This refers to the databases of genomes and transcriptomes (RNAseq) sequenced by the INCT Citrus group.
These databases are related to the genetics of these organisms, as well as to the understanding of the relationships between them, particularly in the processes that lead to diseases.
Access
Use the search field to quickly find the terms you searched for.
Click on the column headers to rearrange the presentation of the content.
| Specie | Strain/Variety | Genome | Transcriptome | Sequencing Methodology | Coverage | DB local | DB NCBI | Goals | Reference |
|---|---|---|---|---|---|---|---|---|---|
| Alternaria alternata | no | yes | Illumina MiSeq | 590x | yes | no | Unpublished | ||
| Brevipalpus yothersi | yes | no | Roche (454 GS FLX_) + Illumina (MiSeq) | 42x | no | PRJNA490612 | Full genome | Microbiol Res Announc 8:e01563-18 | |
| Colletotrichum abscissum | Ca142/LGMF1257 | yes | no | Illumina MiSeq | 210x | yes | PRJNA516018 | Comparison between genomes | Phytopathology 2022 |
| Phyllosticat capitalensis | LGMF 01 | yes | yes | Illumina MiSeq | 490x | yes | no | Comparison between genomes | Unpublished |
| Phyllosticata citribraziliensis | LGMF 08 | yes | yes | Illumina MiSeq | 787x | yes | no | Comparison between genomes | Unpublished |
| Phyllosticta capitalensis | LGMF01 | yes | no | Illumina HiSeq | 700x | yes | PRJNA486917 | Comparison between genomes | BMC Genomics 20: 554, 2019 |
| Phyllosticta citricarpa | LGMF06 | yes | no | Illumina HiSeq | 850 x | yes | PRJNA486917 | Comparison between genomes | BMC Genomics 20: 554, 2019 |
| Phyllosticta citricarpa | LGMF 06 | yes | yes | Illumina MiSeq | 484x | yes | no | Comparison between genomes and associated effectors | Unpublished |
| Phytophthora parasitica | IAC_01/95 | yes | no | Illumina | 116x | no | PRJNA205153 | Comparison between genomes | Unpublished |
| Xylella fastidiosa | Several | yes | no | Illumina MiSeq | 81x | no | PRJNA266001 | Comparison between genomes | Phytopathology 2020 |
| Arabidopsis thaliana | Col-0 | no | yes | Illumina HiSeq | - | yes | PRJNA454529 | Arabidopsis/Brevipalpus mite/CiLV-C interaction | Frontiers in Plant Science 9: 1, 2018 and 11: 1, 2020. |
| Poncirus trifoliata | Rubidoux IAC 835 | yes | no | Roche Pyrosequencing | 5x | yes | no | Full genome | Unpublished |
| no | yes | Illumina HiSeq | - | yes | no | miRNA in the interaction with Phytophtora parasitica | Unpublished | ||
| Citrus reticulata | Ponkan IAC 224 | yes | no | Roche Pyrosequencing | 5x | yes | no | Full genome | Unpublished |
| Illumina GA II and Hiseq | 230x | yes | no | Full genome | Unpublished | ||||
| Citrus medica | Cidra Diamante IAC 689 | yes | no | Illumina GA II and Hiseq | 145x | yes | no | Full genome | Unpublished |
| Citrus limonia | Limão Cravo Santa Bárbara IAC 884 | yes | no | Roche Pyrosequencing | 5x | yes | no | Full genome | Unpublished |
| Illumina GA II and Hiseq | 140x | yes | no | Full genome | Unpublished | ||||
| Citrus sinensis | Laranja Pera Rio IAC 154 | yes | no | Illumina GA II and Hiseq | 107x | yes | no | Full genome | Unpublished |
| no | yes | Microarray Niblegen | yes | yes | PRJNA176233 | Sweet orange infected with Ca. L. americanus | BMC Genomics 14, 2013 | ||
| no | yes | Illumina HiSeq | yes | yes | PRJNA261357 | Sweet orange and elicitors | BMC Genomics 16, 2015 | ||
| yes | yes | Illumina HiSeq | Juvenile tissue | In preparation | |||||
| yes | yes | Illumina HiSeq | Adult tissue | In preparation | |||||
| Laranja Hamlin IAC 8 | yes | yes | Illumina HiSeq | Juvenile tissue | In preparation | ||||
| Illumina HiSeq | Full genome | In preparation | |||||||
| yes | yes | Illumina HiSeq | Adult tissue | In preparation | |||||
| Citrus sunki | Tangerina Sunki IAC 200 | no | yes | Illumina HiSeq | - | yes | no | miRNA in the interaction with Phytophtora parasitica | Unpublished |
| Citrus maxima | Toranja Ogami IAC 361 | yes | no | Illumina GA II and Hiseq | 232x | yes | no | Full genome | Unpublished |