Super-pangenome analyses highlight genomic diversity and structural variation across wild and cultivated tomato species
Effective utilization of wild relatives is key to overcoming challenges in genetic improvement
of cultivated tomato, which has a narrow genetic basis; however, current efforts to decipher …
of cultivated tomato, which has a narrow genetic basis; however, current efforts to decipher …
A complete telomere-to-telomere assembly of the maize genome
J Chen, Z Wang, K Tan, W Huang, J Shi, T Li, J Hu… - Nature …, 2023 - nature.com
A complete telomere-to-telomere (T2T) finished genome has been the long pursuit of
genomic research. Through generating deep coverage ultralong Oxford Nanopore …
genomic research. Through generating deep coverage ultralong Oxford Nanopore …
Protein-to-genome alignment with miniprot
H Li - Bioinformatics, 2023 - academic.oup.com
Motivation Protein-to-genome alignment is critical to annotating genes in non-model
organisms. While there are a few tools for this purpose, all of them were developed over 10 …
organisms. While there are a few tools for this purpose, all of them were developed over 10 …
Dual domestications and origin of traits in grapevine evolution
Y Dong, S Duan, Q Xia, Z Liang, X Dong, K Margaryan… - Science, 2023 - science.org
We elucidate grapevine evolution and domestication histories with 3525 cultivated and wild
accessions worldwide. In the Pleistocene, harsh climate drove the separation of wild grape …
accessions worldwide. In the Pleistocene, harsh climate drove the separation of wild grape …
Pangenome analysis provides insight into the evolution of the orange subfamily and a key gene for citric acid accumulation in citrus fruits
Y Huang, J He, Y Xu, W Zheng, S Wang, P Chen… - Nature …, 2023 - nature.com
The orange subfamily (Aurantioideae) contains several Citrus species cultivated worldwide,
such as sweet orange and lemon. The origin of Citrus species has long been debated and …
such as sweet orange and lemon. The origin of Citrus species has long been debated and …
Pangenomic analysis identifies structural variation associated with heat tolerance in pearl millet
Pearl millet is an important cereal crop worldwide and shows superior heat tolerance. Here,
we developed a graph-based pan-genome by assembling ten chromosomal genomes with …
we developed a graph-based pan-genome by assembling ten chromosomal genomes with …
De novo genome assembly and analyses of 12 founder inbred lines provide insights into maize heterosis
B Wang, M Hou, J Shi, L Ku, W Song, C Li, Q Ning… - Nature Genetics, 2023 - nature.com
Hybrid maize displays superior heterosis and contributes over 30% of total worldwide cereal
production. However, the molecular mechanisms of heterosis remain obscure. Here we …
production. However, the molecular mechanisms of heterosis remain obscure. Here we …
Evolutionary analysis of a complete chicken genome
Z Huang, Z Xu, H Bai, Y Huang… - Proceedings of the …, 2023 - National Acad Sciences
Microchromosomes are prevalent in nonmammalian vertebrates [PD Waters et al., Proc.
Natl. Acad. Sci. USA 118 (2021)], but a few of them are missing in bird genome assemblies …
Natl. Acad. Sci. USA 118 (2021)], but a few of them are missing in bird genome assemblies …
Analyses of a chromosome-scale genome assembly reveal the origin and evolution of cultivated chrysanthemum
Abstract Chrysanthemum (Chrysanthemum morifolium Ramat.) is a globally important
ornamental plant with great economic, cultural, and symbolic value. However, research on …
ornamental plant with great economic, cultural, and symbolic value. However, research on …
Solanum americanum genome-assisted discovery of immune receptors that detect potato late blight pathogen effectors
Potato (Solanum tuberosum) and tomato (Solanum lycopersicon) crops suffer severe losses
to late blight caused by the oomycete pathogen Phytophthora infestans. Solanum …
to late blight caused by the oomycete pathogen Phytophthora infestans. Solanum …