De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes

…, N Manchanda, SJ Snodgrass, DE Hufnagel… - Science, 2021 - science.org
de novo genome assemblies, transcriptomes, annotations, and methylomes for the 26 inbreds
that serve as the founders for the maize … of pan-genes in these diverse genomes exceeds …

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
… through assembly and comparative analyses of high-quality genome of 12 key FILs of various
… and annotation of high-quality genomes for 26 NAM founder lines 30 , should not only …

Genome assembly and population genomic analysis provide insights into the evolution of modern sweet corn

Y Hu, V Colantonio, BSF Müller, KA Leach… - Nature …, 2021 - nature.com
… Here, we present a de novo assembly of a sweet corn inbred … six field corn genomes was
defined using OrthoMCL 26 . We … genes using pairwise comparative analysis of the sweet corn

Comparative Genomics of Maize: Insights into Evolution and Function

J Zhou, M Xu - Maize Genomics and Genetics, 2024 - cropscipublisher.com
… In comparative maize genomics, various types of genomic … in both contig length and
annotation quality, with over 130 000 … Comparative analyses using RNA-Seq data have revealed …

Genome assembly of a tropical maize inbred line provides insights into structural variation and crop improvement

N Yang, J Liu, Q Gao, S Gui, LU Chen, L Yang… - Nature …, 2019 - nature.com
… based on comparative analysis of several high-quality great ape … To perform a de novo
assembly of the SK genome, we … data for RNA polymerase II 26 to the SK genome assembly, and …

De novo transcriptome assembly from the nodal root growth zone of hydrated and water-deficit stressed maize inbred line FR697

S Sen, SK King, T McCubbin, LA Greeley, RA Mertz… - Scientific Reports, 2023 - nature.com
… reference genome, enabling various comparative studies with … (plants) along with AUGUSTUS
26 species “maize”, and the … an annotated de novo transcriptome assembly resource to …

Chromosome-level genome assembly of a regenerable maize inbred line A188

G Lin, C He, J Zheng, DH Koo, H Le, H Zheng… - Genome biology, 2021 - Springer
… by FISH [25, 26], supporting the large-scale correctness of A188Ref1. … The Maker genome
annotation resulted in 40,747 high-… Transcriptomic data were generated for 11 diverse tissues …

Gapless assembly of maize chromosomes using long-read technologies

…, N Manchanda, GG Presting, DA Kudrna… - Genome Biology, 2020 - Springer
diversity is important for the continued improvement of maize, … [25], followed by running the
assembly tool Pilon [26] (v1.22) … sequence assemblies, the availability of de novo assembled

[HTML][HTML] Genome assembly of KA105, a new resource for maize molecular breeding and genomic research

T Li, S Xu, J Zhao, Y Wang, J Zhang, X Wei, J Qu, R Yu… - The Crop Journal, 2023 - Elsevier
… The high-quality genome assemblies of 26 diverse parents … A de novo repeat library in
KA105 was constructed with … Gene annotation of the KA105 genome was performed with a …

De novo assembly of soybean wild relatives for pan-genome analysis of diversity and agronomic traits

Y Li, G Zhou, J Ma, W Jiang, L Jin, Z Zhang… - Nature …, 2014 - nature.com
… of variation and comparative analyses within genic regions. … difficulties in genome assembly
and annotation to deal with … such as maize would have a larger dispensable genome than …