TSTD : Tomato Symbiotic Transcriptome Database







Welcome to TSTD

TSTD is a tomato arbuscular mycorrhizal symbiotic database. The database not only collects the expression data of protein-coding genes and non-coding genes from AMF colonized and not colonized tomato roots, but also provides the orthologs of tomato protein-coding genes in 15 other plants from basal angiosperm, dicot, monocot, magnoliids and Ceratophyllum lineages. The expression data of tomato orthologous genes from seven other AMS hosts were also included in the database to assistant online comparative analysis and finding cross-species conserved AMS-induced genes.


Map


If you have any questions about TSTD, please do not hesitate to contact Professor Zhu-Qing Shao or Professor Jian-Qun Chen: zhuqingshao@nju.edu.cn (Z.Q.S.) and chenjq@nju.edu.cn (J.Q.C.)



Cite us

Zeng Z, Liu Y, Feng XY, Li SX, Jiang XM, Chen JQ, Shao ZQ. The RNAome landscape of tomato during arbuscular mycorrhizal symbiosis reveals an evolving RNA layer symbiotic regulatory network. Plant Communications. 2023;4(1):100429. doi: https://doi.org/10.1016/j.xplc.2022.100429


Protein Coding Gene

The information of the protein coding gene in Solanum lycopersicum :

Note that the column 2 to 5 listed Log2 fold change of tomato gene expression between symbiotic and nonsymbiotic tomato roots determined by four publications, (*) represents P value < 0.05, while (ns) represents no significant expression difference.




MiRNA

The information of the miRNA (microRNA) in Solanum lycopersicum :




LncRNA

The information of the lncRNA (long non-coding RNA) in Solanum lycopersicum :




CircRNA

The information of the cirRNA (circular RNA) in Solanum lycopersicum :




Blast

Blast your protein sequences with Solanum lycopersicum protein database:






Ortholog Search

Search gene's orthologs across 16 angiosperms and their AMS-induced expression alteration:











Conserved symbiotic OG

Choose species to get their shared AMS-induced OG (orthologous group):







Batch download

Download datasets of our research:

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Source

Database link uesd in this research:


Species Transcriptome data Database Link of Genome and Proteome
Solanum lycopersicum https://doi.org/10.1016/j.xplc.2022.100429 https://phytozome-next.jgi.doe.gov/
https://doi.org/10.1080/00380768.2017.1280378
https://doi.org/10.3390/plants11060747
https://doi.org/10.3389/fpls.2019.00268
Citrus trifoliata https://doi.org/10.1093/jxb/ery283 http://citrus.hzau.edu.cn/
Helianthus annuus https://doi.org/10.1038/s41598-017-18445-0 https://www.heliagene.org/HanXRQ-SUNRISE/
Lotus japonicus https://doi.org/10.1093/pcp/pcv071 ftp://ftp.kazusa.or.jp/pub/lotus/lotus_r2.5/
Medicago truncatula https://doi.org/10.1126/science.aan0081 https://phytozome-next.jgi.doe.gov/
Oryza sativa https://doi.org/10.1038/s41467-022-27976-8 http://rice.plantbiology.msu.edu/pub/data/Eukaryotic_Projects/o_sativa/annotation_dbs/pseudomolecules/version_7.0/all.dir/
Populus trichocarpa https://doi.org/10.1093/pcp/pcx044 https://phytozome-next.jgi.doe.gov/
Zea mays https://doi.org/10.3390/ijms20184491 https://phytozome-next.jgi.doe.gov/
Amborella trichopoda   https://phytozome-next.jgi.doe.gov/
Arabidopsis thaliana   https://phytozome-next.jgi.doe.gov/
Beta vulgaris   http://bvseq.molgen.mpg.de/index.shtml
Ceratophyllum demersum   https://genomevolution.org/CoGe/GenomeInfo.pl?gid=56572
Liriodendron chinense   https://hardwoodgenomics.org/Genome-assembly/2630420
Nelumbo nucifera   https://genomevolution.org/CoGe/SearchResults.pl?s=Nelumbo%20nucifera&p=genome
Phalaenopsis equestris   ftp://ftp.genomics.org.cn/from_BGISZ/20130120/
Spirodela polyrhiza   https://phytozome-next.jgi.doe.gov/