As you probably know, in Greek mythology, the Persephone story has something to do with the pomegranate seeds. So, we are especially pleased to work with Punica granatum. We added two genomes: ASM765513v2 assembled into chromosomes and Bhagwa which contains...
Two genomes of Cenchrus americanus (pearl millet) sequenced at KAUST have been added to our collection. These are 29Aw and P10 varieties. Each map set has a number of annotation tracks with gene models, protein matches and iso-seq data. ...
We have loaded three genomes for blueberry species (Vaccinium corymbosum and Vaccinium darrowii).There are two haploid Vaccinium darrowii genomes (pri and alt). Only one of them (pri) has gene annotation. To align the two genomes, we have created artificial marker...
Encouraged by communication with the scientists at the Plant and Animal Genome conference, we loaded another large genome (Avena sativa ,11 Gbp) to the Persephone portal. The version PepsiCo v2 OT3098 was downloaded from GrainGenes. Currently, the tracks with gene...
The International Weed Genomics Consortium (IWGC) provides a platform for private and public collaboration to develop genomic tools and resources and to stimulate global research in weed biology and management. With their help, we picked 14 most popular weed genomes...
Our collection of coffee genomes has got another entry: Coffea canephora (DH200-94). All four coffee genomes are cross-linked by using the ortholog gene pairs. Chromosome 1 for four Coffea genomes: C. humblotiana, C. eugenioides, C. canehora, and C. arabica. The...
We have added three genomes of Echinochloa grasses. These are weeds known by the common names barnyard grass or corn panic grass. In particular, the species are: Echinochloa oryzicola (late barnyard grass), Echinochloa crusgalli (cockspur (or cockspur grass), barnyard millet, Japanese millet, water grass, common barnyard grass) and Echinochloa...
We have expanded our collection by adding four Brassica genomes: Brassica rapa Fpc_v1.3, Brassica rapa Chiifu v3.5, Brassica oleracea v1.0, and Brassica napus Da-Ae. As usual, aligning chromosomes from different species using Persephone illustrates the structural rearrangements between the organisms....
Our system at https://web.persephonesoft.com has a couple of newly added cocoa genomes:Theobroma cacao (Criollo v2)Theobroma cacao (Matina v2) Comparing the cocoa genomes to the ones for coffee by using orthologous gene pairs reveals significant synteny. Synteny between chromosome 4 of cacao and...
We added genomes from the Drosophila genus: D.melanogaster, D.simulans, and D.yakuba. For now, the sequences are annotated using RefSeq gene models from NCBI. Aligning and comparing the genomic sequences by the ortholog genes reveals clear structural rearrangements. Synteny matrix comparing two full...