To decipher the genetic diversity within the cucurbit genusCitrullus, we generated telomere-to-telomere (T2T) assemblies of 27 distinct genotypes, encompassing all sevenCitrullusspecies. This T2T super-pangenome has expanded the previously published reference genome, T2T-G42, by adding 399.2 Mb an...
Chickpea (Cicer arietinumL.)—an important legume crop cultivated in arid and semiarid regions—has limited genetic diversity. Efforts are being undertaken to broaden its diversity by utilizing its wild relatives, which remain largely unexplored. Here, we present theCicersuper-pangenome based on the...
The genomic data of several kiwifruit species have been released, providing an unprecedented opportunity for pan-genome analysis to comprehensively investigate the inter- and intra-species genetic diversity and facilitate utilization for kiwifruit breeding. Here, we generated a kiwifruit super pan-genome ...
CHONGQING, Oct. 14 (Xinhua) -- A Chinese research team has completed the genome analysis of silkworm germplasm resources on a large scale and drawn the world's first super pan-genome map of the silkworm, said Southwest University. The study was recently published in the journal Nature Communic...
Here, we describe a reference-unbiased super-pangenome of North American wild grapes in the genusVitiswith as a main objective to identify and analyze the interspecific genetic variability. To build the super-pangenome, we first sequenced and assembled diploid, chromosome-scaled genomes from nine ...
To decipher the genetic diversity within the cucurbit genus Citrullus, we generated telomere-to-telomere (T2T) assemblies of 27 distinct genotypes, encompassing all seven Citrullus species. This T2T super-pangenome has expanded the previously published r
Genome to Pangenome: A Paradigm Shift SVs Drive the Dispensable Genome Pangenome Development: Approaches and Critical Factors Walking on the Wild Side by Exploiting CWRs Current Status of the Pangenome in Crop Plants Super-Pangenome: A Way Forward Concluding Remarks Acknowledgments Supplemental Informat...
SuperPang.py --fasta <genome1.fasta> <genome2.fasta> <genomeN.fasta> --checkm <check_results> --output-dir Input files and choice of parametersThe input genomes can be genomes from isolates, MAGs (Metagenome-Assembled Genomes) or SAGs (Single-cell Assembled Genomes). The input genomes can...
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By compiling these haplotype genomes, we constructed a super pan-genome for the genus. We identified numerous structural variations (SVs, including variations in gene copy number) and highly diverged regions in these genomes. Notably, significant SV variability was observed within the intronic regions...