Drula E, Henrissat B, Kohler A, Grigoriev IV, Martin FM, Hacquard S. Genetic determinants of endophytism in the Arabidopsis root mycobiome. Nat Commun. 2021 Dec 10;12(1):7227. doi: 10.1038/s41467-021-27479-y. PMID: 34893598; PMCID: PMC8664821. URL: Link To PubMed |
| Fusarium oxysporum f. sp. cubense Foc1 60 | Foc1 | race 1 | 11 | 48.6Mb | 12 | 20 | - | 4.7Mb | 15865 | NGDC | Yun Y, Song A, Bao J, Chen S, Lu S, Cheng C, Zheng W, Wang Z, Zhang L. Genome Data of Fusarium oxysporum f. sp. cubense Race 1 and Tropical Race 4 Isolates Using Long-Read Sequencing. Mol Plant Microbe Interact. 2019 Oct;32(10):1270-1272. doi: 10.1094/MPMI-03-19-0063-A. Epub 2019 Aug 6. PMID: 31063048. URL: Link To PubMed |
| Fusarium oxysporum f. sp. cubense FocTR4 58 | FocTR4 | race 4 | 11 | 48.4Mb | 12 | 24 | - | 4.4Mb | 15519 | NGDC | Yun Y, Song A, Bao J, Chen S, Lu S, Cheng C, Zheng W, Wang Z, Zhang L. Genome Data of Fusarium oxysporum f. sp. cubense Race 1 and Tropical Race 4 Isolates Using Long-Read Sequencing. Mol Plant Microbe Interact. 2019 Oct;32(10):1270-1272. doi: 10.1094/MPMI-03-19-0063-A. Epub 2019 Aug 6. PMID: 31063048. URL: Link To PubMed |
| Fusarium oxysporum f. sp. cepae FoC_Fus2_v1 | FocpFus2 | - | 11 | 53.4Mb | 34 | 34 | 4.1 Mb | 4.1Mb | 18852 | NCBI | Armitage AD, Taylor A, Sobczyk MK, Baxter L, Greenfield BPJ, Bates HJ, Wilson F, Jackson AC, Ott S, Harrison RJ, Clarkson JP. Characterisation of pathogen-specific regions and novel effector candidates in Fusarium oxysporum f. sp. cepae. Sci Rep. 2018 Sep 10;8(1):13530. doi: 10.1038/s41598-018-30335-7. PMID: 30202022; PMCID: PMC6131394. URL: Link To PubMed |
| Fusarium oxysporum f. sp. radicis-cucumerinum Forc016 | Forc016 | - | 12 | 52.9Mb | 32 | 32 | 4.5Mb | 4.5Mb | 16795 | NCBI | van Dam P, Fokkens L, Schmidt SM, Linmans JH, Kistler HC, Ma LJ, Rep M. Effector profiles distinguish formae speciales of Fusarium oxysporum. Environ Microbiol. 2016 Nov;18(11):4087-4102. doi: 10.1111/1462-2920.13445. Epub 2016 Jul 29. PMID: 27387256. URL: Link To PubMed |
| Fusarium oxysporum f. sp. conglutinans Cong1-1 | Focong1-1 | - | - | 72.2Mb | 147 | 147 | 1.1Mb | 4.9Mb | 21781 | NCBI | Ayukawa Y, Asai S, Gan P, Tsushima A, Ichihashi Y, Shibata A, Komatsu K, Houterman PM, Rep M, Shirasu K, Arie T. A pair of effectors encoded on a conditionally dispensable chromosome of Fusarium oxysporum suppress host-specific immunity. Commun Biol. 2021 Jun 9;4(1):707. doi: 10.1038/s42003-021-02245-4. PMID: 34108627; PMCID: PMC8190069. URL: Link To PubMed |
| Fusarium oxysporum Fo47 | Fo47 | - | 12 | 50.4Mb | 12 | 12 | 4.5Mb | 4.5Mb | 17426 | NCBI | Wang B, Yu H, Jia Y, Dong Q, Steinberg C, Alabouvette C, Edel-Hermann V, Kistler HC, Ye K, Ma LJ, Guo L. Chromosome-Scale Genome Assembly of Fusarium oxysporum Strain Fo47, a Fungal Endophyte and Biocontrol Agent. Mol Plant Microbe Interact. 2020 Sep;33(9):1108-1111. doi: 10.1094/MPMI-05-20-0116-A. Epub 2020 Jul 28. PMID: 32552518. URL: Link To PubMed |
| Fusarium oxysporum Fo5176 | Fo5176 | - | 19 | 68.4Mb | 24 | 24 | 4.1 Mb | 4.1Mb | 21683 | NCBI | Like Fokkens, Li Guo, Susanne Dora, Bo Wang, Kai Ye, Clara Sánchez-Rodríguez, Daniel Croll, A Chromosome-Scale Genome Assembly for the Fusarium oxysporum Strain Fo5176 To Establish a Model Arabidopsis-Fungal Pathosystem, G3 Genes|Genomes|Genetics, Volume 10, Issue 10, 1 October 2020, Pages 3549–3555,URL: Link To PubMed |
| Fusarium oxysporum f. sp. lycopersici 4287 | Fol4287 | - | 19 | 55.6Mb | 44 | 44 | 4.1 Mb | 4.1 Mb | 17932 | NCBI | Like Fokkens, Li Guo, Susanne Dora, Bo Wang, Kai Ye, Clara Sánchez-Rodríguez, Daniel Croll, A Chromosome-Scale Genome Assembly for the Fusarium oxysporum Strain Fo5176 To Establish a Model Arabidopsis-Fungal Pathosystem, G3 Genes|Genomes|Genetics, Volume 10, Issue 10, 1 October 2020, Pages 3549–3555,URL: Link To PubMed |
| Fusarium oxysporum f. sp. basilici Amherst-72 v1.0 | Fob72 | - | - | 58.12Mb | 56 | 56 | - | 6Mb | 18933 | JGI | - |
| Fusarium oxysporum f. sp. vasinfectum Tm2 | FovTm2 | - | - | 61.1 Mb | 16 | 16 | - | 4.7Mb | 17844 | NCBI | Jobe TO, Ulloa M, Ellis ML. A high-quality whole-genome sequence, assembly, and gene annotation of Fusarium oxysporum f. sp. vasinfectum (Fov) race 1 from California. Microbiol Resour Announc. 2024 Jan 17;13(1):e0070223. doi: 10.1128/mra.00702-23. Epub 2023 Dec 15. PMID: 38099678; PMCID: PMC10793304. URL: Link To PubMed |
| Fusarium oxysporum f. sp. vasinfectum 15-2J | Fov15-2J | - | - | 64.5 Mb | 18 | 18 | - | 4.4Mb | 18377 | NCBI | Jobe TO, Ulloa M, Ellis ML. A high-quality whole-genome sequence, assembly, and gene annotation of Fusarium oxysporum f. sp. vasinfectum (Fov) race 1 from California. Microbiol Resour Announc. 2024 Jan 17;13(1):e0070223. doi: 10.1128/mra.00702-23. Epub 2023 Dec 15. PMID: 38099678; PMCID: PMC10793304. URL: Link To PubMed |
| Fusarium oxysporum f. sp. vasinfectum ME23 | FovME23 | - | - | 49.9 Mb | 13 | 13 | 4.9Mb | 4.9Mb | 16610 | NCBI | Jobe TO, Ulloa M, Ellis ML. A high-quality whole-genome sequence, assembly, and gene annotation of Fusarium oxysporum f. sp. vasinfectum (Fov) race 1 from California. Microbiol Resour Announc. 2024 Jan 17;13(1):e0070223. doi: 10.1128/mra.00702-23. Epub 2023 Dec 15. PMID: 38099678; PMCID: PMC10793304. URL: Link To PubMed |
